Haloarcula marismortui (DSM 3752, ATCC 43049, Halobacterium of the Dead Sea)

Name: Haloarcula marismortui (DSM 3752, ATCC 43049, Halobacterium of the Dead Sea)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5904

Type strain

Strain Designation Halobacterium of the Dead Sea, Halobacterium of the Dead Sea

Culture col. no. DSM 3752 ATCC 43049 Halobacterium of the Dead Sea JCM 8966 NCIMB 13162 2 more

NCBI tax ID(s) 272569 2238

Special Collections DSMZ JCM

History <- B.J. Tindall <- M. Ginzburg ("Halobacterium marismortui", "Halobacterium of the Dead Sea") ATCC 43049 <-- L. Hochstein <-- B. J. Tindall <-- M. Ginzburg.

Links

Haloarcula marismortui Halobacterium of the Dead Sea is a mesophilic prokaryote of the family Haloarculaceae.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 41617

ATCC 43049,DSM 3752,JCM 8966,NCIMB 13162,VKM B-1809,CGMCC 1.1784

@ref 20215

Last LPSN update 2026-02-09 11:19:05

Domain Archaea

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Haloarculaceae

Genus Haloarcula

Species Haloarcula marismortui

Full scientific name Haloarcula marismortui (ex Volcani 1940) Oren et al. 1990

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	95.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
1463	HALOBACTERIA MEDIUM (DSMZ Medium 372)		Medium recipe at MediaDive	Name: HALOBACTERIA MEDIUM (DSMZ Medium 372) Composition: NaCl 200.0 g/l MgSO4 x 7 H2O 20.0 g/l Agar 20.0 g/l Yeast extract 5.0 g/l Casamino acids 5.0 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l Na glutamate 1.0 g/l FeCl2 x 4 H2O 0.036 g/l MnCl2 x 4 H2O 0.00036 g/l Distilled water
1463	HALOBACTERIUM MEDIUM (DSMZ Medium 97)		Medium recipe at MediaDive	Name: HALOBACTERIUM MEDIUM (DSMZ Medium 97) Composition: NaCl 250.0 g/l Agar 20.0 g/l MgSO4 x 7 H2O 20.0 g/l Yeast extract 10.0 g/l Casamino acids 7.5 g/l Na3-citrate 3.0 g/l KCl 2.0 g/l FeSO4 x 7 H2O 0.05 g/l MnSO4 x H2O 0.0002 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
1463	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	93.1

Spore formation

@ref	Spore formation	Confidence
125439		93.3

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	sulfopterin metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	formaldehyde oxidation	100	3 of 3
66794	isoleucine metabolism	100	8 of 8
66794	methylglyoxal degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	factor 420 biosynthesis	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	glycine betaine biosynthesis	100	5 of 5
66794	lipoate biosynthesis	100	5 of 5
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	vitamin K metabolism	100	5 of 5
66794	starch degradation	90	9 of 10
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	palmitate biosynthesis	86.36	19 of 22
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	vitamin B1 metabolism	84.62	11 of 13
66794	pantothenate biosynthesis	83.33	5 of 6
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	Entner Doudoroff pathway	80	8 of 10
66794	purine metabolism	79.79	75 of 94
66794	valine metabolism	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	acetate fermentation	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	biotin biosynthesis	75	3 of 4
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	vitamin B12 metabolism	73.53	25 of 34
66794	pyrimidine metabolism	73.33	33 of 45
66794	alanine metabolism	72.41	21 of 29
66794	NAD metabolism	72.22	13 of 18
66794	photosynthesis	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	propionate fermentation	70	7 of 10
66794	threonine metabolism	70	7 of 10
66794	leucine metabolism	69.23	9 of 13
66794	histidine metabolism	68.97	20 of 29
66794	non-pathway related	68.42	26 of 38
66794	lipid metabolism	67.74	21 of 31
66794	serine metabolism	66.67	6 of 9
66794	nitrate assimilation	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	cyanate degradation	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	citric acid cycle	64.29	9 of 14
66794	glutathione metabolism	64.29	9 of 14
66794	lysine metabolism	64.29	27 of 42
66794	metabolism of disaccharids	63.64	7 of 11
66794	proline metabolism	63.64	7 of 11
66794	oxidative phosphorylation	62.64	57 of 91
66794	ketogluconate metabolism	62.5	5 of 8
66794	methionine metabolism	61.54	16 of 26
66794	myo-inositol biosynthesis	60	6 of 10
66794	3-chlorocatechol degradation	60	3 of 5
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	cellulose degradation	60	3 of 5
66794	tryptophan metabolism	57.89	22 of 38
66794	propanol degradation	57.14	4 of 7
66794	heme metabolism	57.14	8 of 14
66794	degradation of sugar alcohols	56.25	9 of 16
66794	cysteine metabolism	55.56	10 of 18
66794	pentose phosphate pathway	54.55	6 of 11
66794	d-xylose degradation	54.55	6 of 11
66794	degradation of sugar acids	52	13 of 25
66794	tyrosine metabolism	50	7 of 14
66794	selenocysteine biosynthesis	50	3 of 6
66794	ethanol fermentation	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	degradation of hexoses	50	9 of 18
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	phenylmercury acetate degradation	50	1 of 2
66794	carotenoid biosynthesis	50	11 of 22
66794	degradation of pentoses	50	14 of 28
66794	butanoate fermentation	50	2 of 4
66794	resorcinol degradation	50	1 of 2
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	polyamine pathway	47.83	11 of 23
66794	sulfate reduction	46.15	6 of 13
66794	urea cycle	46.15	6 of 13
66794	phenol degradation	45	9 of 20
66794	lipid A biosynthesis	44.44	4 of 9
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	mevalonate metabolism	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	arachidonic acid metabolism	38.89	7 of 18
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	IAA biosynthesis	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	methanogenesis from CO2	33.33	4 of 12
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	vitamin B6 metabolism	27.27	3 of 11
66794	peptidoglycan biosynthesis	26.67	4 of 15
66794	ppGpp biosynthesis	25	1 of 4
66794	CMP-KDO biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	chlorophyll metabolism	22.22	4 of 18

Isolation, sampling and environmental information

Isolation

@ref	Geographic location	Sample type
1463	Dead Sea
67770		Water from the Dead Sea

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1463	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1108v1 assembly for Haloarcula marismortui ATCC 43049	complete	GCA_000011085	272569.17	638154503	272569	97.33
66792	ASM531094v1 assembly for Haloarcula marismortui ATCC 43049	complete	GCA_005310945	272569.39	2914888634	272569	92.35

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	H. marismortui rrnA gene for HC8 16S rRNA	X61688	1472	2238
20218	Haloarcula marismortui rrnB gene for 16S rRNA HH10	X61689	1472	2238
20218	Haloarcula marismortui strain CGMCC1.1784 16S ribosomal RNA (rrnA) gene, complete sequence	EF645692	1472	2238
20218	Haloarcula marismortui gene for 16S ribosomal RNA, partial sequence, strain: JCM 8966	AB355987	1472	2238
20218	Haloarcula marismortui gene for 16S rRNA, complete sequence, strain: JCM 8966	AB663354	1472	2238
1463	Haloarcula marismortui strain CGMCC1.1784 16S ribosomal RNA (rrnB) gene, complete sequence	EF645693	1472	2238
124043	Haloarcula marismortui ATCC 43049 partial 16S rRNA gene, strain JC584, isolate V-225	LT986729	629	272569

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Haloarcula marismortui ATCC 43049
NCBI: GCA_000011085

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	93.30	no
125439	motility	BacteriaNetⓘ	yes	63.20	no
125439	gram_stain	BacteriaNetⓘ	negative	95.50	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	93.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Haloarcula marismortui ATCC 43049 ATCC 43049
NCBI: GCA_000011085.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	78.08	no
125438	anaerobic	anaerobicⓘ	no	81.63	no
125438	aerobic	aerobicⓘ	yes	80.73	no
125438	spore-forming	spore-formingⓘ	no	84.00	no
125438	thermophilic	thermophileⓘ	no	81.71	yes
125438	flagellated	motile2+ⓘ	no	83.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	d-Ribose Catabolism in Archaea: Discovery of a Novel Oxidative Pathway in Haloarcula Species.	Johnsen U, Sutter JM, Reinhardt A, Pickl A, Wang R, Xiang H, Schonheit P.	J Bacteriol	10.1128/jb.00608-19	2020
	Spectral tuning in sensory rhodopsin I from Salinibacter ruber.	Sudo Y, Yuasa Y, Shibata J, Suzuki D, Homma M.	J Biol Chem	10.1074/jbc.m110.187948	2011
Enzymology	Novel xylose dehydrogenase in the halophilic archaeon Haloarcula marismortui.	Johnsen U, Schonheit P.	J Bacteriol	10.1128/jb.186.18.6198-6207.2004	2004
Metabolism	Structural basis for conductance through TRIC cation channels.	Su M, Gao F, Yuan Q, Mao Y, Li DL, Guo Y, Yang C, Wang XH, Bruni R, Kloss B, Zhao H, Zeng Y, Zhang FB, Marks AR, Hendrickson WA, Chen YH.	Nat Commun	10.1038/ncomms15103	2017
	A Proposal of the Ur-RNAome.	Palacios-Perez M, Jose MV.	Genes (Basel)	10.3390/genes14122158	2023
	Methylomes of Two Extremely Halophilic Archaea Species, Haloarcula marismortui and Haloferax mediterranei.	DasSarma S, Fomenkov A, DasSarma SL, Vincze T, DasSarma P, Roberts RJ.	Microbiol Resour Announc	10.1128/mra.00577-19	2019
Biotechnology	Toward Sustainable Polyhydroxyalkanoates: A Next-Gen Biotechnology Approach.	Kalia VC, Singh RV, Gong C, Lee JK.	Polymers (Basel)	10.3390/polym17070853	2025
	Unraveling Anaerobic Metabolisms in a Hypersaline Sediment.	Solchaga JI, Busalmen JP, Nercessian D.	Front Microbiol	10.3389/fmicb.2022.811432	2022
	Halocin H4 is activated through cleavage by halolysin HlyR4.	Chen S, Dai Y, Ke J, Luo Y, Wang C, Hao Y, Zhang A, Han J, Xiang H.	Appl Environ Microbiol	10.1128/aem.02284-23	2024
	A virus-borne DNA damage signaling pathway controls the lysogeny-induction switch in a group of temperate pleolipoviruses.	Chen Z, Liu Y, Wang Y, Du X, Deng X, Xiang J, Wang Y, Wang J, Krupovic M, Du S, Chen X.	Nucleic Acids Res	10.1093/nar/gkad125	2023
Metabolism	Salt-dependent regulation of archaellins in Haloarcula marismortui.	Syutkin AS, van Wolferen M, Surin AK, Albers SV, Pyatibratov MG, Fedorov OV, Quax TEF.	Microbiologyopen	10.1002/mbo3.718	2019
Metabolism	Divergent degeneration of creA antitoxin genes from minimal CRISPRs and the convergent strategy of tRNA-sequestering CreT toxins.	Cheng F, Wang R, Yu H, Liu C, Yang J, Xiang H, Li M.	Nucleic Acids Res	10.1093/nar/gkab821	2021
Metabolism	Net Charges of the Ribosomal Proteins of the S10 and spc Clusters of Halophiles Are Inversely Related to the Degree of Halotolerance.	Tirumalai MR, Anane-Bediakoh D, Rajesh S, Fox GE.	Microbiol Spectr	10.1128/spectrum.01782-21	2021
	Production of Poly(3-Hydroxybutyrate) by Haloarcula, Halorubrum, and Natrinema Haloarchaeal Genera Using Starch as a Carbon Source.	Karray F, Ben Abdallah M, Baccar N, Zaghden H, Sayadi S.	Archaea	10.1155/2021/8888712	2021
	Differential Gene Expression in Response to Salinity and Temperature in a Haloarcula Strain from Great Salt Lake, Utah.	Almeida-Dalmet S, Litchfield CD, Gillevet P, Baxter BK.	Genes (Basel)	10.3390/genes9010052	2018
Metabolism	Biology and survival of extremely halophilic archaeon Haloarcula marismortui RR12 isolated from Mumbai salterns, India in response to salinity stress.	Thombre RS, Shinde VD, Oke RS, Dhar SK, Shouche YS.	Sci Rep	10.1038/srep25642	2016
Phylogeny	Diversity of the Tryptophanase Gene and Its Evolutionary Implications in Living Organisms.	Boya BR, Kumar P, Lee JH, Lee J.	Microorganisms	10.3390/microorganisms9102156	2021
Genetics	Genome sequence of carboxylesterase, carboxylase and xylose isomerase producing alkaliphilic haloarchaeon Haloterrigena turkmenica WANU15.	Selim S, Hagagy N.	Genom Data	10.1016/j.gdata.2015.11.031	2016
Genetics	Draft Genome Sequence of an Extreme Haloarchaeon 3A1-DGR Isolated from a Saltern Crystallizer of the Little Rann of Kutch, India.	Pal KK, Dey R, Thomas M, Ghorai S, Sherathia D, Vanpariya S, Rupapara R, Rawal P, Mandaliya M, Sukhadiya B, Saxena AK.	Indian J Microbiol	10.1007/s12088-014-0483-7	2014
Metabolism	Molecular characterization of the phaECHm genes, required for biosynthesis of poly(3-hydroxybutyrate) in the extremely halophilic archaeon Haloarcula marismortui.	Han J, Lu Q, Zhou L, Zhou J, Xiang H.	Appl Environ Microbiol	10.1128/aem.00953-07	2007
	Non-essential ribosomal proteins in bacteria and archaea identified using COGs.	Galperin MY, Wolf YI, Garushyants SK, Vera Alvarez R, Koonin EV.	J Bacteriol	10.1128/jb.00058-21	2021
Enzymology	Rapid identification of haloarchaea and methanoarchaea using the matrix assisted laser desorption/ionization time-of-flight mass spectrometry.	Shih CJ, Chen SC, Weng CY, Lai MC, Yang YL.	Sci Rep	10.1038/srep16326	2015
Enzymology	Solution behavior and activity of a halophilic esterase under high salt concentration.	Rao L, Zhao X, Pan F, Li Y, Xue Y, Ma Y, Lu JR.	PLoS One	10.1371/journal.pone.0006980	2009
	Complete genome sequence of 'Halanaeroarchaeum sulfurireducens' M27-SA2, a sulfur-reducing and acetate-oxidizing haloarchaeon from the deep-sea hypersaline anoxic lake Medee.	Messina E, Sorokin DY, Kublanov IV, Toshchakov S, Lopatina A, Arcadi E, Smedile F, La Spada G, La Cono V, Yakimov MM.	Stand Genomic Sci	10.1186/s40793-016-0155-9	2016
Stress	HtrAs are essential for the survival of the haloarchaeon Natrinema gari J7-2 in response to heat, high salinity, and toxic substances.	Luo H, Qu X, Deng X, He L, Wu Y, Liu Y, He D, Yin J, Wang B, Gan F, Tang B, Tang X-F.	Appl Environ Microbiol	10.1128/aem.02048-23	2024
Metabolism	Environmental Pressure May Change the Composition Protein Disorder in Prokaryotes.	Vicedo E, Schlessinger A, Rost B.	PLoS One	10.1371/journal.pone.0133990	2015
Genetics	GenomeFingerprinter: the genome fingerprint and the universal genome fingerprint analysis for systematic comparative genomics.	Ai Y, Ai H, Meng F, Zhao L.	PLoS One	10.1371/journal.pone.0077912	2013
	Algorithms of ancestral gene length reconstruction.	Bolshoy A, Kirzhner VM.	Biomed Res Int	10.1155/2013/472163	2013
Metabolism	The core and unique proteins of haloarchaea.	Capes MD, DasSarma P, DasSarma S.	BMC Genomics	10.1186/1471-2164-13-39	2012
Phylogeny	Lipids of the ultra-thin square halophilic archaeon Haloquadratum walsbyi.	Lobasso S, Lopalco P, Mascolo G, Corcelli A.	Archaea	10.1155/2008/870191	2008
Transcriptome	Sequencing of seven haloarchaeal genomes reveals patterns of genomic flux.	Lynch EA, Langille MG, Darling A, Wilbanks EG, Haltiner C, Shao KS, Starr MO, Teiling C, Harkins TT, Edwards RA, Eisen JA, Facciotti MT.	PLoS One	10.1371/journal.pone.0041389	2012
Metabolism	A Large and Phylogenetically Diverse Class of Type 1 Opsins Lacking a Canonical Retinal Binding Site.	Becker EA, Yao AI, Seitzer PM, Kind T, Wang T, Eigenheer R, Shao KS, Yarov-Yarovoy V, Facciotti MT.	PLoS One	10.1371/journal.pone.0156543	2016
Metabolism	Species Widely Distributed in Halophilic Archaea Exhibit Opsin-Mediated Inhibition of Bacterioruberin Biosynthesis.	Peck RF, Graham SM, Gregory AM.	J Bacteriol	10.1128/jb.00576-18	2019
	A Reexamination of Thioredoxin Reductase from Thermoplasma acidophilum, a Thermoacidophilic Euryarchaeon, Identifies It as an NADH-Dependent Enzyme.	Susanti D, Loganathan U, Compton A, Mukhopadhyay B.	ACS Omega	10.1021/acsomega.7b00640	2017
Enzymology	Wide distribution among halophilic archaea of a novel polyhydroxyalkanoate synthase subtype with homology to bacterial type III synthases.	Han J, Hou J, Liu H, Cai S, Feng B, Zhou J, Xiang H.	Appl Environ Microbiol	10.1128/aem.01117-10	2010
Enzymology	Orphan SelD proteins and selenium-dependent molybdenum hydroxylases.	Haft DH, Self WT.	Biol Direct	10.1186/1745-6150-3-4	2008
	Characterizing the DNA Methyltransferases of Haloferax volcanii via Bioinformatics, Gene Deletion, and SMRT Sequencing.	Ouellette M, Gogarten JP, Lajoie J, Makkay AM, Papke RT.	Genes (Basel)	10.3390/genes9030129	2018
Metabolism	Identification of the polyhydroxyalkanoate (PHA)-specific acetoacetyl coenzyme A reductase among multiple FabG paralogs in Haloarcula hispanica and reconstruction of the PHA biosynthetic pathway in Haloferax volcanii.	Han J, Lu Q, Zhou L, Liu H, Xiang H.	Appl Environ Microbiol	10.1128/aem.00938-09	2009
Metabolism	Amino acid substitutions in cold-adapted proteins from Halorubrum lacusprofundi, an extremely halophilic microbe from antarctica.	DasSarma S, Capes MD, Karan R, DasSarma P.	PLoS One	10.1371/journal.pone.0058587	2013
Genetics	Determining virus-host interactions and glycerol metabolism profiles in geographically diverse solar salterns with metagenomics.	Moller AG, Liang C.	PeerJ	10.7717/peerj.2844	2017
Genetics	Identification and genomic analysis of transcription factors in archaeal genomes exemplifies their functional architecture and evolutionary origin.	Perez-Rueda E, Janga SC.	Mol Biol Evol	10.1093/molbev/msq033	2010
Metabolism	Comparative genomics study of polyhydroxyalkanoates (PHA) and ectoine relevant genes from Halomonas sp. TD01 revealed extensive horizontal gene transfer events and co-evolutionary relationships.	Cai L, Tan D, Aibaidula G, Dong XR, Chen JC, Tian WD, Chen GQ.	Microb Cell Fact	10.1186/1475-2859-10-88	2011
Genetics	Gene-Family Extension Measures and Correlations.	Carmi G, Bolshoy A.	Life (Basel)	10.3390/life6030030	2016
Genetics	A unique group of virus-related, genome-integrating elements found solely in the bacterial family Thermaceae and the archaeal family Halobacteriaceae.	Jalasvuori M, Pawlowski A, Bamford JK.	J Bacteriol	10.1128/jb.00124-10	2010
Genetics	Bipyrimidine Signatures as a Photoprotective Genome Strategy in G + C-rich Halophilic Archaea.	Jones DL, Baxter BK.	Life (Basel)	10.3390/life6030037	2016
Biotechnology	Synthesis, production, and biotechnological applications of exopolysaccharides and polyhydroxyalkanoates by archaea.	Poli A, Di Donato P, Abbamondi GR, Nicolaus B.	Archaea	10.1155/2011/693253	2011
Phylogeny	Intragenomic heterogeneity of 16S rRNA genes causes overestimation of prokaryotic diversity.	Sun DL, Jiang X, Wu QL, Zhou NY.	Appl Environ Microbiol	10.1128/aem.01282-13	2013
	Survival of the fittest: overcoming oxidative stress at the extremes of Acid, heat and metal.	Maezato Y, Blum P.	Life (Basel)	10.3390/life2030229	2012
Phylogeny	Identification of Microbial Dark Matter in Antarctic Environments.	Bowman JS.	Front Microbiol	10.3389/fmicb.2018.03165	2018
Metabolism	The evolutionary relationship between microbial rhodopsins and metazoan rhodopsins.	Shen L, Chen C, Zheng H, Jin L.	ScientificWorldJournal	10.1155/2013/435651	2013
Genetics	Phylogenomics of prokaryotic ribosomal proteins.	Yutin N, Puigbo P, Koonin EV, Wolf YI.	PLoS One	10.1371/journal.pone.0036972	2012
Metabolism	A novel six-rhodopsin system in a single archaeon.	Fu HY, Lin YC, Chang YN, Tseng H, Huang CC, Liu KC, Liu KC, Huang CS, Su CW, Weng RR, Lee YY, Ng WV, Yang CS.	J Bacteriol	10.1128/jb.00642-10	2010
	Phylogeny and Taxonomy of Archaea: A Comparison of the Whole-Genome-Based CVTree Approach with 16S rRNA Sequence Analysis.	Zuo G, Xu Z, Hao B.	Life (Basel)	10.3390/life5010949	2015
	Halophiles and Their Biomolecules: Recent Advances and Future Applications in Biomedicine.	Corral P, Amoozegar MA, Ventosa A.	Mar Drugs	10.3390/md18010033	2019
	The closest relatives of icosahedral viruses of thermophilic bacteria are among viruses and plasmids of the halophilic archaea.	Jalasvuori M, Jaatinen ST, Laurinavicius S, Ahola-Iivarinen E, Kalkkinen N, Bamford DH, Bamford JK.	J Virol	10.1128/jvi.00869-09	2009
Metabolism	Halophilic archaea and their potential to generate renewable fuels and chemicals.	Kasirajan L, Maupin-Furlow JA.	Biotechnol Bioeng	10.1002/bit.27639	2021
Metabolism	Discovery of a SAR11 growth requirement for thiamin's pyrimidine precursor and its distribution in the Sargasso Sea.	Carini P, Campbell EO, Morre J, Sanudo-Wilhelmy SA, Thrash JC, Bennett SE, Temperton B, Begley T, Giovannoni SJ.	ISME J	10.1038/ismej.2014.61	2014
	Identification and characterization of a tRNA decoding the rare AUA codon in Haloarcula marismortui.	Kohrer C, Srinivasan G, Mandal D, Mallick B, Ghosh Z, Chakrabarti J, Rajbhandary UL.	RNA	10.1261/rna.795508	2008
Genetics	Sequence evidence in the archaeal genomes that tRNAs emerged through the combination of ancestral genes as 5' and 3' tRNA halves.	Fujishima K, Sugahara J, Tomita M, Kanai A.	PLoS One	10.1371/journal.pone.0001622	2008
Enzymology	In vitro characterization of a recombinant Blh protein from an uncultured marine bacterium as a beta-carotene 15,15'-dioxygenase.	Kim YS, Kim NH, Yeom SJ, Kim SW, Oh DK.	J Biol Chem	10.1074/jbc.m109.002618	2009
Metabolism	In silico identification of genes involved in selenium metabolism: evidence for a third selenium utilization trait.	Zhang Y, Turanov AA, Hatfield DL, Gladyshev VN.	BMC Genomics	10.1186/1471-2164-9-251	2008
Genetics	The haloarchaeal MCM proteins: bioinformatic analysis and targeted mutagenesis of the beta7-beta8 and beta9-beta10 hairpin loops and conserved zinc binding domain cysteines.	Kristensen TP, Maria Cherian R, Gray FC, MacNeill SA.	Front Microbiol	10.3389/fmicb.2014.00123	2014
	Molecular signature of hypersaline adaptation: insights from genome and proteome composition of halophilic prokaryotes.	Paul S, Bag SK, Das S, Harvill ET, Dutta C.	Genome Biol	10.1186/gb-2008-9-4-r70	2008
Metabolism	Identification and characterization of an archaeon-specific riboflavin kinase.	Mashhadi Z, Zhang H, Xu H, White RH.	J Bacteriol	10.1128/jb.01900-07	2008
Genetics	Association between the dynamics of multiple replication origins and the evolution of multireplicon genome architecture in haloarchaea.	Wu Z, Yang H, Liu J, Wang L, Xiang H.	Genome Biol Evol	10.1093/gbe/evu219	2014
Genetics	The GC skew index: a measure of genomic compositional asymmetry and the degree of replicational selection.	Arakawa K, Tomita M.	Evol Bioinform Online		2007
Metabolism	Denitrifying bacterial communities affect current production and nitrous oxide accumulation in a microbial fuel cell.	Vilar-Sanz A, Puig S, Garcia-Lledo A, Trias R, Balaguer MD, Colprim J, Baneras L.	PLoS One	10.1371/journal.pone.0063460	2013
	Cell water dynamics on multiple time scales.	Persson E, Halle B.	Proc Natl Acad Sci U S A	10.1073/pnas.0709585105	2008
	Denitrification activity of a remarkably diverse fen denitrifier community in finnish lapland is N-oxide limited.	Palmer K, Horn MA.	PLoS One	10.1371/journal.pone.0123123	2015
Transcriptome	Population and genomic analysis of the genus Halorubrum.	Fullmer MS, Soucy SM, Swithers KS, Makkay AM, Wheeler R, Ventosa A, Gogarten JP, Papke RT.	Front Microbiol	10.3389/fmicb.2014.00140	2014
Phylogeny	Quantifying homologous replacement of loci between haloarchaeal species.	Williams D, Gogarten JP, Papke RT.	Genome Biol Evol	10.1093/gbe/evs098	2012
Enzymology	Bioinformatic analysis reveals high diversity of bacterial genes for laccase-like enzymes.	Ausec L, Zakrzewski M, Goesmann A, Schluter A, Mandic-Mulec I.	PLoS One	10.1371/journal.pone.0025724	2011
Metabolism	Archaeosortases and exosortases are widely distributed systems linking membrane transit with posttranslational modification.	Haft DH, Payne SH, Selengut JD.	J Bacteriol	10.1128/jb.06026-11	2012
Metabolism	Dihydroxyacetone metabolism in Haloferax volcanii.	Ouellette M, Makkay AM, Papke RT.	Front Microbiol	10.3389/fmicb.2013.00376	2013
	Current developments on polyhydroxyalkanoates synthesis by using halophiles as a promising cell factory.	Mitra R, Xu T, Xiang H, Han J.	Microb Cell Fact	10.1186/s12934-020-01342-z	2020
Genetics	Genome sequence of Haloarcula marismortui: a halophilic archaeon from the Dead Sea.	Baliga NS, Bonneau R, Facciotti MT, Pan M, Glusman G, Deutsch EW, Shannon P, Chiu Y, Weng RS, Gan RR, Hung P, Date SV, Marcotte E, Hood L, Ng WV.	Genome Res	10.1101/gr.2700304	2004
Enzymology	Glycerate kinase of the hyperthermophilic archaeon Thermoproteus tenax: new insights into the phylogenetic distribution and physiological role of members of the three different glycerate kinase classes.	Kehrer D, Ahmed H, Brinkmann H, Siebers B.	BMC Genomics	10.1186/1471-2164-8-301	2007
Phylogeny	Streamlining and large ancestral genomes in Archaea inferred with a phylogenetic birth-and-death model.	Csuros M, Miklos I.	Mol Biol Evol	10.1093/molbev/msp123	2009
Metabolism	The elusive third subunit IIa of the bacterial B-type oxidases: the enzyme from the hyperthermophile Aquifex aeolicus.	Prunetti L, Brugna M, Lebrun R, Giudici-Orticoni MT, Guiral M.	PLoS One	10.1371/journal.pone.0021616	2011
Metabolism	Tungsten transport protein A (WtpA) in Pyrococcus furiosus: the first member of a new class of tungstate and molybdate transporters.	Bevers LE, Hagedoorn PL, Krijger GC, Hagen WR.	J Bacteriol	10.1128/jb.00548-06	2006
Pathogenicity	Biosynthetic gene cluster for the polyenoyltetramic acid alpha-lipomycin.	Bihlmaier C, Welle E, Hofmann C, Welzel K, Vente A, Breitling E, Muller M, Glaser S, Bechthold A.	Antimicrob Agents Chemother	10.1128/aac.00007-06	2006
Phylogeny	The dispersed archaeal eukaryome and the complex archaeal ancestor of eukaryotes.	Koonin EV, Yutin N.	Cold Spring Harb Perspect Biol	10.1101/cshperspect.a016188	2014
Pathogenicity	Identification of genes differentially expressed during interaction of resistant and susceptible apple cultivars (Malus x domestica) with Erwinia amylovora.	Baldo A, Norelli JL, Farrell RE, Bassett CL, Aldwinckle HS, Malnoy M.	BMC Plant Biol	10.1186/1471-2229-10-1	2010
Enzymology	Purification, characterization, and genetic analysis of Cu-containing dissimilatory nitrite reductase from a denitrifying halophilic archaeon, Haloarcula marismortui.	Ichiki H, Tanaka Y, Mochizuki K, Yoshimatsu K, Sakurai T, Fujiwara T.	J Bacteriol	10.1128/jb.183.14.4149-4156.2001	2001
	Novel archaeal adhesion pilins with a conserved N terminus.	Esquivel RN, Xu R, Pohlschroder M.	J Bacteriol	10.1128/jb.00572-13	2013
	The Unexplored Diversity of Pleolipoviruses: The Surprising Case of Two Viruses with Identical Major Structural Modules.	Atanasova NS, Heinio CH, Demina TA, Bamford DH, Oksanen HM.	Genes (Basel)	10.3390/genes9030131	2018
Phylogeny	Whole-genome based Archaea phylogeny and taxonomy: A composition vector approach.	Sun J, Xu Z, Hao B.	Chin Sci Bull	10.1007/s11434-010-3008-8	2010
Metabolism	A novel function for the N-terminal nucleophile hydrolase fold demonstrated by the structure of an archaeal inosine monophosphate cyclohydrolase.	Kang YN, Tran A, White RH, Ealick SE.	Biochemistry	10.1021/bi061637j	2007
	Contrasting denitrifier communities relate to contrasting N2O emission patterns from acidic peat soils in arctic tundra.	Palmer K, Biasi C, Horn MA.	ISME J	10.1038/ismej.2011.172	2012
Enzymology	Cloning, solubilization, and characterization of squalene synthase from Thermosynechococcus elongatus BP-1.	Lee S, Poulter CD.	J Bacteriol	10.1128/jb.01939-07	2008
Metabolism	Identification of diverse archaeal proteins with class III signal peptides cleaved by distinct archaeal prepilin peptidases.	Szabo Z, Stahl AO, Albers SV, Kissinger JC, Driessen AJ, Pohlschroder M.	J Bacteriol	10.1128/jb.01547-06	2007
Metabolism	LccA, an archaeal laccase secreted as a highly stable glycoprotein into the extracellular medium by Haloferax volcanii.	Uthandi S, Saad B, Humbard MA, Maupin-Furlow JA.	Appl Environ Microbiol	10.1128/aem.01757-09	2010
	The complete genome sequence of Natrinema sp. J7-2, a haloarchaeon capable of growth on synthetic media without amino acid supplements.	Feng J, Liu B, Zhang Z, Ren Y, Li Y, Gan F, Huang Y, Chen X, Shen P, Wang L, Tang B, Tang XF.	PLoS One	10.1371/journal.pone.0041621	2012
	Low-pass sequencing for microbial comparative genomics.	Goo YA, Roach J, Glusman G, Baliga NS, Deutsch K, Pan M, Kennedy S, DasSarma S, Ng WV, Hood L.	BMC Genomics	10.1186/1471-2164-5-3	2004
Metabolism	Characterization of a novel bifunctional dihydropteroate synthase/dihydropteroate reductase enzyme from Helicobacter pylori.	Levin I, Mevarech M, Palfey BA.	J Bacteriol	10.1128/jb.01878-06	2007
	Transcriptional regulatory network discovery via multiple method integration: application to e. coli K12.	Sun J, Tuncay K, Haidar AA, Ensman L, Stanley F, Trelinski M, Ortoleva P.	Algorithms Mol Biol	10.1186/1748-7188-2-2	2007
Genetics	Genome analysis of DNA repair genes in the alpha proteobacterium Caulobacter crescentus.	Martins-Pinheiro M, Marques RC, Menck CF.	BMC Microbiol	10.1186/1471-2180-7-17	2007
	Identification of RNA molecules by specific enzyme digestion and mass spectrometry: software for and implementation of RNA mass mapping.	Matthiesen R, Kirpekar F.	Nucleic Acids Res	10.1093/nar/gkp139	2009
Metabolism	Genetic and biochemical characterization of the poly(3-hydroxybutyrate-co-3-hydroxyvalerate) synthase in Haloferax mediterranei.	Lu Q, Han J, Zhou L, Zhou J, Xiang H.	J Bacteriol	10.1128/jb.00134-08	2008
	Defense against cannibalism: the SdpI family of bacterial immunity/signal transduction proteins.	Povolotsky TL, Orlova E, Tamang DG, Saier MH.	J Membr Biol	10.1007/s00232-010-9260-7	2010
Enzymology	A novel family of tyrosine integrases encoded by the temperate pleolipovirus SNJ2.	Wang J, Liu Y, Liu Y, Du K, Xu S, Wang Y, Krupovic M, Chen X.	Nucleic Acids Res	10.1093/nar/gky005	2018
Metabolism	Mutations outside the anisomycin-binding site can make ribosomes drug-resistant.	Blaha G, Gurel G, Schroeder SJ, Moore PB, Steitz TA.	J Mol Biol	10.1016/j.jmb.2008.03.075	2008
Metabolism	Biochemical and serological evidence for an RNase E-like activity in halophilic Archaea.	Franzetti B, Sohlberg B, Zaccai G, von Gabain A.	J Bacteriol	10.1128/jb.179.4.1180-1185.1997	1997
	Analysis of the first genome of a hyperthermophilic marine virus-like particle, PAV1, isolated from Pyrococcus abyssi.	Geslin C, Gaillard M, Flament D, Rouault K, Le Romancer M, Prieur D, Erauso G.	J Bacteriol	10.1128/jb.01896-06	2007
	Algal viruses with distinct intraspecies host specificities include identical intein elements.	Nagasaki K, Shirai Y, Tomaru Y, Nishida K, Pietrokovski S.	Appl Environ Microbiol	10.1128/aem.71.7.3599-3607.2005	2005
Metabolism	A subset of the diverse COG0523 family of putative metal chaperones is linked to zinc homeostasis in all kingdoms of life.	Haas CE, Rodionov DA, Kropat J, Malasarn D, Merchant SS, de Crecy-Lagard V.	BMC Genomics	10.1186/1471-2164-10-470	2009
Metabolism	Phylogenomic reconstruction of archaeal fatty acid metabolism.	Dibrova DV, Galperin MY, Mulkidjanian AY.	Environ Microbiol	10.1111/1462-2920.12359	2014
Enzymology	Modelling the evolution of the archeal tryptophan synthase.	Merkl R.	BMC Evol Biol	10.1186/1471-2148-7-59	2007
	Evolution and classification of the CRISPR-Cas systems.	Makarova KS, Haft DH, Barrangou R, Brouns SJ, Charpentier E, Horvath P, Moineau S, Mojica FJ, Wolf YI, Yakunin AF, van der Oost J, Koonin EV.	Nat Rev Microbiol	10.1038/nrmicro2577	2011
Metabolism	Genome sequence of Desulfobacterium autotrophicum HRM2, a marine sulfate reducer oxidizing organic carbon completely to carbon dioxide.	Strittmatter AW, Liesegang H, Rabus R, Decker I, Amann J, Andres S, Henne A, Fricke WF, Martinez-Arias R, Bartels D, Goesmann A, Krause L, Puhler A, Klenk HP, Richter M, Schuler M, Glockner FO, Meyerdierks A, Gottschalk G, Amann R.	Environ Microbiol	10.1111/j.1462-2920.2008.01825.x	2009
	Archaeal viruses multiply: temporal screening in a solar saltern.	Atanasova NS, Demina TA, Buivydas A, Bamford DH, Oksanen HM.	Viruses	10.3390/v7041902	2015
Metabolism	Archaeal ubiquitin-like proteins: functional versatility and putative ancestral involvement in tRNA modification revealed by comparative genomic analysis.	Makarova KS, Koonin EV.	Archaea	10.1155/2010/710303	2010
	Archaeal RNA polymerase and transcription regulation.	Jun SH, Reichlen MJ, Tajiri M, Murakami KS.	Crit Rev Biochem Mol Biol	10.3109/10409238.2010.538662	2011
	Identification of polyhydroxyalkanoates in Halococcus and other haloarchaeal species.	Legat A, Gruber C, Zangger K, Wanner G, Stan-Lotter H.	Appl Microbiol Biotechnol	10.1007/s00253-010-2611-6	2010
Phylogeny	Assembly-driven community genomics of a hypersaline microbial ecosystem.	Podell S, Ugalde JA, Narasingarao P, Banfield JF, Heidelberg KB, Allen EE.	PLoS One	10.1371/journal.pone.0061692	2013
Genetics	Metagenomic islands of hyperhalophiles: the case of Salinibacter ruber.	Pasic L, Rodriguez-Mueller B, Martin-Cuadrado AB, Mira A, Rohwer F, Rodriguez-Valera F.	BMC Genomics	10.1186/1471-2164-10-570	2009
Metabolism	Effect of earthworm feeding guilds on ingested dissimilatory nitrate reducers and denitrifiers in the alimentary canal of the earthworm.	Depkat-Jakob PS, Hilgarth M, Horn MA, Drake HL.	Appl Environ Microbiol	10.1128/aem.01373-10	2010
Metabolism	Autocatalytic maturation of the Tat-dependent halophilic subtilase Nep produced by the archaeon Natrialba magadii.	Ruiz DM, Paggi RA, Gimenez MI, De Castro RE.	J Bacteriol	10.1128/jb.06792-11	2012
Phylogeny	Diverse antimicrobial interactions of halophilic archaea and bacteria extend over geographical distances and cross the domain barrier.	Atanasova NS, Pietila MK, Oksanen HM.	Microbiologyopen	10.1002/mbo3.115	2013
Metabolism	Phylogenomic analysis of proteins that are distinctive of Archaea and its main subgroups and the origin of methanogenesis.	Gao B, Gupta RS.	BMC Genomics	10.1186/1471-2164-8-86	2007
Metabolism	A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes.	Haft DH, Selengut J, Mongodin EF, Nelson KE.	PLoS Comput Biol	10.1371/journal.pcbi.0010060	2005
	Identification and analysis of novel amino-acid sequence repeats in Bacillus anthracis str. Ames proteome using computational tools.	Hemalatha GR, Rao DS, Guruprasad L.	Comp Funct Genomics	10.1155/2007/47161	2007
Metabolism	A novel pathway for the biosynthesis of heme in Archaea: genome-based bioinformatic predictions and experimental evidence.	Storbeck S, Rolfes S, Raux-Deery E, Warren MJ, Jahn D, Layer G.	Archaea	10.1155/2010/175050	2010
Genetics	Phylogenetic and gene-centric metagenomics of the canine intestinal microbiome reveals similarities with humans and mice.	Swanson KS, Dowd SE, Suchodolski JS, Middelbos IS, Vester BM, Barry KA, Nelson KE, Torralba M, Henrissat B, Coutinho PM, Cann IK, White BA, Fahey GC.	ISME J	10.1038/ismej.2010.162	2011
Metabolism	Insertion Sequences show diverse recent activities in Cyanobacteria and Archaea.	Zhou F, Olman V, Xu Y.	BMC Genomics	10.1186/1471-2164-9-36	2008
	Noncellulosomal cohesin- and dockerin-like modules in the three domains of life.	Peer A, Smith SP, Bayer EA, Lamed R, Borovok I.	FEMS Microbiol Lett	10.1111/j.1574-6968.2008.01420.x	2009
	A study in entire chromosomes of violations of the intra-strand parity of complementary nucleotides (Chargaff's second parity rule).	Powdel BR, Satapathy SS, Kumar A, Jha PK, Buragohain AK, Borah M, Ray SK.	DNA Res	10.1093/dnares/dsp021	2009
	Annotation of Protein Domains Reveals Remarkable Conservation in the Functional Make up of Proteomes Across Superkingdoms.	Nasir A, Naeem A, Khan MJ, Nicora HD, Caetano-Anolles G.	Genes (Basel)	10.3390/genes2040869	2011
Metabolism	A complex of Cas proteins 5, 6, and 7 is required for the biogenesis and stability of clustered regularly interspaced short palindromic repeats (crispr)-derived rnas (crrnas) in Haloferax volcanii.	Brendel J, Stoll B, Lange SJ, Sharma K, Lenz C, Stachler AE, Maier LK, Richter H, Nickel L, Schmitz RA, Randau L, Allers T, Urlaub H, Backofen R, Marchfelder A.	J Biol Chem	10.1074/jbc.m113.508184	2014
Metabolism	The microbial opsin family of optogenetic tools.	Zhang F, Vierock J, Yizhar O, Fenno LE, Tsunoda S, Kianianmomeni A, Prigge M, Berndt A, Cushman J, Polle J, Magnuson J, Hegemann P, Deisseroth K.	Cell	10.1016/j.cell.2011.12.004	2011
Metabolism	The nonphosphorylative Entner-Doudoroff pathway in the thermoacidophilic euryarchaeon Picrophilus torridus involves a novel 2-keto-3-deoxygluconate- specific aldolase.	Reher M, Fuhrer T, Bott M, Schonheit P.	J Bacteriol	10.1128/jb.01281-09	2010
	Transformation of members of the genus Haloarcula with shuttle vectors based on Halobacterium halobium and Haloferax volcanii plasmid replicons.	Cline SW, Doolittle WF.	J Bacteriol	10.1128/jb.174.3.1076-1080.1992	1992
	Functional Promiscuity of Homologues of the Bacterial ArsA ATPases.	Castillo R, Saier MH.	Int J Microbiol	10.1155/2010/187373	2010
	A putative viral defence mechanism in archaeal cells.	Lillestol RK, Redder P, Garrett RA, Brugger K.	Archaea	10.1155/2006/542818	2006
Enzymology	The UlaG protein family defines novel structural and functional motifs grafted on an ancient RNase fold.	Fernandez FJ, Garces F, Lopez-Estepa M, Aguilar J, Baldoma L, Coll M, Badia J, Vega MC.	BMC Evol Biol	10.1186/1471-2148-11-273	2011
Metabolism	Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology.	Pinhassi J, DeLong EF, Beja O, Gonzalez JM, Pedros-Alio C.	Microbiol Mol Biol Rev	10.1128/mmbr.00003-16	2016
	Solving the Problem: Genome Annotation Standards before the Data Deluge.	Klimke W, O'Donovan C, White O, Brister JR, Clark K, Fedorov B, Mizrachi I, Pruitt KD, Tatusova T.	Stand Genomic Sci	10.4056/sigs.2084864	2011
Genetics	Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea.	Makarova KS, Sorokin AV, Novichkov PS, Wolf YI, Koonin EV.	Biol Direct	10.1186/1745-6150-2-33	2007
	Elucidating the Role and Mechanism of Lycopene beta-Cyclase from Haloarcula marismortui through Functional Characterization and Targeted Mutagenesis.	Zhang L, Chen C, He Y, Cao M, Lin Y, Huang K, Zhang H, Wu C, Chen M, Shen L.	J Agric Food Chem	10.1021/acs.jafc.5c02985	2025
	Theoretical study of the interaction between the antibiotic linezolid and the active site of the 50S ribosomal subunit of the bacterium Haloarcula marismortui.	Grandini GS, Morgon NH, de Souza AR.	Chirality	10.1002/chir.23629	2024
Enzymology	Pharmaceutical applications of halophilic enzymes.	Yavari-Bafghi M, Amoozegar MA.	Heliyon	10.1016/j.heliyon.2025.e42754	2025
	Effects of chaotropic salts on global proteome stability in halophilic archaea: Implications for life signatures on Mars.	Carre L, Gonzalez D, Girard E, Franzetti B.	Environ Microbiol	10.1111/1462-2920.16451	2023
	Life in the brine of Lunenburg, Germany: unveiling microorganisms associated with Zechstein salt deposits.	Runzheimer K, Schwab L, Engel D, Schaudinn C, Laue M, Rebrosova K, Beblo-Vranesevic K, Azizah M, Leuko S.	Front Microbiol	10.3389/fmicb.2025.1625916	2025
	Purification and Characterization of Polyhydroxyalkanoate Synthase from Extremely Halophilic Archaeon Haloferax mediterranei: Key Enzyme of Biodegradable Plastic Synthesis.	Alsafadi D, Ghalawinji Y, Khalili FI.	Bioengineering (Basel)	10.3390/bioengineering12091003	2025
Stress	Experimental study of proteome halophilicity using nanoDSF: a proof of concept.	Carre L, Girard E, Franzetti B.	Extremophiles	10.1007/s00792-021-01250-z	2021
	Characterization of a family IV esterase from extremely halophilic archaeon Haloarcula japonica.	Kato H, Ambai S, Ikeda F, Abe K, Nakamura S, Yatsunami R.	Extremophiles	10.1007/s00792-024-01370-2	2024
	RNAhugs web server for customized 3D RNA structure alignment.	Zurkowski M, Swiercz M, Wozny F, Antczak M, Szachniuk M.	Nucleic Acids Res	10.1093/nar/gkae259	2024
	Sugar alcohol degradation in Archaea: uptake and degradation of mannitol and sorbitol in Haloarcula hispanica.	Ortjohann M, Schonheit P.	Extremophiles	10.1007/s00792-024-01365-z	2024
	Characterization of Regulatory Elements of L11 and L1 Operons in Thermophilic Bacteria and Archaea.	Mikhaylina AO, Nikonova EY, Kostareva OS, Piendl W, Erlacher M, Tishchenko SV.	Biochemistry (Mosc)	10.1134/s0006297921040027	2021
	Local and Global Motions Underlying Antibiotic Binding in Bacterial Ribosome.	Kurkcuoglu O, Gunes MU, Haliloglu T.	J Chem Inf Model	10.1021/acs.jcim.0c00967	2020
	Cryo-EM study and in vivo chemical mapping of the Methanosarcina acetivorans ribosome and its dimerization via a repurposed enzyme and translation factor.	Fordjour GNR, Ghosh A, Ferry JG, Armache JP, Bevilacqua PC, Murakami KS.	J Biol Chem	10.1016/j.jbc.2025.110686	2025
Metabolism	Verification of the Stabilized Protein Design Based on the Prediction of Intrinsically Disordered Regions: Ribosomal Proteins L1.	Nagibina GS, Marchenkov VV, Glukhova KA, Melnik TN, Melnik BS.	Biochemistry (Mosc)	10.1134/s0006297920010083	2020
Phylogeny	Finding priority bacterial ribosomes for future structural and antimicrobial research based upon global RNA and protein sequence analysis.	Cooper HB, Krause KL, Gardner PP.	PeerJ	10.7717/peerj.14969	2023
	Supersecondary Structure Code for RNA: Trace of Conformational Change on the Mycoplasma pneumoniae Ribosome and the R-Loop Formation of Cas9.	Izumi H, Nafie LA, Dukor RK.	ACS Omega	10.1021/acsomega.4c10681	2025
Metabolism	Protein escape at the ribosomal exit tunnel: Effect of the tunnel shape.	Bui PT, Hoang TX.	J Chem Phys	10.1063/5.0008292	2020
Metabolism	Purification and biochemical characterization of photo-active membrane protein bacteriorhodopsin from Haloarcula marismortui, an extreme halophile from the Dead Sea.	Alsafadi D, Khalili FI, Juwhari H, Lahlouh B.	Int J Biol Macromol	10.1016/j.ijbiomac.2018.07.045	2018
	GINClus: RNA structural motif clustering using graph isomorphism network.	Khan NS, Rahaman MM, Zhang S.	NAR Genom Bioinform	10.1093/nargab/lqaf050	2025
	Wide Diversity and Complex Evolution of M42 Aminopeptidases With Contrasted Functional Properties in Archaea.	Chagny E, Taib N, Fenel D, Girard E, Gribaldo S, Flament D, Franzetti B.	Mol Biol Evol	10.1093/molbev/msaf233	2025
Metabolism	Acetate and Acetyl-CoA Metabolism of ANME-2 Anaerobic Archaeal Methanotrophs.	Ouboter HT, Arshad A, Berger S, Saucedo Sanchez JG, Op den Camp HJM, Jetten MSM, Welte CU, Kurth JM.	Appl Environ Microbiol	10.1128/aem.00367-23	2023
	Stationary Phase EPR Spectroscopy for Monitoring Membrane Protein Refolding by Conformational Response.	Balo AR, Lee J, Ernst OP.	Anal Chem	10.1021/acs.analchem.8b04542	2019
	Racial disparities in metastatic colorectal cancer outcomes revealed by tumor microbiome and transcriptome analysis with bevacizumab treatment.	Feng L, Wang R, Zhao Q, Wang J, Luo G, Xu C.	Front Pharmacol	10.3389/fphar.2023.1320028	2023
Genetics	Production, characterization, and genomic insights of a human lectin-binding exopolysaccharide from Haloarcula japonica strain SST1.	Ghevondyan D, Hakobyan A, Margaryan A, Finore I, Cattaneo A, Chiodo F, Birkeland NK, Poli A, Panosyan H.	Sci Rep	10.1038/s41598-025-18462-4	2025
Phylogeny	Microbial Diversity Biased Estimation Caused by Intragenomic Heterogeneity and Interspecific Conservation of 16S rRNA Genes.	Pan P, Gu Y, Sun DL, Wu QL, Zhou NY.	Appl Environ Microbiol	10.1128/aem.02108-22	2023
Enzymology	Characterization of a catalase-peroxidase variant (L333V-KatG) identified in an INH-resistant Mycobacterium tuberculosis clinical isolate.	Uribe-Vazquez B, Diaz-Vilchis A, Avila-Linares A, Saab-Rincon G, Marin-Tovar Y, Flores H, Pastor N, Huerta-Miranda G, Rudino-Pinera E, Soberon X.	Biochem Biophys Rep	10.1016/j.bbrep.2024.101649	2024
	Structural basis of an epitope tagging system derived from Haloarcula marismortui bacteriorhodopsin I D94N and its monoclonal antibody GD-26.	Pao PJ, Hsu MF, Chiang MH, Chen CT, Lee CC, Wang AH.	FEBS J	10.1111/febs.16184	2022
Transcriptome	Comparative transcriptome analysis of Labeo calbasu (Hamilton, 1822) from polluted and non-polluted rivers in India.	Pradhan SP, Chakraborty HJ, Gadnayak A, Raut SS, Sarkar DJ, Sharma A, Mishra DC, Farooqi MS, Behera BK, Das BK, Centre for Agricultural Bioinformatics (CABin) Scheme, ICAR-IASRI, New Delhi.	PLoS One	10.1371/journal.pone.0320358	2025
	Identification and characterization of RNA pentaloop sequence families.	Saon M, Kirkpatrick CC, Znosko BM.	NAR Genom Bioinform	10.1093/nargab/lqac102	2023
Enzymology	Catalytic mechanism and kinetics of malate dehydrogenase.	de Lorenzo L, Stack TMM, Fox KM, Walstrom KM.	Essays Biochem	10.1042/ebc20230086	2024
	Cryo-electron microscopy visualization of a large insertion in the 5S ribosomal RNA of the extremely halophilic archaeon Halococcus morrhuae.	Tirumalai MR, Kaelber JT, Park DR, Tran Q, Fox GE.	FEBS Open Bio	10.1002/2211-5463.12962	2020
Pathogenicity	Effects of nicotine on the biosynthesis of carotenoids in halophilic Archaea (class Halobacteria): an HPLC and Raman spectroscopy study.	Oren A, Hirschberg J, Mann V, Jehlicka J.	Extremophiles	10.1007/s00792-018-0995-x	2018
Biotechnology	Comparative genomics of the highly halophilic Haloferacaceae.	Griffiths DB, Tiwari RP, Murphy DV, Scott C.	Sci Rep	10.1038/s41598-024-78438-8	2024
	Acetate Metabolism in Archaea: Characterization of an Acetate Transporter and of Enzymes Involved in Acetate Activation and Gluconeogenesis in Haloferax volcanii.	Kuprat T, Johnsen U, Ortjohann M, Schonheit P.	Front Microbiol	10.3389/fmicb.2020.604926	2020
	Characterization of Linezolid-Analogue L3-Resistance Mutation in Staphylococcus aureus.	Zanfardino A, Di Napoli M, Migliore F, Hay Mele B, Soriente A, De Rosa M, Notomista E, Varcamonti M.	Microorganisms	10.3390/microorganisms11030700	2023
Metabolism	In Silico Analysis of the Enzymes Involved in Haloarchaeal Denitrification.	Bernabeu E, Miralles-Robledillo JM, Giani M, Valdes E, Martinez-Espinosa RM, Pire C.	Biomolecules	10.3390/biom11071043	2021
Metabolism	Estimation of bacterioruberin by Raman spectroscopy during the growth of halophilic archaeon Haloarcula marismortui.	Camacho-Cordova DI, Camacho-Ruiz RM, Cordova-Lopez JA, Cervantes-Martinez J.	Appl Opt	10.1364/ao.53.007470	2014
	A simple geometrical model of the electrostatic environment around the catalytic center of the ribosome and its significance for the elongation cycle kinetics.	Joiret M, Kerff F, Rapino F, Close P, Geris L.	Comput Struct Biotechnol J	10.1016/j.csbj.2023.07.016	2023
	Optimization and Antibacterial Evaluation of Novel 3-(5-Fluoropyridine-3-yl)-2-oxazolidinone Derivatives Containing a Pyrimidine Substituted Piperazine.	Wang X, Jin B, Han Y, Wang T, Sheng Z, Tao Y, Yang H.	Molecules	10.3390/molecules28114267	2023
Genetics	Microbial diversity analysis of Chumathang geothermal spring, Ladakh, India.	Anu K, Kumari S, Choudhary G, Devi S.	Braz J Microbiol	10.1007/s42770-024-01284-3	2024
	Vinasse: from a residue to a high added value biopolymer.	Trape DV, Lopez OV, Villar MA.	Bioresour Bioprocess	10.1186/s40643-021-00476-1	2021
	LocalSTAR3D: a local stack-based RNA 3D structural alignment tool.	Chen X, Khan NS, Zhang S.	Nucleic Acids Res	10.1093/nar/gkaa453	2020
Metabolism	Glucose Metabolism and Acetate Switch in Archaea: the Enzymes in Haloferax volcanii.	Kuprat T, Ortjohann M, Johnsen U, Schonheit P.	J Bacteriol	10.1128/jb.00690-20	2021
Metabolism	Prebiotic Iron Originates the Peptidyl Transfer Origin.	Lin SY, Wang YC, Hsiao C.	Mol Biol Evol	10.1093/molbev/msz034	2019
Metabolism	Photochemistry of a dual-bacteriorhodopsin system in Haloarcula marismortui: HmbRI and HmbRII.	Tsai FK, Fu HY, Yang CS, Chu LK.	J Phys Chem B	10.1021/jp503629v	2014
Metabolism	Overexpression of Different Types of Microbial Rhodopsins with a Highly Expressible Bacteriorhodopsin from Haloarcula marismortui as a Single Protein in E. coli.	Tu CH, Yi HP, Hsieh SY, Lin HS, Yang CS.	Sci Rep	10.1038/s41598-018-32399-x	2018
Genetics	Metagenomics insight into Puga geothermal geyser located in Himalayan Geothermal Belt (Trans-Himalayan Plateau) Ladakh, India.	Kumari S, Choudhary G, Anu K, Devi S.	Braz J Microbiol	10.1007/s42770-024-01408-9	2024
	Genetic identification of acetyl-CoA synthetases involved in acetate activation in Haloferax mediterranei.	Mitra R, Xu Y, Lin L, Guo J, Xu T, Zhou M, Guo F, Li H, Xiang H, Han J.	Appl Environ Microbiol	10.1128/aem.01843-24	2025
	A general strategy for engineering GU base pairs to facilitate RNA crystallization.	Ren Y, Lin X, Liao W, Peng X, Deng J, Zhang Z, Zhan J, Zhou Y, Westhof E, Lilley DMJ, Wang J, Huang L.	Nucleic Acids Res	10.1093/nar/gkae1218	2025
Metabolism	Haloarcula marismortui archaellin genes as ecoparalogs.	Syutkin AS, Pyatibratov MG, Galzitskaya OV, Rodriguez-Valera F, Fedorov OV.	Extremophiles	10.1007/s00792-013-0619-4	2014
	Occurrence and classification of T-shaped interactions between nucleobases in RNA structures.	Ali Z, Kukhta T, Jhunjhunwala A, Trant JF, Sharma P.	RNA	10.1261/rna.079486.122	2023
	Functional conservation of specialized ribosomes bearing genome-encoded variant rRNAs in Vibrio species.	Choi Y, Shin E, Lee M, Yeom JH, Lee K.	PLoS One	10.1371/journal.pone.0289072	2023
	Understanding the tolerance of halophilic archaea to stress landscapes.	Matarredona L, Zafrilla B, Camacho M, Bonete MJ, Esclapez J.	Environ Microbiol Rep	10.1111/1758-2229.70039	2024
	Salt-bridges in the microenvironment of stable protein structures.	Bandyopadhyay AK, Ul Islam RN, Hazra N.	Bioinformation	10.6026/97320630016900	2020
	Revisiting the Haloarcula marismortui 50S ribosomal subunit model.	Gabdulkhakov A, Nikonov S, Garber M.	Acta Crystallogr D Biol Crystallogr	10.1107/s0907444913004745	2013
	Synthesis and Biological Evaluation of Pyrimidine-oxazolidin-2-arylimino Hybrid Molecules as Antibacterial Agents.	Romeo R, Chiacchio MA, Campisi A, Monciino G, Veltri L, Iannazzo D, Broggini G, Giofre SV.	Molecules	10.3390/molecules23071754	2018
	A transducer for microbial sensory rhodopsin that adopts GTG as a start codon is identified in Haloarcula marismortui.	Fu HY, Lu YH, Yi HP, Yang CS.	J Photochem Photobiol B	10.1016/j.jphotobiol.2013.02.002	2013
	Lipid hydrogen isotope compositions primarily reflect growth water in the model archaeon Sulfolobus acidocaldarius.	Harris CM, Kopf S, Rhim JH, Cobban A, Elling FJ, Feng X, McFarlin J, Weber Y, Zhang Y, Zhou A, Batther H, Pearson A, Leavitt WD.	Appl Environ Microbiol	10.1128/aem.01983-24	2025
	Molecular interactions within the halophilic, thermophilic, and mesophilic prokaryotic ribosomal complexes: clues to environmental adaptation.	Mallik S, Kundu S.	J Biomol Struct Dyn	10.1080/07391102.2014.900457	2015
	RNAMotifProfile: a graph-based approach to build RNA structural motif profiles.	Rahaman MM, Zhang S.	NAR Genom Bioinform	10.1093/nargab/lqae128	2024
Pathogenicity	Determinants of the species selectivity of oxazolidinone antibiotics targeting the large ribosomal subunit.	Saini JS, Homeyer N, Fulle S, Gohlke H.	Biol Chem	10.1515/hsz-2013-0188	2013
	Comparison of Miniaturized Raman Spectrometers for Discrimination of Carotenoids of Halophilic Microorganisms.	Jehlicka J, Culka A, Mana L, Oren A.	Front Microbiol	10.3389/fmicb.2019.01155	2019
Metabolism	Solid-state fermentation as a potential technique for esterase/lipase production by halophilic archaea.	Martin del Campo M, Camacho RM, Mateos-Diaz JC, Muller-Santos M, Cordova J, Rodriguez JA.	Extremophiles	10.1007/s00792-015-0784-8	2015
	Hydrophobic and electrostatic interactions modulate protein escape at the ribosomal exit tunnel.	Bui PT, Hoang TX.	Biophys J	10.1016/j.bpj.2021.09.027	2021
Metabolism	Utilization of vinasse for the production of polyhydroxybutyrate by Haloarcula marismortui.	Pramanik A, Mitra A, Arumugam M, Bhattacharyya A, Sadhukhan S, Ray A, Haldar S, Mukhopadhyay UK, Mukherjee J.	Folia Microbiol (Praha)	10.1007/s12223-011-0092-3	2012
	Further Characterization of the Pseudo-Symmetrical Ribosomal Region.	Rivas M, Fox GE.	Life (Basel)	10.3390/life10090201	2020
Transcriptome	CircularSTAR3D: a stack-based RNA 3D structural alignment tool for circular matching.	Chen X, Zhang S.	Nucleic Acids Res	10.1093/nar/gkad222	2023
Metabolism	The Blue-Green Sensory Rhodopsin SRM from Haloarcula marismortui Attenuates Both Phototactic Responses Mediated by Sensory Rhodopsin I and II in Halobacterium salinarum.	Chen JL, Lin YC, Fu HY, Yang CS.	Sci Rep	10.1038/s41598-019-42193-y	2019
Enzymology	Characterization of alcohol dehydrogenase (ADH12) from Haloarcula marismortui, an extreme halophile from the Dead Sea.	Timpson LM, Alsafadi D, Mac Donnchadha C, Liddell S, Sharkey MA, Paradisi F.	Extremophiles	10.1007/s00792-011-0405-0	2012
Enzymology	Resurrection of Ancestral Malate Dehydrogenases Reveals the Evolutionary History of Halobacterial Proteins: Deciphering Gene Trajectories and Changes in Biochemical Properties.	Blanquart S, Groussin M, Le Roy A, Szollosi GJ, Girard E, Franzetti B, Gouy M, Madern D.	Mol Biol Evol	10.1093/molbev/msab146	2021
	Genus for biomolecules.	Rubach P, Zajac S, Jastrzebski B, Sulkowska JI, Sulkowski P.	Nucleic Acids Res	10.1093/nar/gkz845	2020
	Synthesis and Biological Evaluation of 3-(Pyridine-3-yl)-2-Oxazolidinone Derivatives as Antibacterial Agents.	Jin B, Wang T, Chen JY, Liu XQ, Zhang YX, Zhang XY, Sheng ZL, Yang HL.	Front Chem	10.3389/fchem.2022.949813	2022
Proteome	New insight in the structural features of haloadaptation in alpha-amylases from halophilic Archaea following homology modeling strategy: folded and stable conformation maintained through low hydrophobicity and highly negative charged surface.	Zorgani MA, Patron K, Desvaux M.	J Comput Aided Mol Des	10.1007/s10822-014-9754-y	2014
	The Ptch/SPOUT1 methyltransferase deposits an m³U modification on 28S rRNA for normal ribosomal function in flies and humans.	Chen J, Bai Y, Huang Y, Cui M, Wang Y, Gu Z, Wu X, Li Y, Rong YS.	Sci Adv	10.1126/sciadv.adr1743	2024
	Design of stable circular permutants of the GroEL chaperone apical domain.	Melnik TN, Majorina MA, Vorobeva DE, Nagibina GS, Veselova VR, Glukhova KA, Pak MA, Ivankov DN, Uversky VN, Melnik BS.	Cell Commun Signal	10.1186/s12964-023-01426-4	2024
	Sequence-assignment validation in protein crystal structure models with checkMySequence.	Chojnowski G.	Acta Crystallogr D Struct Biol	10.1107/s2059798323003765	2023
	[Stress-protective and cross action of the extracellular reactivating factor of the microorganisms of the domains Bacteria, Archaea, and Eukaryota].	Vorob'eva LI, Khodzhaev EIu, Novikova TM, Muliukin AL, Chudinova EM, Kozlova AN, El'-rgistan GI.	Mikrobiologiia	10.1134/s0026261713050159	2013
	Ancestry of RNA/RNA interaction regions within segmented ribosomes.	Rivas M, Fox GE.	RNA	10.1261/rna.079654.123	2023
Metabolism	Perchlorate and halophilic prokaryotes: implications for possible halophilic life on Mars.	Oren A, Elevi Bardavid R, Mana L.	Extremophiles	10.1007/s00792-013-0594-9	2014
	Prediction of 3D RNA Structures from Sequence Using Energy Landscapes of RNA Dimers: Application to RNA Tetraloops.	Riveros II, Yildirim I.	J Chem Theory Comput	10.1021/acs.jctc.4c00189	2024
	The fluctuating ribosome: thermal molecular dynamics characterized by neutron scattering.	Zaccai G, Natali F, Peters J, Rihova M, Zimmerman E, Ollivier J, Combet J, Maurel MC, Bashan A, Yonath A.	Sci Rep	10.1038/srep37138	2016
Enzymology	Cloning, Expression, Characterization and Immobilization of a Recombinant Carboxylesterase from the Halophilic Archaeon, Halobacterium salinarum NCR-1.	Ortega-de la Rosa ND, Romero-Borbon E, Rodriguez JA, Camacho-Ruiz A, Cordova J.	Biomolecules	10.3390/biom14050534	2024
	Phototaxis of Haloarcula marismortui revealed through a novel microbial motion analysis algorithm.	Lin YC, Fu HY, Yang CS.	Photochem Photobiol	10.1111/j.1751-1097.2010.00768.x	2010
	Thirty years of heme catalases structural biology.	Diaz A, Loewen PC, Fita I, Carpena X.	Arch Biochem Biophys	10.1016/j.abb.2011.12.011	2012
Metabolism	N-linked glycosylation in Archaea: two paths to the same glycan.	Guerry P.	Mol Microbiol	10.1111/j.1365-2958.2011.07782.x	2011
	tRNA lysidinylation is essential for the minimal translation system in the Plasmodium falciparum apicoplast.	Elahi R, Prigge ST.	EMBO Rep	10.1038/s44319-025-00420-w	2025
	Girolline is a sequence context-selective modulator of eIF5A activity.	Schneider-Poetsch T, Dang Y, Iwasaki W, Arata M, Shichino Y, Al Mourabit A, Moriou C, Romo D, Liu JO, Ito T, Iwasaki S, Yoshida M.	Nat Commun	10.1038/s41467-024-54838-2	2025
Metabolism	Deciphering Pathways for Carotenogenesis in Haloarchaea.	Giani M, Miralles-Robledillo JM, Peiro G, Pire C, Martinez-Espinosa RM.	Molecules	10.3390/molecules25051197	2020
Metabolism	Specific cellular water dynamics observed in vivo by neutron scattering and NMR.	Jasnin M, Stadler A, Tehei M, Zaccai G.	Phys Chem Chem Phys	10.1039/c0cp01048k	2010
	The 23S Ribosomal RNA From Pyrococcus furiosus Is Circularly Permuted.	Birkedal U, Beckert B, Wilson DN, Nielsen H.	Front Microbiol	10.3389/fmicb.2020.582022	2020
	Exploiting a heterologous construction of the 3-hydroxypropionic acid carbon fixation pathway with mesaconate as an indicator in Saccharomyces cerevisiae.	Xu S, Qiao W, Wang Z, Fu X, Liu Z, Shi S.	Bioresour Bioprocess	10.1186/s40643-023-00652-5	2023
	RiboVision suite for visualization and analysis of ribosomes.	Bernier CR, Petrov AS, Waterbury CC, Jett J, Li F, Freil LE, Xiong X, Wang L, Migliozzi BL, Hershkovits E, Xue Y, Hsiao C, Bowman JC, Harvey SC, Grover MA, Wartell ZJ, Williams LD.	Faraday Discuss	10.1039/c3fd00126a	2014
	First Observation of an Acetate Switch in a Methanogenic Autotroph (Methanococcus maripaludis S2).	Vo CH, Goyal N, Karimi IA, Kraft M.	Microbiol Insights	10.1177/1178636120945300	2020
	Binding site for Xenopus ribosomal protein L5 and accompanying structural changes in 5S rRNA.	Scripture JB, Huber PW.	Biochemistry	10.1021/bi200286e	2011
	In vivo structure probing of RNA in Archaea: novel insights into the ribosome structure of Methanosarcina acetivorans.	Williams AM, Jolley EA, Santiago-Martinez MG, Chan CX, Gutell RR, Ferry JG, Bevilacqua PC.	RNA	10.1261/rna.079687.123	2023
	Involvement of ArlI, ArlJ, and CirA in archaeal type IV pilin-mediated motility regulation.	Chatterjee P, Garcia MA, Cote JA, Yun K, Legerme GP, Habib R, Tripepi M, Young C, Kulp D, Dyall-Smith M, Pohlschroder M.	J Bacteriol	10.1128/jb.00089-24	2024
	A New Record for Microbial Perchlorate Tolerance: Fungal Growth in NaClO₄ Brines and its Implications for Putative Life on Mars.	Heinz J, Krahn T, Schulze-Makuch D.	Life (Basel)	10.3390/life10050053	2020
Metabolism	Insight into a single halobacterium using a dual-bacteriorhodopsin system with different functionally optimized pH ranges to cope with periplasmic pH changes associated with continuous light illumination.	Fu HY, Yi HP, Lu YH, Yang CS.	Mol Microbiol	10.1111/mmi.12208	2013
	Comparative Assessment of Docking Programs for Docking and Virtual Screening of Ribosomal Oxazolidinone Antibacterial Agents.	Buckley ME, Ndukwe ARN, Nair PC, Rana S, Fairfull-Smith KE, Gandhi NS.	Antibiotics (Basel)	10.3390/antibiotics12030463	2023
	Principles of ion binding to RNA inferred from the analysis of a 1.55 Å resolution bacterial ribosome structure - Part I: Mg2.	Leonarski F, Henning-Knechtel A, Kirmizialtin S, Ennifar E, Auffinger P.	Nucleic Acids Res	10.1093/nar/gkae1148	2025
	Nucleotide Dynamics at the A-Site Cleft in the Peptidyltransferase Center of H. marismortui 50S Ribosomal Subunits.	Wang Y, Shen JK, Schroeder SJ.	J Phys Chem Lett	10.1021/jz3001882	2012
Metabolism	Alternative flagellar filament types in the haloarchaeon Haloarcula marismortui.	Pyatibratov MG, Beznosov SN, Rachel R, Tiktopulo EI, Surin AK, Syutkin AS, Fedorov OV.	Can J Microbiol	10.1139/w08-076	2008
	Molecular Mechanism of Staphylococcus xylosus Resistance Against Tylosin and Florfenicol.	Chen M, Li Y, Li S, Cui W, Zhou Y, Qu Q, Che R, Li L, Yuan S, Liu X.	Infect Drug Resist	10.2147/idr.s379264	2022
	Characterization of Polyhydroxybutyrate, PHB, Synthesized by Newly Isolated Haloarchaea Halolamina spp.	Hagagy N, Saddiq AA, Tag HM, Selim S, AbdElgawad H, Martinez-Espinosa RM.	Molecules	10.3390/molecules27217366	2022
Enzymology	Discovery of bacteriorhodopsins in Haloarchaeal species isolated from Indian solar salterns: deciphering the role of the N-terminal residues in protein folding and functional expression.	Verma DK, Baral I, Kumar A, Prasad SE, Thakur KG.	Microb Biotechnol	10.1111/1751-7915.13359	2019
Enzymology	First evidence for the salt-dependent folding and activity of an esterase from the halophilic archaea Haloarcula marismortui.	Muller-Santos M, de Souza EM, Pedrosa Fde O, Mitchell DA, Longhi S, Carriere F, Canaan S, Krieger N.	Biochim Biophys Acta	10.1016/j.bbalip.2009.03.006	2009
Enzymology	Production and characterization of esterase and lipase from Haloarcula marismortui.	Camacho RM, Mateos JC, Gonzalez-Reynoso O, Prado LA, Cordova J.	J Ind Microbiol Biotechnol	10.1007/s10295-009-0568-1	2009
	A novel pleuromutilin antibacterial compound, its binding mode and selectivity mechanism.	Eyal Z, Matzov D, Krupkin M, Paukner S, Riedl R, Rozenberg H, Zimmerman E, Bashan A, Yonath A.	Sci Rep	10.1038/srep39004	2016
Metabolism	Potassium stress growth characteristics and energetics in the haloarchaeon Haloarcula marismortui.	Jensen MW, Matlock SA, Reinheimer CH, Lawlor CJ, Reinheimer TA, Gorrell A.	Extremophiles	10.1007/s00792-014-0716-z	2015
Genetics	Metagenomic sequence of saline desert microbiota from wild ass sanctuary, Little Rann of Kutch, Gujarat, India.	Patel R, Mevada V, Prajapati D, Dudhagara P, Koringa P, Joshi CG.	Genom Data	10.1016/j.gdata.2015.01.003	2015
	Insights into the improved macrolide inhibitory activity from the high-resolution cryo-EM structure of dirithromycin bound to the E. coli 70S ribosome.	Pichkur EB, Paleskava A, Tereshchenkov AG, Kasatsky P, Komarova ES, Shiriaev DI, Bogdanov AA, Dontsova OA, Osterman IA, Sergiev PV, Polikanov YS, Myasnikov AG, Konevega AL.	RNA	10.1261/rna.073817.119	2020
	Structural insights from water-ferredoxin interaction in mesophilic algae and halophilic archaea.	Bandyopadhyay AK, Islam RNU, Mitra D, Banerjee S, Goswami A.	Bioinformation	10.6026/97320630015079	2019
	Crystal structure of Escherichia coli-expressed Haloarcula marismortui bacteriorhodopsin I in the trimeric form.	Shevchenko V, Gushchin I, Polovinkin V, Round E, Borshchevskiy V, Utrobin P, Popov A, Balandin T, Buldt G, Gordeliy V.	PLoS One	10.1371/journal.pone.0112873	2014
	Effective in silico prediction of new oxazolidinone antibiotics: force field simulations of the antibiotic-ribosome complex supervised by experiment and electronic structure methods.	Grunenberg J, Licari G.	Beilstein J Org Chem	10.3762/bjoc.12.45	2016
	Intragenomic 16S rDNA divergence in Haloarcula marismortui is an adaptation to different temperatures.	Lopez-Lopez A, Benlloch S, Bonfa M, Rodriguez-Valera F, Mira A.	J Mol Evol	10.1007/s00239-007-9047-3	2007
	Naturally occurring three-way junctions can be repurposed as genetically encoded RNA-based sensors.	Moon JD, Wu J, Dey SK, Litke JL, Li X, Kim H, Jaffrey SR.	Cell Chem Biol	10.1016/j.chembiol.2021.04.022	2021
Metabolism	Peeling the onion: ribosomes are ancient molecular fossils.	Hsiao C, Mohan S, Kalahar BK, Williams LD.	Mol Biol Evol	10.1093/molbev/msp163	2009
Enzymology	Influence of an anion-binding site in the stabilization of halophilic malate dehydrogenase from Haloarcula marismortui.	Madern D, Ebel C.	Biochimie	10.1016/j.biochi.2007.03.008	2007
Genetics	Expansion segments in bacterial and archaeal 5S ribosomal RNAs.	Stepanov VG, Fox GE.	RNA	10.1261/rna.077123.120	2021
Metabolism	Identification and characterization of alkaline phosphatase gene phoX in Microcystis aeruginosa PCC7806.	Hong S, Pan Q, Chen S, Zu Y, Xu C, Li J.	3 Biotech	10.1007/s13205-021-02774-z	2021
	Crystal structure of the oxazolidinone antibiotic linezolid bound to the 50S ribosomal subunit.	Ippolito JA, Kanyo ZF, Wang D, Franceschi FJ, Moore PB, Steitz TA, Duffy EM.	J Med Chem	10.1021/jm800379d	2008
	Survival, metabolic activity, and ultrastructural damages of Antarctic black fungus in perchlorates media.	Cassaro A, Pacelli C, Onofri S.	Front Microbiol	10.3389/fmicb.2022.992077	2022
	Entanglements of structure elements revealed in RNA 3D models.	Popenda M, Zok T, Sarzynska J, Korpeta A, Adamiak RW, Antczak M, Szachniuk M.	Nucleic Acids Res	10.1093/nar/gkab716	2021
	Specialised ribosomes as versatile regulators of gene expression.	Joo M, Yeom JH, Choi Y, Jun H, Song W, Kim HL, Lee K, Shin E.	RNA Biol	10.1080/15476286.2022.2135299	2022
Metabolism	Structure of the base of the L7/L12 stalk of the Haloarcula marismortui large ribosomal subunit: analysis of L11 movements.	Kavran JM, Steitz TA.	J Mol Biol	10.1016/j.jmb.2007.05.091	2007
	Anomalous sub-diffusion of water in biosystems: From hydrated protein powders to concentrated protein solution to living cells.	Li R, Liu Z, Li L, Huang J, Yamada T, Sakai VG, Tan P, Hong L.	Struct Dyn	10.1063/4.0000036	2020
Pathogenicity	Elements of ribosomal drug resistance and specificity.	Blaha GM, Polikanov YS, Steitz TA.	Curr Opin Struct Biol	10.1016/j.sbi.2012.07.016	2012
Pathogenicity	Engineered Bacteriorhodopsin May Induce Lung Cancer Cell Cycle Arrest and Suppress Their Proliferation and Migration.	Wong CW, Ko LN, Huang HJ, Yang CS, Hsu SH.	Molecules	10.3390/molecules26237344	2021
Metabolism	Crossing the membrane in Archaea, the third domain of life.	Calo D, Eichler J.	Biochim Biophys Acta	10.1016/j.bbamem.2010.03.020	2011
Metabolism	Haloarcula marismortui cytochrome b-561 is encoded by the narC gene in the dissimilatory nitrate reductase operon.	Yoshimatsu K, Araya O, Fujiwara T.	Extremophiles	10.1007/s00792-006-0016-3	2007
	Photochemistry of a putative new class of sensory rhodopsin (SRIII) coded by xop2 of Haloarcular marismortui.	Nakao Y, Kikukawa T, Shimono K, Tamogami J, Kimitsuki N, Nara T, Unno M, Ihara K, Kamo N.	J Photochem Photobiol B	10.1016/j.jphotobiol.2010.09.004	2011
Metabolism	Role of chirality of the sugar ring in the ribosomal peptide synthesis.	Thirumoorthy K, Nandi N.	J Phys Chem B	10.1021/jp8032066	2008
Genetics	Flotillin-associated rhodopsin (FArhodopsin), a widespread paralog of proteorhodopsin in aquatic bacteria with streamlined genomes.	Haro-Moreno JM, Lopez-Perez M, Alekseev A, Podoliak E, Kovalev K, Gordeliy V, Stepanauskas R, Rodriguez-Valera F.	mSystems	10.1128/msystems.00008-23	2023
	Misprediction of Structural Disorder in Halophiles.	Pancsa R, Kovacs D, Tompa P.	Molecules	10.3390/molecules24030479	2019
Metabolism	Structural variation and uniformity among tetraloop-receptor interactions and other loop-helix interactions in RNA crystal structures.	Wu L, Chai D, Fraser ME, Zimmerly S.	PLoS One	10.1371/journal.pone.0049225	2012
	Tiamulin-Resistant Mutants of the Thermophilic Bacterium Thermus thermophilus.	Killeavy EE, Jogl G, Gregory ST.	Antibiotics (Basel)	10.3390/antibiotics9060313	2020
	Systematic Exploration of Functional Group Relevance for Anti-Leishmanial Activity of Anisomycin.	Nguyen AMT, Shalev-Benami M, Rosa-Teijeiro C, Ibarra-Meneses AV, Yonath A, Bashan A, Jaffe CL, Olivier M, Fernandez-Prada C, Lubell WD.	Biomedicines	10.3390/biomedicines11092541	2023
	Structure of a two-domain N-terminal fragment of ribosomal protein L10 from Methanococcus jannaschii reveals a specific piece of the archaeal ribosomal stalk.	Kravchenko O, Mitroshin I, Nikonov S, Piendl W, Garber M.	J Mol Biol	10.1016/j.jmb.2010.04.017	2010
	Surviving salt fluctuations: stress and recovery in Halobacterium salinarum, an extreme halophilic Archaeon.	Vauclare P, Natali F, Kleman JP, Zaccai G, Franzetti B.	Sci Rep	10.1038/s41598-020-59681-1	2020
	Schiff Base Proton Acceptor Assists Photoisomerization of Retinal Chromophores in Bacteriorhodopsin.	Hung CC, Chen XR, Ko YK, Kobayashi T, Yang CS, Yabushita A.	Biophys J	10.1016/j.bpj.2017.05.015	2017
	The human large subunit ribosomal protein L36A-like contacts the CCA end of P-site bound tRNA.	Baouz S, Woisard A, Sinapah S, Le Caer JP, Argentini M, Bulygin K, Aguie G, Hountondji C.	Biochimie	10.1016/j.biochi.2009.07.013	2009
	DoubleHelix: nucleic acid sequence identification, assignment and validation tool for cryo-EM and crystal structure models.	Chojnowski G.	Nucleic Acids Res	10.1093/nar/gkad553	2023
	Specific radiation damage to acidic residues and its relation to their chemical and structural environment.	Fioravanti E, Vellieux FM, Amara P, Madern D, Weik M.	J Synchrotron Radiat	10.1107/s0909049506038623	2007
	Gene replacement in Haloarcula marismortui: construction of a strain with two of its three chromosomal rRNA operons deleted.	Tu D, Blaha G, Moore PB, Steitz TA.	Extremophiles	10.1007/s00792-005-0459-y	2005
Pathogenicity	The toxin-antitoxin RNA guards of CRISPR-Cas evolved high specificity through repeat degeneration.	Cheng F, Wu A, Liu C, Cao X, Wang R, Shu X, Wang L, Zhang Y, Xiang H, Li M.	Nucleic Acids Res	10.1093/nar/gkac712	2022
	The PDB and the ribosome.	Moore PB.	J Biol Chem	10.1016/j.jbc.2021.100561	2021
Enzymology	AMP-forming acetyl-CoA synthetase from the extremely halophilic archaeon Haloarcula marismortui: purification, identification and expression of the encoding gene, and phylogenetic affiliation.	Brasen C, Schonheit P.	Extremophiles	10.1007/s00792-005-0449-0	2005
Metabolism	Regulation of acetate and acetyl-CoA converting enzymes during growth on acetate and/or glucose in the halophilic archaeon Haloarcula marismortui.	Brasen C, Schonheit P.	FEMS Microbiol Lett	10.1016/j.femsle.2004.09.033	2004
	tRNA-isoleucine-tryptophan composite gene.	Ghosh Z, Chakrabarti J, Mallick B, Das S, Sahoo S, Sethi HS.	Biochem Biophys Res Commun	10.1016/j.bbrc.2005.10.183	2006
	The archaeon Haloarcula marismortui has few modifications in the central parts of its 23S ribosomal RNA.	Kirpekar F, Hansen LH, Rasmussen A, Poehlsgaard J, Vester B.	J Mol Biol	10.1016/j.jmb.2005.03.009	2005
	The geometry of the ribosomal polypeptide exit tunnel.	Voss NR, Gerstein M, Steitz TA, Moore PB.	J Mol Biol	10.1016/j.jmb.2006.05.023	2006
	Effect of Carbon Sources in Carotenoid Production from Haloarcula sp. M1, Halolamina sp. M3 and Halorubrum sp. M5, Halophilic Archaea Isolated from Sonora Saltern, Mexico.	Vazquez-Madrigal AS, Barbachano-Torres A, Arellano-Plaza M, Kirchmayr MR, Finore I, Poli A, Nicolaus B, De la Torre Zavala S, Camacho-Ruiz RM.	Microorganisms	10.3390/microorganisms9051096	2021
Stress	Intrinsic Disorder-Based Design of Stable Globular Proteins.	Nagibina GS, Glukhova KA, Uversky VN, Melnik TN, Melnik BS.	Biomolecules	10.3390/biom10010064	2019
Metabolism	Species-specific antibiotic-ribosome interactions: implications for drug development.	Wilson DN, Harms JM, Nierhaus KH, Schlunzen F, Fucini P.	Biol Chem	10.1515/bc.2005.141	2005
	The Bacillus subtilis open reading frame ysgA encodes the SPOUT methyltransferase RlmP forming 2'-O-methylguanosine at position 2553 in the A-loop of 23S rRNA.	Roovers M, Labar G, Wolff P, Feller A, Van Elder D, Soin R, Gueydan C, Kruys V, Droogmans L.	RNA	10.1261/rna.079131.122	2022
	Evaluating DCA-based method performances for RNA contact prediction by a well-curated data set.	Pucci F, Zerihun MB, Peter EK, Schug A.	RNA	10.1261/rna.073809.119	2020
Pathogenicity	Modulating Immune Response with Nucleic Acid Nanoparticles.	Durbin JK, Miller DK, Niekamp J, Khisamutdinov EF.	Molecules	10.3390/molecules24203740	2019
	Cryo-electron microscopy structure and translocation mechanism of the crenarchaeal ribosome.	Wang YH, Dai H, Zhang L, Wu Y, Wang J, Wang C, Xu CH, Hou H, Yang B, Zhu Y, Zhang X, Zhou J.	Nucleic Acids Res	10.1093/nar/gkad661	2023
	Genome-wide transcriptional response to silver stress in extremely halophilic archaeon Haloferax alexandrinus DSM 27206^T.	Buda DM, Szekeres E, Tudoran LB, Esclapez J, Banciu HL.	BMC Microbiol	10.1186/s12866-023-03133-z	2023
Pathogenicity	On the structural basis of peptide-bond formation and antibiotic resistance from atomic structures of the large ribosomal subunit.	Steitz TA.	FEBS Lett	10.1016/j.febslet.2004.11.053	2005
	Structural insights into the roles of water and the 2' hydroxyl of the P site tRNA in the peptidyl transferase reaction.	Schmeing TM, Huang KS, Kitchen DE, Strobel SA, Steitz TA.	Mol Cell	10.1016/j.molcel.2005.09.006	2005
	HwMR is a novel magnesium-associated protein.	Ko LN, Lim GZ, Chen XR, Cai CJ, Liu KT, Yang CS.	Biophys J	10.1016/j.bpj.2022.06.010	2022
	Secondary structures of rRNAs from all three domains of life.	Petrov AS, Bernier CR, Gulen B, Waterbury CC, Hershkovits E, Hsiao C, Harvey SC, Hud NV, Fox GE, Wartell RM, Williams LD.	PLoS One	10.1371/journal.pone.0088222	2014
Metabolism	Sucrose Metabolism in Haloarchaea: Reassessment Using Genomics, Proteomics, and Metagenomics.	Williams TJ, Allen MA, Liao Y, Raftery MJ, Cavicchioli R.	Appl Environ Microbiol	10.1128/aem.02935-18	2019
Enzymology	Unusual ADP-forming acetyl-coenzyme A synthetases from the mesophilic halophilic euryarchaeon Haloarcula marismortui and from the hyperthermophilic crenarchaeon Pyrobaculum aerophilum.	Brasen C, Schonheit P.	Arch Microbiol	10.1007/s00203-004-0702-4	2004
Metabolism	An induced-fit mechanism to promote peptide bond formation and exclude hydrolysis of peptidyl-tRNA.	Schmeing TM, Huang KS, Strobel SA, Steitz TA.	Nature	10.1038/nature04152	2005
	Genomic survey of sequence features for ultraviolet tolerance in Haloarchaea (family Halobacteriaceae).	Zhou P, Wen J, Oren A, Chen M, Wu M.	Genomics	10.1016/j.ygeno.2007.03.015	2007
	De novo discovery of structural motifs in RNA 3D structures through clustering.	Ge P, Islam S, Zhong C, Zhang S.	Nucleic Acids Res	10.1093/nar/gky139	2018
Metabolism	Role of ribosomal protein L27 in peptidyl transfer.	Trobro S, Aqvist J.	Biochemistry	10.1021/bi8001874	2008
Metabolism	Structures of triacetyloleandomycin and mycalamide A bind to the large ribosomal subunit of Haloarcula marismortui.	Gurel G, Blaha G, Steitz TA, Moore PB.	Antimicrob Agents Chemother	10.1128/aac.00817-09	2009
Metabolism	Homochiral preference in peptide synthesis in ribosome: role of amino terminal, peptidyl terminal, and U2620.	Thirumoorthy K, Nandi N.	J Phys Chem B	10.1021/jp073959i	2007
	Identification and Characterization of New RNA Tetraloop Sequence Families.	Richardson KE, Adams MS, Kirkpatrick CC, Gohara DW, Znosko BM.	Biochemistry	10.1021/acs.biochem.9b00535	2019
	Using Haloarcula marismortui bacteriorhodopsin as a fusion tag for enhancing and visible expression of integral membrane proteins in Escherichia coli.	Hsu MF, Yu TF, Chou CC, Fu HY, Yang CS, Wang AH.	PLoS One	10.1371/journal.pone.0056363	2013
	Revisiting N-glycosylation in Halobacterium salinarum: Characterizing a dolichol phosphate- and glycoprotein-bound tetrasaccharide.	Vershinin Z, Zaretsky M, Guan Z, Eichler J.	Glycobiology	10.1093/glycob/cwab080	2021
	Structural basis of Cfr-mediated antimicrobial resistance and mechanisms to evade it.	Aleksandrova EV, Wu KJY, Tresco BIC, Syroegin EA, Killeavy EE, Balasanyants SM, Svetlov MS, Gregory ST, Atkinson GC, Myers AG, Polikanov YS.	Nat Chem Biol	10.1038/s41589-023-01525-w	2024
	An alternative pathway for reduced folate biosynthesis in bacteria and halophilic archaea.	Levin I, Giladi M, Altman-Price N, Ortenberg R, Mevarech M.	Mol Microbiol	10.1111/j.1365-2958.2004.04339.x	2004
Enzymology	Crystal structure of a dodecameric tetrahedral-shaped aminopeptidase.	Russo S, Baumann U.	J Biol Chem	10.1074/jbc.m409455200	2004
Metabolism	Trigger factor in complex with the ribosome forms a molecular cradle for nascent proteins.	Ferbitz L, Maier T, Patzelt H, Bukau B, Deuerling E, Ban N.	Nature	10.1038/nature02899	2004
	Diversity of base-pair conformations and their occurrence in rRNA structure and RNA structural motifs.	Lee JC, Gutell RR.	J Mol Biol	10.1016/j.jmb.2004.09.072	2004
	Customized exogenous ferredoxin functions as an efficient electron carrier.	Song Z, Wei C, Li C, Gao X, Mao S, Lu F, Qin HM.	Bioresour Bioprocess	10.1186/s40643-021-00464-5	2021
	Topology independent comparison of RNA 3D structures using the CLICK algorithm.	Nguyen MN, Sim AY, Wan Y, Madhusudhan MS, Verma C.	Nucleic Acids Res	10.1093/nar/gkw819	2017
	In vitro reconstitution and characterisation of the oxidative D-xylose pathway for production of organic acids and alcohols.	Boer H, Andberg M, Pylkkanen R, Maaheimo H, Koivula A.	AMB Express	10.1186/s13568-019-0768-7	2019
	Differential Paralog-Specific Expression of Multiple Small Subunit Proteins Cause Variations in Rpl42/eL42 Incorporation in Ribosome in Fission Yeast.	Li W, Zhang J, Cheng W, Li Y, Feng J, Qin J, He X.	Cells	10.3390/cells11152381	2022
	Crystal structure of eukaryotic ribosome and its complexes with inhibitors.	Yusupova G, Yusupov M.	Philos Trans R Soc Lond B Biol Sci	10.1098/rstb.2016.0184	2017
Enzymology	The 2.0 A crystal structure of catalase-peroxidase from Haloarcula marismortui.	Yamada Y, Fujiwara T, Sato T, Igarashi N, Tanaka N.	Nat Struct Biol	10.1038/nsb834	2002
	A Proteorhodopsin-Related Photosensor Expands the Repertoire of Structural Motifs Employed by Sensory Rhodopsins.	Saliminasab M, Yamazaki Y, Palmateer A, Harris A, Schubert L, Langner P, Heberle J, Bondar AN, Brown LS.	J Phys Chem B	10.1021/acs.jpcb.3c04032	2023
	A comparison of the crystal structures of eukaryotic and bacterial SSU ribosomal RNAs reveals common structural features in the hypervariable regions.	Lee JC, Gutell RR.	PLoS One	10.1371/journal.pone.0038203	2012
Enzymology	Sequence and electron paramagnetic resonance analyses of nitrate reductase NarGH from a denitrifying halophilic euryarchaeote Haloarcula marismortui.	Yoshimatsu K, Iwasaki T, Fujiwara T.	FEBS Lett	10.1016/s0014-5793(02)02524-3	2002
Genetics	Microbial Community Structure and Functional Potential in Cultivated and Native Tallgrass Prairie Soils of the Midwestern United States.	Mackelprang R, Grube AM, Lamendella R, Jesus EDC, Copeland A, Liang C, Jackson RD, Rice CW, Kapucija S, Parsa B, Tringe SG, Tiedje JM, Jansson JK.	Front Microbiol	10.3389/fmicb.2018.01775	2018
	Determining the N-terminal orientations of recombinant transmembrane proteins in the Escherichia coli plasma membrane.	Lee CH, Chou CC, Hsu MF, Wang AH.	Sci Rep	10.1038/srep15086	2015
	RNA, the first macromolecular catalyst: the ribosome is a ribozyme.	Steitz TA, Moore PB.	Trends Biochem Sci	10.1016/s0968-0004(03)00169-5	2003
	Protective role of salt in catalysis and maintaining structure of halophilic proteins against denaturation.	Sinha R, Khare SK.	Front Microbiol	10.3389/fmicb.2014.00165	2014
Genetics	Characterization of promoters in archaeal genomes based on DNA structural parameters.	Martinez GS, Sarkar S, Kumar A, Perez-Rueda E, de Avila E Silva S.	Microbiologyopen	10.1002/mbo3.1230	2021
Enzymology	The Oligomeric states of Haloarcula marismortui malate dehydrogenase are modulated by solvent components as shown by crystallographic and biochemical studies.	Irimia A, Ebel C, Madern D, Richard SB, Cosenza LW, Zaccai G, Vellieux FM.	J Mol Biol	10.1016/s0022-2836(02)01450-x	2003
	The roles of ribosomal proteins in the structure assembly, and evolution of the large ribosomal subunit.	Klein DJ, Moore PB, Steitz TA.	J Mol Biol	10.1016/j.jmb.2004.03.076	2004
Metabolism	The methylaspartate cycle in haloarchaea and its possible role in carbon metabolism.	Borjian F, Han J, Hou J, Xiang H, Berg IA.	ISME J	10.1038/ismej.2015.132	2016
Enzymology	Crystallization and preliminary X-ray analysis of catalase-peroxidase from the halophilic archaeon Haloarcula marismortui.	Yamada Y, Saijo S, Sato T, Igarashi N, Usui H, Fujiwara T, Tanaka N.	Acta Crystallogr D Biol Crystallogr	10.1107/s0907444901008927	2001
	Crystallographic analysis of RsmA, a ribosomal RNA small subunit methyltransferase A from Staphylococcus aureus.	Liu Y, Zhu Y, Teng M, Li X.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x15011279	2015
	Structural basis for the inability of chloramphenicol to inhibit peptide bond formation in the presence of A-site glycine.	Syroegin EA, Aleksandrova EV, Polikanov YS.	Nucleic Acids Res	10.1093/nar/gkac548	2022
Metabolism	Ser(262) determines the chloride-dependent colour tuning of a new halorhodopsin from Haloquadratum walsbyi.	Fu HY, Chang YN, Jheng MJ, Yang CS.	Biosci Rep	10.1042/bsr20120054	2012
Metabolism	Adaptation to extreme environments: macromolecular dynamics in complex systems.	Tehei M, Zaccai G.	Biochim Biophys Acta	10.1016/j.bbagen.2005.05.007	2005
	Comparing Sediment Microbiomes in Contaminated and Pristine Wetlands along the Coast of Yucatan.	Navarrete-Euan H, Rodriguez-Escamilla Z, Perez-Rueda E, Escalante-Herrera K, Martinez-Nunez MA.	Microorganisms	10.3390/microorganisms9040877	2021
Metabolism	Production of Polyhydroxyalkanoates by Two Halophilic Archaeal Isolates from Chott El Jerid Using Inexpensive Carbon Sources.	Ben Abdallah M, Karray F, Sayadi S.	Biomolecules	10.3390/biom10010109	2020
	Direct proof for the presence and expression of two 5% different 16S rRNA genes in individual cells of Haloarcula marismortui.	Amann G, Stetter KO, Llobet-Brossa E, Amann R, Anton J.	Extremophiles	10.1007/s007920070007	2000
Metabolism	Modeling the highly specific ribotoxin recognition of ribosomes.	Garcia-Mayoral F, Garcia-Ortega L, Alvarez-Garcia E, Bruix M, Gavilanes JG, del Pozo AM.	FEBS Lett	10.1016/j.febslet.2005.11.027	2005
Metabolism	Different routes to the same ending: comparing the N-glycosylation processes of Haloferax volcanii and Haloarcula marismortui, two halophilic archaea from the Dead Sea.	Calo D, Guan Z, Naparstek S, Eichler J.	Mol Microbiol	10.1111/j.1365-2958.2011.07781.x	2011
Metabolism	Fructose degradation in the haloarchaeon Haloferax volcanii involves a bacterial type phosphoenolpyruvate-dependent phosphotransferase system, fructose-1-phosphate kinase, and class II fructose-1,6-bisphosphate aldolase.	Pickl A, Johnsen U, Schonheit P.	J Bacteriol	10.1128/jb.00200-12	2012
Phylogeny	Beyond Archaea: The Table Salt Bacteriome.	Satari L, Guillen A, Latorre-Perez A, Porcar M.	Front Microbiol	10.3389/fmicb.2021.714110	2021
	Rapid Shifts in Bacterial Community Assembly under Static and Dynamic Hydration Conditions in Porous Media.	Kleyer H, Tecon R, Or D.	Appl Environ Microbiol	10.1128/aem.02057-19	2019
	The search for traces of life: the protective effect of salt on biological macromolecules.	Tehei M, Franzetti B, Maurel MC, Vergne J, Hountondji C, Zaccai G.	Extremophiles	10.1007/s00792-002-0275-6	2002
	Revisiting GNRA and UNCG folds: U-turns versus Z-turns in RNA hairpin loops.	D'Ascenzo L, Leonarski F, Vicens Q, Auffinger P.	RNA	10.1261/rna.059097.116	2017
	Crystallographic analysis of archaeal ribosomal protein L11.	Mitroshin I, Garber M, Gabdulkhakov A.	Acta Crystallogr F Struct Biol Commun	10.1107/s2053230x15011395	2015
	A tRNA modification with aminovaleramide facilitates AUA decoding in protein synthesis.	Miyauchi K, Kimura S, Akiyama N, Inoue K, Ishiguro K, Vu TS, Srisuknimit V, Koyama K, Hayashi G, Soma A, Nagao A, Shirouzu M, Okamoto A, Waldor MK, Suzuki T.	Nat Chem Biol	10.1038/s41589-024-01726-x	2025
	Macrolide resistance from the ribosome perspective.	Franceschi F, Kanyo Z, Sherer EC, Sutcliffe J.	Curr Drug Targets Infect Disord	10.2174/1568005043340740	2004
Metabolism	Key Enzymes of the Semiphosphorylative Entner-Doudoroff Pathway in the Haloarchaeon Haloferax volcanii: Characterization of Glucose Dehydrogenase, Gluconate Dehydratase, and 2-Keto-3-Deoxy-6-Phosphogluconate Aldolase.	Sutter JM, Tastensen JB, Johnsen U, Soppa J, Schonheit P.	J Bacteriol	10.1128/jb.00286-16	2016
Enzymology	Link between protein-solvent and weak protein-protein interactions gives insight into halophilic adaptation.	Costenaro L, Zaccai G, Ebel C.	Biochemistry	10.1021/bi025830z	2002
Metabolism	Haloarchaea as Cell Factories to Produce Bioplastics.	Simo-Cabrera L, Garcia-Chumillas S, Hagagy N, Saddiq A, Tag H, Selim S, AbdElgawad H, Arribas Aguero A, Monzo Sanchez F, Canovas V, Pire C, Martinez-Espinosa RM.	Mar Drugs	10.3390/md19030159	2021
Metabolism	Purification and characterization of dissimilatory nitrate reductase from a denitrifying halophilic archaeon, Haloarcula marismortui.	Yoshimatsu K, Sakurai T, Fujiwara T.	FEBS Lett	10.1016/s0014-5793(00)01321-1	2000
Metabolism	The structures of four macrolide antibiotics bound to the large ribosomal subunit.	Hansen JL, Ippolito JA, Ban N, Nissen P, Moore PB, Steitz TA.	Mol Cell	10.1016/s1097-2765(02)00570-1	2002
	Whole Ribosome NMR: Dipolar Couplings and Contributions to Whole Cells.	Nygaard R, Romaniuk JAH, Rice DM, Cegelski L.	J Phys Chem B	10.1021/acs.jpcb.7b06736	2017
Metabolism	A fifth protein subunit Ph1496p elevates the optimum temperature for the ribonuclease P activity from Pyrococcus horikoshii OT3.	Fukuhara H, Kifusa M, Watanabe M, Terada A, Honda T, Numata T, Kakuta Y, Kimura M.	Biochem Biophys Res Commun	10.1016/j.bbrc.2006.02.192	2006
Genetics	Multi-Instance Metric Transfer Learning for Genome-Wide Protein Function Prediction.	Xu Y, Min H, Wu Q, Song H, Ye B.	Sci Rep	10.1038/srep41831	2017
	An archaellum filament composed of two alternating subunits.	Gambelli L, Isupov MN, Conners R, McLaren M, Bellack A, Gold V, Rachel R, Daum B.	Nat Commun	10.1038/s41467-022-28337-1	2022
Enzymology	Solvent interactions of halophilic malate dehydrogenase.	Ebel C, Costenaro L, Pascu M, Faou P, Kernel B, Proust-De Martin F, Zaccai G.	Biochemistry	10.1021/bi0258290	2002
Pathogenicity	Nitrate-Responsive Suppression of Dimethyl Sulfoxide Respiration in a Facultative Anaerobic Haloarchaeon, Haloferax volcanii.	Koyanagi I, Dohra H, Fujiwara T.	J Bacteriol	10.1128/jb.00655-20	2021
	Direct localization by cryo-electron microscopy of secondary structural elements in Escherichia coli 23 S rRNA which differ from the corresponding regions in Haloarcula marismortui.	Matadeen R, Sergiev P, Leonov A, Pape T, van der Sluis E, Mueller F, Osswald M, von Knoblauch K, Brimacombe R, Bogdanov A, van Heel M, Dontsova O.	J Mol Biol	10.1006/jmbi.2001.4547	2001
Metabolism	Effects of ionic strength on the folding and stability of SAMP1, a ubiquitin-like halophilic protein.	Mizukami T, Bedford JT, Liao S, Greene LH, Roder H.	Biophys J	10.1016/j.bpj.2022.01.010	2022
	Haloarcula marismortui 50S subunit-complementarity of electron microscopy and X-Ray crystallographic information.	Penczek P, Ban N, Grassucci RA, Agrawal RK, Frank J.	J Struct Biol	10.1006/jsbi.1999.4157	1999
	Revising the Structural Diversity of Ribosomal Proteins Across the Three Domains of Life.	Melnikov S, Manakongtreecheep K, Soll D.	Mol Biol Evol	10.1093/molbev/msy021	2018
Enzymology	Halophilic adaptation: novel solvent protein interactions observed in the 2.9 and 2.6 A resolution structures of the wild type and a mutant of malate dehydrogenase from Haloarcula marismortui.	Richard SB, Madern D, Garcin E, Zaccai G.	Biochemistry	10.1021/bi991001a	2000
	Conformational features of topologically classified RNA secondary structures.	Chiu JK, Chen YP.	PLoS One	10.1371/journal.pone.0039907	2012
	Purification and characterization of alkaline phosphatase from lactic acid bacteria.	Chu YH, Yu XX, Jin X, Wang YT, Zhao DJ, Zhang P, Sun GM, Zhang YH.	RSC Adv	10.1039/c8ra08921c	2018
Metabolism	Characterization of a novel complex from halophilic archaebacteria, which displays chaperone-like activities in vitro.	Franzetti B, Schoehn G, Ebel C, Gagnon J, Ruigrok RW, Zaccai G.	J Biol Chem	10.1074/jbc.m102098200	2001
	The lonepair triloop: a new motif in RNA structure.	Lee JC, Cannone JJ, Gutell RR.	J Mol Biol	10.1016/s0022-2836(02)01106-3	2003
Enzymology	Insights into the molecular relationships between malate and lactate dehydrogenases: structural and biochemical properties of monomeric and dimeric intermediates of a mutant of tetrameric L-[LDH-like] malate dehydrogenase from the halophilic archaeon Haloarcula marismortui.	Madern D, Ebel C, Mevarech M, Richard SB, Pfister C, Zaccai G.	Biochemistry	10.1021/bi9910023	2000
	Drug sensing by the ribosome induces translational arrest via active site perturbation.	Arenz S, Meydan S, Starosta AL, Berninghausen O, Beckmann R, Vazquez-Laslop N, Wilson DN.	Mol Cell	10.1016/j.molcel.2014.09.014	2014
Pathogenicity	Molecular basis for erythromycin-dependent ribosome stalling during translation of the ErmBL leader peptide.	Arenz S, Ramu H, Gupta P, Berninghausen O, Beckmann R, Vazquez-Laslop N, Mankin AS, Wilson DN.	Nat Commun	10.1038/ncomms4501	2014
	Expression, purification, crystallization and preliminary X-ray analysis of the Met244Ala variant of catalase-peroxidase (KatG) from the haloarchaeon Haloarcula marismortui.	Ten-I T, Kumasaka T, Higuchi W, Tanaka S, Yoshimatsu K, Fujiwara T, Sato T.	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/s1744309107046489	2007
Metabolism	Structure of Dirithromycin Bound to the Bacterial Ribosome Suggests New Ways for Rational Improvement of Macrolides.	Khabibullina NF, Tereshchenkov AG, Komarova ES, Syroegin EA, Shiriaev DI, Paleskava A, Kartsev VG, Bogdanov AA, Konevega AL, Dontsova OA, Sergiev PV, Osterman IA, Polikanov YS.	Antimicrob Agents Chemother	10.1128/aac.02266-18	2019
Enzymology	Structure of the C-terminal domain of the catalase-peroxidase KatG from Escherichia coli.	Carpena X, Melik-Adamyan W, Loewen PC, Fita I.	Acta Crystallogr D Biol Crystallogr	10.1107/s0907444904020621	2004
Metabolism	A pre-translocational intermediate in protein synthesis observed in crystals of enzymatically active 50S subunits.	Schmeing TM, Seila AC, Hansen JL, Freeborn B, Soukup JK, Scaringe SA, Strobel SA, Moore PB, Steitz TA.	Nat Struct Biol	10.1038/nsb758	2002
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Metabolism	The role of the zinc finger motif and of the residues at the amino terminus in the function of yeast ribosomal protein YL37a.	Dresios J, Chan YL, Wool IG.	J Mol Biol	10.1006/jmbi.2001.5374	2002
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Metabolism	Structural and Functional Studies of a Newly Grouped Haloquadratum walsbyi Bacteriorhodopsin Reveal the Acid-resistant Light-driven Proton Pumping Activity.	Hsu MF, Fu HY, Cai CJ, Yi HP, Yang CS, Wang AH.	J Biol Chem	10.1074/jbc.m115.685065	2015
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Pathogenicity	Structural adaptation of extreme halophilic proteins through decrease of conserved hydrophobic contact surface.	Siglioccolo A, Paiardini A, Piscitelli M, Pascarella S.	BMC Struct Biol	10.1186/1472-6807-11-50	2011
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Metabolism	The base of the ribosomal P stalk from Methanococcus jannaschii: crystallization and preliminary X-ray studies.	Mitroshin I, Gabdulkhakov A, Garber M.	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/s1744309113026729	2013
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Enzymology	Insights from the salt bridge analysis of malate dehydrogenase from H. salinarum and E.coli.	Bandyopadhyay AK, Islam RNU, Mitra D, Banerjee S, Yasmeen S, Goswami A.	Bioinformation	10.6026/97320630015095	2019
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Pathogenicity	High-resolution crystal structures of ribosome-bound chloramphenicol and erythromycin provide the ultimate basis for their competition.	Svetlov MS, Plessa E, Chen CW, Bougas A, Krokidis MG, Dinos GP, Polikanov YS.	RNA	10.1261/rna.069260.118	2019
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Metabolism	Characterization and expression of AMP-forming Acetyl-CoA Synthetase from Dunaliella tertiolecta and its response to nitrogen starvation stress.	Liang MH, Liang MH, Qv XY, Jin HH, Jiang JG.	Sci Rep	10.1038/srep23445	2016
Metabolism	Unusual Phosphoenolpyruvate (PEP) Synthetase-Like Protein Crucial to Enhancement of Polyhydroxyalkanoate Accumulation in Haloferax mediterranei Revealed by Dissection of PEP-Pyruvate Interconversion Mechanism.	Chen J, Mitra R, Zhang S, Zuo Z, Lin L, Zhao D, Xiang H, Han J.	Appl Environ Microbiol	10.1128/aem.00984-19	2019
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Enzymology	Differences in the oligomeric states of the LDH-like L-MalDH from the hyperthermophilic archaea Methanococcus jannaschii and Archaeoglobus fulgidus.	Madern D, Ebel C, Dale HA, Lien T, Steen IH, Birkeland NK, Zaccai G.	Biochemistry	10.1021/bi010168c	2001
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Genetics	Diversity and evolution of multiple orc/cdc6-adjacent replication origins in haloarchaea.	Wu Z, Liu H, Liu J, Liu X, Xiang H.	BMC Genomics	10.1186/1471-2164-13-478	2012
Metabolism	Structure of Erm-modified 70S ribosome reveals the mechanism of macrolide resistance.	Svetlov MS, Syroegin EA, Aleksandrova EV, Atkinson GC, Gregory ST, Mankin AS, Polikanov YS.	Nat Chem Biol	10.1038/s41589-020-00715-0	2021
Metabolism	Solution structure and function of a conserved protein SP14.3 encoded by an essential Streptococcus pneumoniae gene.	Yu L, Gunasekera AH, Mack J, Olejniczak ET, Chovan LE, Ruan X, Towne DL, Lerner CG, Fesik SW.	J Mol Biol	10.1006/jmbi.2001.4894	2001
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Metabolism	Binding and action of CEM-101, a new fluoroketolide antibiotic that inhibits protein synthesis.	Llano-Sotelo B, Dunkle J, Klepacki D, Zhang W, Fernandes P, Cate JH, Mankin AS.	Antimicrob Agents Chemother	10.1128/aac.00860-10	2010
Metabolism	Ribosomal protein eL39 is important for maturation of the nascent polypeptide exit tunnel and proper protein folding during translation.	Micic J, Rodriguez-Galan O, Babiano R, Fitzgerald F, Fernandez-Fernandez J, Zhang Y, Gao N, Woolford JL, de la Cruz J.	Nucleic Acids Res	10.1093/nar/gkac366	2022
Genetics	Back to the Salt Mines: Genome and Transcriptome Comparisons of the Halophilic Fungus Aspergillus salisburgensis and Its Halotolerant Relative Aspergillus sclerotialis.	Tafer H, Poyntner C, Lopandic K, Sterflinger K, Pinar G.	Genes (Basel)	10.3390/genes10050381	2019
Metabolism	Distal Proton Shuttle Mechanism of Ribosome Catalysed Peptide Bond Formation-A Theoretical Study.	Zhang X, Jiang Y, Mao Q, Tan H, Li X, Chen G, Jia Z.	Molecules	10.3390/molecules22040571	2017
Genetics	Genome information management and integrated data analysis with HaloLex.	Pfeiffer F, Broicher A, Gillich T, Klee K, Mejia J, Rampp M, Oesterhelt D.	Arch Microbiol	10.1007/s00203-008-0389-z	2008
	Side-chain recognition and gating in the ribosome exit tunnel.	Petrone PM, Snow CD, Lucent D, Pande VS.	Proc Natl Acad Sci U S A	10.1073/pnas.0801795105	2008
	Identification and codon reading properties of 5-cyanomethyl uridine, a new modified nucleoside found in the anticodon wobble position of mutant haloarchaeal isoleucine tRNAs.	Mandal D, Kohrer C, Su D, Babu IR, Chan CT, Liu Y, Soll D, Blum P, Kuwahara M, Dedon PC, Rajbhandary UL.	RNA	10.1261/rna.042358.113	2014
	Comparison of four phaC genes from Haloferax mediterranei and their function in different PHBV copolymer biosyntheses in Haloarcula hispanica.	Han J, Li M, Hou J, Wu L, Zhou J, Xiang H.	Saline Syst	10.1186/1746-1448-6-9	2010
	A Functional Role for the Monomethylated Gln-51 and Lys-53 Residues of the 49GGQTK53 Motif of eL42 from Human 80S Ribosomes.	Eustache S, Crechet JB, Bouceba T, Nakayama JI, Tanaka M, Suzuki M, Woisard A, Tuffery P, Baouz S, Hountondji C.	Open Biochem J	10.2174/1874091x01711010008	2017
Enzymology	Properties and primary structure of a thermostable L-malate dehydrogenase from Archaeoglobus fulgidus.	Langelandsvik AS, Steen IH, Birkeland NK, Lien T.	Arch Microbiol	10.1007/s002030050470	1997
Metabolism	Investigating the mechanism of ADP-forming acetyl-CoA synthetase from the protozoan parasite Entamoeba histolytica.	Jones CP, Khan K, Ingram-Smith C.	FEBS Lett	10.1002/1873-3468.12573	2017
	Quantifying the relationship between sequence and three-dimensional structure conservation in RNA.	Capriotti E, Marti-Renom MA.	BMC Bioinformatics	10.1186/1471-2105-11-322	2010
Enzymology	Cloning, sequencing, and expression in Escherichia coli of the gene coding for malate dehydrogenase of the extremely halophilic archaebacterium Haloarcula marismortui.	Cendrin F, Chroboczek J, Zaccai G, Eisenberg H, Mevarech M.	Biochemistry	10.1021/bi00067a020	1993
Genetics	The Exploration of Novel Regulatory Relationships Drives Haloarchaeal Operon-Like Structural Dynamics over Short Evolutionary Distances.	Seitzer P, Yao AI, Cisneros A, Facciotti MT.	Microorganisms	10.3390/microorganisms8121900	2020
Genetics	Characterization of the Microbial Population Inhabiting a Solar Saltern Pond of the Odiel Marshlands (SW Spain).	Gomez-Villegas P, Vigara J, Leon R.	Mar Drugs	10.3390/md16090332	2018
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Phylogeny	Gene duplication drives genome expansion in a major lineage of Thaumarchaeota.	Sheridan PO, Raguideau S, Quince C, Holden J, Zhang L, Thames Consortium, Williams TA, Gubry-Rangin C.	Nat Commun	10.1038/s41467-020-19132-x	2020
Phylogeny	Temperature-dependent expression of different guanine-plus-cytosine content 16S rRNA genes in Haloarcula strains of the class Halobacteria.	Sato Y, Kimura H.	Antonie Van Leeuwenhoek	10.1007/s10482-018-1144-3	2019
Metabolism	Tracing the Repertoire of Promiscuous Enzymes along the Metabolic Pathways in Archaeal Organisms.	Martinez-Nunez MA, Rodriguez-Escamilla Z, Rodriguez-Vazquez K, Perez-Rueda E.	Life (Basel)	10.3390/life7030030	2017
	Study of completed archaeal genomes and proteomes: hypothesis of strong mutational AT pressure existed in their common predecessor.	Khrustalev VV, Barkovsky EV.	Genomics Proteomics Bioinformatics	10.1016/s1672-0229(10)60003-4	2010
	Building a stable RNA U-turn with a protonated cytidine.	Gottstein-Schmidtke SR, Duchardt-Ferner E, Groher F, Weigand JE, Gottstein D, Suess B, Wohnert J.	RNA	10.1261/rna.043083.113	2014
	Salty sisters: The women of halophiles.	Baxter BK, Gunde-Cimerman N, Oren A.	Front Microbiol	10.3389/fmicb.2014.00192	2014
Pathogenicity	Madumycin II inhibits peptide bond formation by forcing the peptidyl transferase center into an inactive state.	Osterman IA, Khabibullina NF, Komarova ES, Kasatsky P, Kartsev VG, Bogdanov AA, Dontsova OA, Konevega AL, Sergiev PV, Polikanov YS.	Nucleic Acids Res	10.1093/nar/gkx413	2017
	Arrangement of 3D structural motifs in ribosomal RNA.	Sargsyan K, Lim C.	Nucleic Acids Res	10.1093/nar/gkq074	2010
	A secY homologous gene in the crenarchaeon Sulfolobus acidocaldarius.	Kath T, Schafer G.	Biochim Biophys Acta	10.1016/0167-4781(95)00165-d	1995
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	A protonated base pair participating in rRNA tertiary structural interactions.	Kubarenko AV, Sergiev PV, Bogdanov AA, Brimacombe R, Dontsova OA.	Nucleic Acids Res	10.1093/nar/29.24.5067	2001
	Design, Synthesis and Biological Evaluation of Conjugates of 3-O-Descladinose-azithromycin and Nucleobases against rRNA A2058G- or A2059G-Mutated Strains.	Lian X, Liu W, Fan B, Yu M, Liang J.	Molecules	10.3390/molecules28031327	2023
	Halophilic Bacteria of Lunsu Produce an Array of Industrially Important Enzymes with Salt Tolerant Activity.	Gupta S, Sharma P, Dev K, Sourirajan A.	Biochem Res Int	10.1155/2016/9237418	2016
Metabolism	N-glycosylation in the thermoacidophilic archaeon Sulfolobus acidocaldarius involves a short dolichol pyrophosphate carrier.	Guan Z, Delago A, Nussbaum P, Meyer B, Albers SV, Eichler J.	FEBS Lett	10.1002/1873-3468.12341	2016
Pathogenicity	Modeling the structural origins of drug resistance to isoniazid via key mutations in Mycobacterium tuberculosis catalase-peroxidase, KatG.	Marney MW, Metzger RP, Hecht D, Valafar F.	Tuberculosis (Edinb)	10.1016/j.tube.2017.11.007	2018
Enzymology	Biochemical characterisation of LigN, an NAD+-dependent DNA ligase from the halophilic euryarchaeon Haloferax volcanii that displays maximal in vitro activity at high salt concentrations.	Poidevin L, MacNeill SA.	BMC Mol Biol	10.1186/1471-2199-7-44	2006
	Role of the 37 kDa laminin receptor precursor in the life cycle of prions.	Rieger R, Lasmezas CI, Weiss S.	Transfus Clin Biol	10.1016/s1246-7820(99)80006-8	1999
Enzymology	Expression, purification, crystallization and preliminary crystallographic analysis of a deblocking aminopeptidase from Pyrococcus horikoshii.	Porciero S, Receveur-Brechot V, Mori K, Franzetti B, Roussel A.	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/s1744309105001910	2005
	Structural features that stabilize halophilic malate dehydrogenase from an archaebacterium.	Dym O, Mevarech M, Sussman JL.	Science	10.1126/science.267.5202.1344	1995
	Utilization of vinasse for production of poly-3-(hydroxybutyrate-co-hydroxyvalerate) by Haloferax mediterranei.	Bhattacharyya A, Pramanik A, Maji SK, Haldar S, Mukhopadhyay UK, Mukherjee J.	AMB Express	10.1186/2191-0855-2-34	2012
	Characterization and preliminary attempts for derivatization of crystals of large ribosomal subunits from Haloarcula marismortui diffracting to 3 A resolution.	von Bohlen K, Makowski I, Hansen HA, Bartels H, Berkovitch-Yellin Z, Zaytzev-Bashan A, Meyer S, Paulke C, Franceschi F, Yonath A.	J Mol Biol	10.1016/0022-2836(91)90730-t	1991
Metabolism	tRNA Modification Profiles and Codon-Decoding Strategies in Methanocaldococcus jannaschii.	Yu N, Jora M, Solivio B, Thakur P, Acevedo-Rocha CG, Randau L, de Crecy-Lagard V, Addepalli B, Limbach PA.	J Bacteriol	10.1128/jb.00690-18	2019
Enzymology	AglM and VNG1048G, Two Haloarchaeal UDP-Glucose Dehydrogenases, Show Different Salt-Related Behaviors.	Kandiba L, Eichler J.	Life (Basel)	10.3390/life6030031	2016
	Insights into protein adaptation to a saturated salt environment from the crystal structure of a halophilic 2Fe-2S ferredoxin.	Frolow F, Harel M, Sussman JL, Mevarech M, Shoham M.	Nat Struct Biol	10.1038/nsb0596-452	1996
	Iron mediates catalysis of nucleic acid processing enzymes: support for Fe(II) as a cofactor before the great oxidation event.	Okafor CD, Lanier KA, Petrov AS, Athavale SS, Bowman JC, Hud NV, Williams LD.	Nucleic Acids Res	10.1093/nar/gkx171	2017
	U2504 determines the species specificity of the A-site cleft antibiotics: the structures of tiamulin, homoharringtonine, and bruceantin bound to the ribosome.	Gurel G, Blaha G, Moore PB, Steitz TA.	J Mol Biol	10.1016/j.jmb.2009.04.005	2009
Metabolism	Manual annotation, transcriptional analysis, and protein expression studies reveal novel genes in the agl cluster responsible for N glycosylation in the halophilic archaeon Haloferax volcanii.	Yurist-Doutsch S, Eichler J.	J Bacteriol	10.1128/jb.01838-08	2009
Pathogenicity	Structural insights of lincosamides targeting the ribosome of Staphylococcus aureus.	Matzov D, Eyal Z, Benhamou RI, Shalev-Benami M, Halfon Y, Krupkin M, Zimmerman E, Rozenberg H, Bashan A, Fridman M, Yonath A.	Nucleic Acids Res	10.1093/nar/gkx658	2017
	rRNA mutants in the yeast peptidyltransferase center reveal allosteric information networks and mechanisms of drug resistance.	Rakauskaite R, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkm1179	2008
	Microbial diversity in Maras salterns, a hypersaline environment in the Peruvian Andes.	Maturrano L, Santos F, Rossello-Mora R, Anton J.	Appl Environ Microbiol	10.1128/aem.02214-05	2006
Metabolism	Cross-crystal averaging reveals that the structure of the peptidyl-transferase center is the same in the 70S ribosome and the 50S subunit.	Simonovic M, Steitz TA.	Proc Natl Acad Sci U S A	10.1073/pnas.0711076105	2008
Genetics	Diversity of 16S rRNA genes within individual prokaryotic genomes.	Pei AY, Oberdorf WE, Nossa CW, Agarwal A, Chokshi P, Gerz EA, Jin Z, Lee P, Yang L, Poles M, Brown SM, Sotero S, Desantis T, Brodie E, Nelson K, Pei Z.	Appl Environ Microbiol	10.1128/aem.02953-09	2010
Metabolism	Nanometer scale pores similar in size to the entrance of the ribosomal exit cavity are a common feature of large RNAs.	Rivas M, Tran Q, Fox GE.	RNA	10.1261/rna.038828.113	2013
	Analysis of six protein structures predicted by comparative modeling techniques.	Harrison RW, Chatterjee D, Weber IT.	Proteins	10.1002/prot.340230402	1995
Metabolism	An Approach to Heterologous Expression of Membrane Proteins. The Case of Bacteriorhodopsin.	Bratanov D, Balandin T, Round E, Shevchenko V, Gushchin I, Polovinkin V, Borshchevskiy V, Gordeliy V.	PLoS One	10.1371/journal.pone.0128390	2015
Metabolism	The unaccounted yet abundant nitrous oxide-reducing microbial community: a potential nitrous oxide sink.	Jones CM, Graf DR, Bru D, Philippot L, Hallin S.	ISME J	10.1038/ismej.2012.125	2013
Enzymology	Characterization of the proteasome from the extremely halophilic archaeon Haloarcula marismortui.	Franzetti B, Schoehn G, Garcia D, Ruigrok RW, Zaccai G.	Archaea	10.1155/2002/601719	2002
	AFAL: a web service for profiling amino acids surrounding ligands in proteins.	Arenas-Salinas M, Ortega-Salazar S, Gonzales-Nilo F, Pohl E, Holmes DS, Quatrini R.	J Comput Aided Mol Des	10.1007/s10822-014-9783-6	2014
Enzymology	Life in unusual environments: progress in understanding the structure and function of enzymes from extreme halophilic bacteria.	Eisenberg H.	Arch Biochem Biophys	10.1006/abbi.1995.1196	1995
Metabolism	Complete genome sequence of Halorhodospira halophila SL1.	Challacombe JF, Majid S, Deole R, Brettin TS, Bruce D, Delano SF, Detter JC, Gleasner CD, Han CS, Misra M, Reitenga KG, Mikhailova N, Woyke T, Pitluck S, Nolan M, Land ML, Saunders E, Tapia R, Lapidus A, Ivanova N, Hoff WD.	Stand Genomic Sci	10.4056/sigs.3677284	2013
Pathogenicity	Bacterial Cell Growth Inhibitors Targeting Undecaprenyl Diphosphate Synthase and Undecaprenyl Diphosphate Phosphatase.	Wang Y, Desai J, Zhang Y, Malwal SR, Shin CJ, Feng X, Sun H, Liu G, Guo RT, Oldfield E.	ChemMedChem	10.1002/cmdc.201600342	2016
Enzymology	Response of extreme haloarchaeon Haloarcula argentinensis RR10 to simulated microgravity in clinorotation.	Thombre R, Shinde V, Dixit J, Jagtap S, Vidyasagar PB.	3 Biotech	10.1007/s13205-016-0596-2	2017
	Comparative analysis of the protein components from 5S rRNA.protein complexes of halophilic archaebacteria.	McDougall J, Wittmann-Liebold B.	Eur J Biochem	10.1111/j.1432-1033.1994.tb18791.x	1994
	Halobacterial S9 operon. Three ribosomal protein genes are cotranscribed with genes encoding a tRNA(Leu), the enolase, and a putative membrane protein in the archaebacterium Haloarcula (Halobacterium) marismortui.	Kromer WJ, Arndt E.	J Biol Chem	10.1016/s0021-9258(18)54267-8	1991
Metabolism	Highly divergent 16S rRNA sequences in ribosomal operons of Scytonema hyalinum (Cyanobacteria).	Johansen JR, Mares J, Pietrasiak N, Bohunicka M, Zima J, Stenclova L, Hauer T.	PLoS One	10.1371/journal.pone.0186393	2017
	Complete genome sequence of Methanospirillum hungatei type strain JF1.	Gunsalus RP, Cook LE, Crable B, Rohlin L, McDonald E, Mouttaki H, Sieber JR, Poweleit N, Zhou H, Lapidus AL, Daligault HE, Land M, Gilna P, Ivanova N, Kyrpides N, Culley DE, McInerney MJ.	Stand Genomic Sci	10.1186/s40793-015-0124-8	2016
	Context-sensitivity of isosteric substitutions of non-Watson-Crick basepairs in recurrent RNA 3D motifs.	Khisamutdinov EF, Sweeney BA, Leontis NB.	Nucleic Acids Res	10.1093/nar/gkab703	2021
	Identification of the major expressed S-layer and cell surface-layer-related proteins in the model methanogenic archaea: Methanosarcina barkeri Fusaro and Methanosarcina acetivorans C2A.	Rohlin L, Leon DR, Kim U, Loo JA, Ogorzalek Loo RR, Gunsalus RP.	Archaea	10.1155/2012/873589	2012
	RNAfitme: a webserver for modeling nucleobase and nucleoside residue conformation in fixed-backbone RNA structures.	Antczak M, Zok T, Osowiecki M, Popenda M, Adamiak RW, Szachniuk M.	BMC Bioinformatics	10.1186/s12859-018-2317-9	2018
Phylogeny	A new system for naming ribosomal proteins.	Ban N, Beckmann R, Cate JH, Dinman JD, Dragon F, Ellis SR, Lafontaine DL, Lindahl L, Liljas A, Lipton JM, McAlear MA, Moore PB, Noller HF, Ortega J, Panse VG, Ramakrishnan V, Spahn CM, Steitz TA, Tchorzewski M, Tollervey D, Warren AJ, Williamson JR, Wilson D, Yonath A, Yusupov M.	Curr Opin Struct Biol	10.1016/j.sbi.2014.01.002	2014
Pathogenicity	Exploring short k-mer profiles in cells and mobile elements from Archaea highlights the major influence of both the ecological niche and evolutionary history.	Bize A, Midoux C, Mariadassou M, Schbath S, Forterre P, Da Cunha V.	BMC Genomics	10.1186/s12864-021-07471-y	2021
Enzymology	Crystallography of halophilic ribosome: the isolation of an internal ribonucleoprotein complex.	Evers U, Franceschi F, Boddeker N, Yonath A.	Biophys Chem	10.1016/0301-4622(94)85015-1	1994
	Metal Transformation by a Novel Pelosinus Isolate From a Subsurface Environment.	Ray AE, Connon SA, Neal AL, Fujita Y, Cummings DE, Ingram JC, Magnuson TS.	Front Microbiol	10.3389/fmicb.2018.01689	2018
	Number, position, and significance of the pseudouridines in the large subunit ribosomal RNA of Haloarcula marismortui and Deinococcus radiodurans.	Del Campo M, Recinos C, Yanez G, Pomerantz SC, Guymon R, Crain PF, McCloskey JA, Ofengand J.	RNA	10.1261/rna.7209905	2005
Phylogeny	Role of PhaC Type I and Type II Enzymes during PHA Biosynthesis.	Mezzolla V, D'Urso OF, Poltronieri P.	Polymers (Basel)	10.3390/polym10080910	2018
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	Solution NMR structure of the ribosomal protein RP-L35Ae from Pyrococcus furiosus.	Snyder DA, Aramini JM, Yu B, Huang YJ, Xiao R, Cort JR, Shastry R, Ma LC, Liu J, Rost B, Acton TB, Kennedy MA, Montelione GT.	Proteins	10.1002/prot.24071	2012
	Using lanthanoid complexes to phase large macromolecular assemblies.	Talon R, Kahn R, Dura MA, Maury O, Vellieux FM, Franzetti B, Girard E.	J Synchrotron Radiat	10.1107/s0909049510036824	2011
	Ribosome engineering to promote new crystal forms.	Selmer M, Gao YG, Weixlbaumer A, Ramakrishnan V.	Acta Crystallogr D Biol Crystallogr	10.1107/s0907444912006348	2012
Enzymology	Halophilic malate dehydrogenase--a case history of biophysical investigations: ultracentrifugation, light-, X-ray- and neutron scattering.	Eisenberg H.	Biochem Soc Symp		1992
Enzymology	A High-Resolution Crystal Structure of a Psychrohalophilic alpha-Carbonic Anhydrase from Photobacterium profundum Reveals a Unique Dimer Interface.	Somalinga V, Buhrman G, Arun A, Rose RB, Grunden AM.	PLoS One	10.1371/journal.pone.0168022	2016
	Distribution, structure and diversity of "bacterial" genes encoding two-component proteins in the Euryarchaeota.	Ashby MK.	Archaea	10.1155/2006/562404	2006
Phylogeny	The genome of Salinibacter ruber: convergence and gene exchange among hyperhalophilic bacteria and archaea.	Mongodin EF, Nelson KE, Daugherty S, Deboy RT, Wister J, Khouri H, Weidman J, Walsh DA, Papke RT, Sanchez Perez G, Sharma AK, Nesbo CL, MacLeod D, Bapteste E, Doolittle WF, Charlebois RL, Legault B, Rodriguez-Valera F.	Proc Natl Acad Sci U S A	10.1073/pnas.0509073102	2005
Metabolism	Peptidyl-CCA deacylation on the ribosome promoted by induced fit and the O3'-hydroxyl group of A76 of the unacylated A-site tRNA.	Simonovic M, Steitz TA.	RNA	10.1261/rna.1118908	2008
Metabolism	Archaeal fibrillarin-Nop5 heterodimer 2'-O-methylates RNA independently of the C/D guide RNP particle.	Tomkuviene M, Licyte J, Olendraite I, Liutkeviciute Z, Clouet-d'Orval B, Klimasauskas S.	RNA	10.1261/rna.059832.116	2017
	The genes for ribosomal protein L15 and the protein equivalent to secY in the archaebacterium Haloarcula (Halobacterium) marismortui.	Arndt E.	Biochim Biophys Acta	10.1016/0167-4781(92)90474-e	1992
	RNA versatility, flexibility, and thermostability for practice in RNA nanotechnology and biomedical applications.	Haque F, Pi F, Zhao Z, Gu S, Hu H, Yu H, Guo P.	Wiley Interdiscip Rev RNA	10.1002/wrna.1452	2018
	Transcriptional down-regulation and rRNA cleavage in Dictyostelium discoideum mitochondria during Legionella pneumophila infection.	Zhang C, Kuspa A.	PLoS One	10.1371/journal.pone.0005706	2009
Metabolism	Genome analysis and heterologous expression of acetate-activating enzymes in the anammox bacterium Kuenenia stuttgartiensis.	Russ L, Harhangi HR, Schellekens J, Verdellen B, Kartal B, Op den Camp HJ, Jetten MS.	Arch Microbiol	10.1007/s00203-012-0829-7	2012
	Salt-bridge energetics in halophilic proteins.	Nayek A, Sen Gupta PS, Banerjee S, Mondal B, Bandyopadhyay AK.	PLoS One	10.1371/journal.pone.0093862	2014
Metabolism	Conformational dynamics of bacterial trigger factor in apo and ribosome-bound states.	Can MT, Kurkcuoglu Z, Ezeroglu G, Uyar A, Kurkcuoglu O, Doruker P.	PLoS One	10.1371/journal.pone.0176262	2017
	Neutron scattering reveals extremely slow cell water in a Dead Sea organism.	Tehei M, Franzetti B, Wood K, Gabel F, Fabiani E, Jasnin M, Zamponi M, Oesterhelt D, Zaccai G, Ginzburg M, Ginzburg BZ.	Proc Natl Acad Sci U S A	10.1073/pnas.0601639104	2007
Genetics	The alpha-operon equivalent genome region in the extreme halophilic archaebacterium Haloarcula (Halobacterium) marismortui.	Scholzen T, Arndt E.	J Biol Chem	10.1016/s0021-9258(19)49814-1	1992
Pathogenicity	Context-specific action of macrolide antibiotics on the eukaryotic ribosome.	Svetlov MS, Koller TO, Meydan S, Shankar V, Klepacki D, Polacek N, Guydosh NR, Vazquez-Laslop N, Wilson DN, Mankin AS.	Nat Commun	10.1038/s41467-021-23068-1	2021
Metabolism	Heptameric (L12)6/L10 rather than canonical pentameric complexes are found by tandem MS of intact ribosomes from thermophilic bacteria.	Ilag LL, Videler H, McKay AR, Sobott F, Fucini P, Nierhaus KH, Robinson CV.	Proc Natl Acad Sci U S A	10.1073/pnas.0502193102	2005
Metabolism	Cloning, expression, and purification of functional Sec11a and Sec11b, type I signal peptidases of the archaeon Haloferax volcanii.	Fine A, Irihimovitch V, Dahan I, Konrad Z, Eichler J.	J Bacteriol	10.1128/jb.188.5.1911-1919.2006	2006
Genetics	Identification and Characterization of a Novel Salt-Tolerant Esterase from the Deep-Sea Sediment of the South China Sea.	Zhang Y, Hao J, Zhang YQ, Chen XL, Xie BB, Shi M, Zhou BC, Zhang YZ, Li PY.	Front Microbiol	10.3389/fmicb.2017.00441	2017
	Sequence determinants of the folding properties of box C/D kink-turns in RNA.	Ashraf S, Huang L, Lilley DMJ.	RNA	10.1261/rna.063453.117	2017
	Evolution of rhodopsin ion pumps in haloarchaea.	Sharma AK, Walsh DA, Bapteste E, Rodriguez-Valera F, Ford Doolittle W, Papke RT.	BMC Evol Biol	10.1186/1471-2148-7-79	2007
	Genetic and Biochemical Identification of a Novel Single-Stranded DNA-Binding Complex in Haloferax volcanii.	Stroud A, Liddell S, Allers T.	Front Microbiol	10.3389/fmicb.2012.00224	2012
	Dynamics of the base of ribosomal A-site finger revealed by molecular dynamics simulations and Cryo-EM.	Reblova K, Razga F, Li W, Gao H, Frank J, Sponer J.	Nucleic Acids Res	10.1093/nar/gkp1057	2010
	Amino acid sequences of the ribosomal proteins HL30 and HmaL5 from the archaebacterium Halobacterium marismortui.	Hatakeyama T, Hatakeyama T.	Biochim Biophys Acta	10.1016/0167-4838(90)90269-l	1990
	Dynamic consolidated bioprocessing for innovative lab-scale production of bacterial alkaline phosphatase from Bacillus paralicheniformis strain APSO.	Abdelgalil SA, Soliman NA, Abo-Zaid GA, Abdel-Fattah YR.	Sci Rep	10.1038/s41598-021-85207-4	2021
Genetics	Variation, evolution, and correlation analysis of C+G content and genome or chromosome size in different kingdoms and phyla.	Li XQ, Du D.	PLoS One	10.1371/journal.pone.0088339	2014
	Organization and nucleotide sequence of ten ribosomal protein genes from the region equivalent to the spectinomycin operon in the archaebacterium Halobacterium marismortui.	Scholzen T, Arndt E.	Mol Gen Genet	10.1007/bf00282450	1991
	The fragmented mitochondrial ribosomal RNAs of Plasmodium falciparum.	Feagin JE, Harrell MI, Lee JC, Coe KJ, Sands BH, Cannone JJ, Tami G, Schnare MN, Gutell RR.	PLoS One	10.1371/journal.pone.0038320	2012
	Structure-seq2: sensitive and accurate genome-wide profiling of RNA structure in vivo.	Ritchey LE, Su Z, Tang Y, Tack DC, Assmann SM, Bevilacqua PC.	Nucleic Acids Res	10.1093/nar/gkx533	2017
Metabolism	Unlocking conserved and diverged metabolic characteristics in cassava carbon assimilation via comparative genomics approach.	Siriwat W, Kalapanulak S, Suksangpanomrung M, Saithong T.	Sci Rep	10.1038/s41598-018-34730-y	2018
Phylogeny	Archaeal phylogeny based on proteins of the transcription and translation machineries: tackling the Methanopyrus kandleri paradox.	Brochier C, Forterre P, Gribaldo S.	Genome Biol	10.1186/gb-2004-5-3-r17	2004
Metabolism	Distribution and diversity of ribosome binding sites in prokaryotic genomes.	Omotajo D, Tate T, Cho H, Choudhary M.	BMC Genomics	10.1186/s12864-015-1808-6	2015
Metabolism	Molecular signatures of ribosomal evolution.	Roberts E, Sethi A, Montoya J, Woese CR, Luthey-Schulten Z.	Proc Natl Acad Sci U S A	10.1073/pnas.0804861105	2008
Metabolism	Purification and characterization of an extracellular esterase with organic solvent tolerance from a halotolerant isolate, Salimicrobium sp. LY19.	Xin L, Hui-Ying Y.	BMC Biotechnol	10.1186/1472-6750-13-108	2013
Metabolism	The solution structure of ribosomal protein L18 from Thermus thermophilus reveals a conserved RNA-binding fold.	Woestenenk EA, Gongadze GM, Shcherbakov DV, Rak AV, Garber MB, Hard T, Berglund H.	Biochem J	10.1042/0264-6021:3630553	2002
Metabolism	How Does Mg²⁺ Modulate the RNA Folding Mechanism: A Case Study of the G:C W:W Trans Basepair.	Halder A, Roy R, Bhattacharyya D, Mitra A.	Biophys J	10.1016/j.bpj.2017.04.029	2017
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Metabolism	The role of thiols in antioxidant systems.	Ulrich K, Jakob U.	Free Radic Biol Med	10.1016/j.freeradbiomed.2019.05.035	2019
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Phylogeny	Diversity, taxonomy, and evolution of archaeal viruses of the class Caudoviricetes.	Liu Y, Demina TA, Roux S, Aiewsakun P, Kazlauskas D, Simmonds P, Prangishvili D, Oksanen HM, Krupovic M.	PLoS Biol	10.1371/journal.pbio.3001442	2021
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Metabolism	Effects of Noncanonical Base Pairing on RNA Folding: Structural Context and Spatial Arrangements of G·A Pairs.	Olson WK, Li S, Kaukonen T, Colasanti AV, Xin Y, Lu XJ.	Biochemistry	10.1021/acs.biochem.9b00122	2019
Enzymology	Analysis on evolutionary relationship of amylases from archaea, bacteria and eukaryota.	Yan S, Wu G.	World J Microbiol Biotechnol	10.1007/s11274-015-1979-y	2016
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Metabolism	RNA tertiary interactions in the large ribosomal subunit: the A-minor motif.	Nissen P, Ippolito JA, Ban N, Moore PB, Steitz TA.	Proc Natl Acad Sci U S A	10.1073/pnas.081082398	2001
Metabolism	Structures of deacylated tRNA mimics bound to the E site of the large ribosomal subunit.	Schmeing TM, Moore PB, Steitz TA.	RNA	10.1261/rna.5120503	2003
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Enzymology	Sequence divergence of seryl-tRNA synthetases in archaea.	Kim HS, Vothknecht UC, Hedderich R, Celic I, Soll D.	J Bacteriol	10.1128/jb.180.24.6446-6449.1998	1998
Metabolism	Structural and Mechanistic Insights into the Improvement of the Halotolerance of a Marine Microbial Esterase by Increasing Intra- and Interdomain Hydrophobic Interactions.	Li PY, Zhang Y, Xie BB, Zhang YQ, Hao J, Wang Y, Wang P, Li CY, Qin QL, Zhang XY, Su HN, Shi M, Zhang YZ, Chen XL.	Appl Environ Microbiol	10.1128/aem.01286-17	2017
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	An innate twist between Crick's wobble and Watson-Crick base pairs.	Ananth P, Goldsmith G, Yathindra N.	RNA	10.1261/rna.036905.112	2013
	Identification of novel tylosin analogues generated by a wblA disruption mutant of Streptomyces ansochromogenes.	Lu C, Liao G, Zhang J, Tan H.	Microb Cell Fact	10.1186/s12934-015-0359-5	2015
Phylogeny	Structural classification of bacterial response regulators: diversity of output domains and domain combinations.	Galperin MY.	J Bacteriol	10.1128/jb.01887-05	2006
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Phylogeny	Ancient origin of the divergent forms of leucyl-tRNA synthetases in the Halobacteriales.	Andam CP, Harlow TJ, Papke RT, Gogarten JP.	BMC Evol Biol	10.1186/1471-2148-12-85	2012
Enzymology	An experimental point of view on hydration/solvation in halophilic proteins.	Talon R, Coquelle N, Madern D, Girard E.	Front Microbiol	10.3389/fmicb.2014.00066	2014
	Bidentate RNA-magnesium clamps: on the origin of the special role of magnesium in RNA folding.	Petrov AS, Bowman JC, Harvey SC, Williams LD.	RNA	10.1261/rna.2390311	2011
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Genetics	Phyletic Distribution and Lineage-Specific Domain Architectures of Archaeal Two-Component Signal Transduction Systems.	Galperin MY, Makarova KS, Wolf YI, Koonin EV.	J Bacteriol	10.1128/jb.00681-17	2018
Metabolism	A critical base pair in k-turns determines the conformational class adopted, and correlates with biological function.	Huang L, Wang J, Lilley DM.	Nucleic Acids Res	10.1093/nar/gkw201	2016
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Phylogeny	Rare Events of Intragenus and Intraspecies Horizontal Transfer of the 16S rRNA Gene.	Tian RM, Cai L, Zhang WP, Cao HL, Qian PY.	Genome Biol Evol	10.1093/gbe/evv143	2015
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Metabolism	Life without tRNAIle-lysidine synthetase: translation of the isoleucine codon AUA in Bacillus subtilis lacking the canonical tRNA2Ile.	Kohrer C, Mandal D, Gaston KW, Grosjean H, Limbach PA, Rajbhandary UL.	Nucleic Acids Res	10.1093/nar/gkt1009	2014
	RNA Bricks--a database of RNA 3D motifs and their interactions.	Chojnowski G, Walen T, Bujnicki JM.	Nucleic Acids Res	10.1093/nar/gkt1084	2014
Metabolism	Genetic and biochemical analysis of the twin-arginine translocation pathway in halophilic archaea.	Dilks K, Gimenez MI, Pohlschroder M.	J Bacteriol	10.1128/jb.187.23.8104-8113.2005	2005
Enzymology	Properties of a thermostable nitrate reductase from the hyperthermophilic archaeon Pyrobaculum aerophilum.	Afshar S, Johnson E, de Vries S, Schroder I.	J Bacteriol	10.1128/jb.183.19.5491-5495.2001	2001
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Metabolism	Malate Synthase and beta-Methylmalyl Coenzyme A Lyase Reactions in the Methylaspartate Cycle in Haloarcula hispanica.	Borjian F, Han J, Hou J, Xiang H, Zarzycki J, Berg IA.	J Bacteriol	10.1128/jb.00657-16	2017
	Multiple replication origins of Halobacterium sp. strain NRC-1: properties of the conserved orc7-dependent oriC1.	Coker JA, DasSarma P, Capes M, Wallace T, McGarrity K, Gessler R, Liu J, Xiang H, Tatusov R, Berquist BR, DasSarma S.	J Bacteriol	10.1128/jb.00210-09	2009
Enzymology	Extended N-terminal sequencing of proteins of archaebacterial ribosomes blotted from two-dimensional gels onto glass fiber and poly(vinylidene difluoride) membrane.	Walsh MJ, McDougall J, Wittmann-Liebold B.	Biochemistry	10.1021/bi00418a032	1988
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Metabolism	Role of a PAS sensor domain in the Mycobacterium tuberculosis transcription regulator Rv1364c.	Jaiswal RK, Manjeera G, Gopal B.	Biochem Biophys Res Commun	10.1016/j.bbrc.2010.06.027	2010
Enzymology	AglH, a thermophilic UDP-N-acetylglucosamine-1-phosphate:dolichyl phosphate GlcNAc-1-phosphotransferase initiating protein N-glycosylation pathway in Sulfolobus acidocaldarius, is capable of complementing the eukaryal Alg7.	Meyer BH, Shams-Eldin H, Albers SV.	Extremophiles	10.1007/s00792-016-0890-2	2017
Enzymology	Complementation of an aglB Mutant of Methanococcus maripaludis with Heterologous Oligosaccharyltransferases.	Ding Y, Vrionis HA, Schneider J, Berezuk A, Khursigara CM, Jarrell KF.	PLoS One	10.1371/journal.pone.0167611	2016
	Expression, purification and structural analysis of the Pyrococcus abyssi RNA binding protein PAB1135.	Luz JS, Barbosa JA, Ramos CR, Oliveira CC.	BMC Res Notes	10.1186/1756-0500-3-97	2010
Enzymology	Halophilic enzyme activation induced by salts.	Ortega G, Lain A, Tadeo X, Lopez-Mendez B, Castano D, Millet O.	Sci Rep	10.1038/srep00006	2011
Enzymology	Kinetic and thermodynamic studies of peptidyltransferase in ribosomes from the extreme thermophile Thermus thermophilus.	Rodriguez-Correa D, Dahlberg AE.	RNA	10.1261/rna.1146008	2008
Enzymology	Crystal structure of archaeal ribonuclease P protein Ph1771p from Pyrococcus horikoshii OT3: an archaeal homolog of eukaryotic ribonuclease P protein Rpp29.	Numata T, Ishimatsu I, Kakuta Y, Tanaka I, Kimura M.	RNA	10.1261/rna.7560904	2004
	RpbL12 Assists Catalysis by Correctly Positioning the Incoming Aminoacyl-tRNA in the A-Site of E. coli 70S Ribosomes.	Crechet JB, Agbo'Saga FK, Baouz S, Hountondj C.	Open Biochem J	10.2174/1874091x01812010113	2018
Phylogeny	Universal and domain-specific sequences in 23S-28S ribosomal RNA identified by computational phylogenetics.	Doris SM, Smith DR, Beamesderfer JN, Raphael BJ, Nathanson JA, Gerbi SA.	RNA	10.1261/rna.051144.115	2015
Genetics	Effect of the environment on horizontal gene transfer between bacteria and archaea.	Fuchsman CA, Collins RE, Rocap G, Brazelton WJ.	PeerJ	10.7717/peerj.3865	2017
Enzymology	Association of a multi-synthetase complex with translating ribosomes in the archaeon Thermococcus kodakarensis.	Raina M, Elgamal S, Santangelo TJ, Ibba M.	FEBS Lett	10.1016/j.febslet.2012.05.039	2012
Metabolism	The occurrence of denitrification in extremely halophilic bacteria.	Mancinelli RL, Hochstein LI.	FEMS Microbiol Lett	10.1111/j.1574-6968.1986.tb01498.x	1986
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Metabolism	Detailed analysis of RNA-protein interactions within the bacterial ribosomal protein L5/5S rRNA complex.	Perederina A, Nevskaya N, Nikonov O, Nikulin A, Dumas P, Yao M, Tanaka I, Garber M, Gongadze G, Nikonov S.	RNA	10.1017/s1355838202029953	2002
Metabolism	Function and ribosomal localization of aIF6, a translational regulator shared by archaea and eukarya.	Benelli D, Marzi S, Mancone C, Alonzi T, la Teana A, Londei P.	Nucleic Acids Res	10.1093/nar/gkn959	2009
	Crystal structure of the third KH domain of human poly(C)-binding protein-2 in complex with a C-rich strand of human telomeric DNA at 1.6 A resolution.	Fenn S, Du Z, Lee JK, Tjhen R, Stroud RM, James TL.	Nucleic Acids Res	10.1093/nar/gkm139	2007
Enzymology	Circular dichroism and fluorescence spectroscopy of cysteinyl-tRNA synthetase from Halobacterium salinarum ssp. NRC-1 demonstrates that group I cations are particularly effective in providing structure and stability to this halophilic protein.	Reed CJ, Bushnell S, Evilia C.	PLoS One	10.1371/journal.pone.0089452	2014
	Post-genomics of the model haloarchaeon Halobacterium sp. NRC-1.	DasSarma S, Berquist BR, Coker JA, DasSarma P, Muller JA.	Saline Syst	10.1186/1746-1448-2-3	2006
Metabolism	Ribosomal intergenic spacer analysis as a tool for monitoring methanogenic Archaea changes in an anaerobic digester.	Ciesielski S, Bulkowska K, Dabrowska D, Kaczmarczyk D, Kowal P, Mozejko J.	Curr Microbiol	10.1007/s00284-013-0353-2	2013
	Structure of a rare non-standard sequence k-turn bound by L7Ae protein.	Huang L, Lilley DM.	Nucleic Acids Res	10.1093/nar/gku087	2014
Metabolism	Mapping posttranscriptional modifications in 5S ribosomal RNA by MALDI mass spectrometry.	Kirpekar F, Douthwaite S, Roepstorff P.	RNA	10.1017/s1355838200992148	2000
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	The 3D rRNA modification maps database: with interactive tools for ribosome analysis.	Piekna-Przybylska D, Decatur WA, Fournier MJ.	Nucleic Acids Res	10.1093/nar/gkm855	2008
	Mechanistic insights into the slow peptide bond formation with D-amino acids in the ribosomal active site.	Melnikov SV, Khabibullina NF, Mairhofer E, Vargas-Rodriguez O, Reynolds NM, Micura R, Soll D, Polikanov YS.	Nucleic Acids Res	10.1093/nar/gky1211	2019
	Characterization of paralogous and orthologous members of the superoxide dismutase gene family from genera of the halophilic archaebacteria.	Joshi P, Dennis PP.	J Bacteriol	10.1128/jb.175.6.1561-1571.1993	1993
	His166 is the Schiff base proton acceptor in attractant phototaxis receptor sensory rhodopsin I.	Sasaki J, Takahashi H, Furutani Y, Sineshchekov OA, Spudich JL, Kandori H.	Biochemistry	10.1021/bi500831n	2014
Metabolism	Control of box C/D snoRNP assembly by N⁶-methylation of adenine.	Huang L, Ashraf S, Wang J, Lilley DM.	EMBO Rep	10.15252/embr.201743967	2017
Pathogenicity	Mutation from guanine to adenine in 25S rRNA at the position equivalent to E. coli A2058 does not confer erythromycin sensitivity in Sacchromyces cerevisae.	Bommakanti AS, Lindahl L, Zengel JM.	RNA	10.1261/rna.786408	2008
	Deducing putative ancestral forms of GNRA/receptor interactions from the ribosome.	Calkins ER, Zakrevsky P, Keleshian VL, Aguilar EG, Geary C, Jaeger L.	Nucleic Acids Res	10.1093/nar/gky1111	2019
Enzymology	Purification and characterization of ribosomal proteins from the 30 S subunit of the extreme halophile Halobacterium marismortui.	Shoham M, Dijk J, Reinhardt R, Wittmann-Liebold B.	FEBS Lett	10.1016/0014-5793(86)80837-7	1986
	Clustering RNA structural motifs in ribosomal RNAs using secondary structural alignment.	Zhong C, Zhang S.	Nucleic Acids Res	10.1093/nar/gkr804	2012
	Structural characterization of naturally occurring RNA single mismatches.	Davis AR, Kirkpatrick CC, Znosko BM.	Nucleic Acids Res	10.1093/nar/gkq793	2011
Metabolism	Detecting protein-protein interactions in the intact cell of Bacillus subtilis (ATCC 6633).	Winters MS, Day RA.	J Bacteriol	10.1128/jb.185.14.4268-4275.2003	2003
Metabolism	Identification in the mould Hypocrea jecorina of a gene encoding an NADP(+): d-xylose dehydrogenase.	Berghall S, Hilditch S, Penttila M, Richard P.	FEMS Microbiol Lett	10.1111/j.1574-6968.2007.00969.x	2007
Genetics	Diversity of 23S rRNA genes within individual prokaryotic genomes.	Pei A, Nossa CW, Chokshi P, Blaser MJ, Yang L, Rosmarin DM, Pei Z.	PLoS One	10.1371/journal.pone.0005437	2009
Phylogeny	Evolution of the ribosome at atomic resolution.	Petrov AS, Bernier CR, Hsiao C, Norris AM, Kovacs NA, Waterbury CC, Stepanov VG, Harvey SC, Fox GE, Wartell RM, Hud NV, Williams LD.	Proc Natl Acad Sci U S A	10.1073/pnas.1407205111	2014
	Fast dynamics of halophilic malate dehydrogenase and BSA measured by neutron scattering under various solvent conditions influencing protein stability.	Tehei M, Madern D, Pfister C, Zaccai G.	Proc Natl Acad Sci U S A	10.1073/pnas.251537298	2001
	Automated identification of RNA conformational motifs: theory and application to the HM LSU 23S rRNA.	Hershkovitz E, Tannenbaum E, Howerton SB, Sheth A, Tannenbaum A, Williams LD.	Nucleic Acids Res	10.1093/nar/gkg835	2003
Enzymology	pH-dependent conformational flexibility within the ribosomal peptidyl transferase center.	Muth GW, Chen L, Kosek AB, Strobel SA.	RNA		2001
	Structure of Ribosomal Silencing Factor Bound to Mycobacterium tuberculosis Ribosome.	Li X, Sun Q, Jiang C, Yang K, Hung LW, Zhang J, Sacchettini JC.	Structure	10.1016/j.str.2015.07.014	2015
Genetics	Intragenomic heterogeneity and intergenomic recombination among haloarchaeal rRNA genes.	Boucher Y, Douady CJ, Sharma AK, Kamekura M, Doolittle WF.	J Bacteriol	10.1128/jb.186.12.3980-3990.2004	2004
	Mass spectrometry-based quantification of pseudouridine in RNA.	Addepalli B, Limbach PA.	J Am Soc Mass Spectrom	10.1007/s13361-011-0137-5	2011
	Posttranscriptional modifications in the A-loop of 23S rRNAs from selected archaea and eubacteria.	Hansen MA, Kirpekar F, Ritterbusch W, Vester B.	RNA	10.1017/s1355838202013365	2002
Genetics	Molecular characterization of the minimal replicon and the unidirectional theta replication of pSCM201 in extremely halophilic archaea.	Sun C, Zhou M, Li Y, Xiang H.	J Bacteriol	10.1128/jb.00988-06	2006
Metabolism	The structures of the anti-tuberculosis antibiotics viomycin and capreomycin bound to the 70S ribosome.	Stanley RE, Blaha G, Grodzicki RL, Strickler MD, Steitz TA.	Nat Struct Mol Biol	10.1038/nsmb.1755	2010
Metabolism	Expression, and molecular and enzymatic characterization of Cu-containing nitrite reductase from a marine ammonia-oxidizing gammaproteobacterium, Nitrosococcus oceani.	Kondo K, Yoshimatsu K, Fujiwara T.	Microbes Environ	10.1264/jsme2.me11310	2012
	Plasticity of the RNA kink turn structural motif.	Antonioli AH, Cochrane JC, Lipchock SV, Strobel SA.	RNA	10.1261/rna.1883810	2010
	GH97 is a new family of glycoside hydrolases, which is related to the alpha-galactosidase superfamily.	Naumoff DG.	BMC Genomics	10.1186/1471-2164-6-112	2005
Metabolism	D-xylose degradation pathway in the halophilic archaeon Haloferax volcanii.	Johnsen U, Dambeck M, Zaiss H, Fuhrer T, Soppa J, Sauer U, Schonheit P.	J Biol Chem	10.1074/jbc.m109.003814	2009
Enzymology	Microbial diversity in water and sediment of Lake Chaka, an athalassohaline lake in northwestern China.	Jiang H, Dong H, Zhang G, Yu B, Chapman LR, Fields MW.	Appl Environ Microbiol	10.1128/aem.02869-05	2006
Genetics	Genomic variation and biogeography of Antarctic haloarchaea.	Tschitschko B, Erdmann S, DeMaere MZ, Roux S, Panwar P, Allen MA, Williams TJ, Brazendale S, Hancock AM, Eloe-Fadrosh EA, Cavicchioli R.	Microbiome	10.1186/s40168-018-0495-3	2018
Metabolism	AglQ is a novel component of the Haloferax volcanii N-glycosylation pathway.	Arbiv A, Yurist-Doutsch S, Guan Z, Eichler J.	PLoS One	10.1371/journal.pone.0081782	2013
	Unusual Base-Pairing Interactions in Monomer-Template Complexes.	Zhang W, Tam CP, Wang J, Szostak JW.	ACS Cent Sci	10.1021/acscentsci.6b00278	2016
	NMR structure and Mg2+ binding of an RNA segment that underlies the L7/L12 stalk in the E.coli 50S ribosomal subunit.	Zhao Q, Nagaswamy U, Lee H, Xia Y, Huang HC, Gao X, Fox GE.	Nucleic Acids Res	10.1093/nar/gki621	2005
Metabolism	Evidence against stabilization of the transition state oxyanion by a pKa-perturbed RNA base in the peptidyl transferase center.	Parnell KM, Seila AC, Strobel SA.	Proc Natl Acad Sci U S A	10.1073/pnas.182210099	2002
Metabolism	pH-sensitivity of the ribosomal peptidyl transfer reaction dependent on the identity of the A-site aminoacyl-tRNA.	Johansson M, Ieong KW, Trobro S, Strazewski P, Aqvist J, Pavlov MY, Ehrenberg M.	Proc Natl Acad Sci U S A	10.1073/pnas.1012612107	2011
	Developing a genetic manipulation system for the Antarctic archaeon, Halorubrum lacusprofundi: investigating acetamidase gene function.	Liao Y, Williams TJ, Walsh JC, Ji M, Poljak A, Curmi PM, Duggin IG, Cavicchioli R.	Sci Rep	10.1038/srep34639	2016
Metabolism	An extremely halophilic proteobacterium combines a highly acidic proteome with a low cytoplasmic potassium content.	Deole R, Challacombe J, Raiford DW, Hoff WD.	J Biol Chem	10.1074/jbc.m112.420505	2013
	Novel modifications in RNA.	Phelps K, Morris A, Beal PA.	ACS Chem Biol	10.1021/cb200422t	2012
Metabolism	Structural analysis of base substitutions in Thermus thermophilus 16S rRNA conferring streptomycin resistance.	Demirci H, Murphy FV, Murphy EL, Connetti JL, Dahlberg AE, Jogl G, Gregory ST.	Antimicrob Agents Chemother	10.1128/aac.02857-14	2014
	Evidence of direct complementary interactions between messenger RNAs and their cognate proteins.	Polyansky AA, Zagrovic B.	Nucleic Acids Res	10.1093/nar/gkt618	2013
Enzymology	Structure of the Tetrahymena thermophila telomerase RNA helix II template boundary element.	Richards RJ, Theimer CA, Finger LD, Feigon J.	Nucleic Acids Res	10.1093/nar/gkj481	2006
Metabolism	Archaeal aIF2B interacts with eukaryotic translation initiation factors eIF2alpha and eIF2Balpha: Implications for aIF2B function and eIF2B regulation.	Dev K, Santangelo TJ, Rothenburg S, Neculai D, Dey M, Sicheri F, Dever TE, Reeve JN, Hinnebusch AG.	J Mol Biol	10.1016/j.jmb.2009.07.030	2009
Enzymology	Single-Cell Genomics of Novel Actinobacteria With the Wood-Ljungdahl Pathway Discovered in a Serpentinizing System.	Merino N, Kawai M, Boyd ES, Colman DR, McGlynn SE, Nealson KH, Kurokawa K, Hongoh Y.	Front Microbiol	10.3389/fmicb.2020.01031	2020
	A GCUA tetranucleotide loop found in the poliovirus oriL by in vivo SELEX (un)expectedly forms a YNMG-like structure: Extending the YNMG family with GYYA.	Melchers WJ, Zoll J, Tessari M, Bakhmutov DV, Gmyl AP, Agol VI, Heus HA.	RNA	10.1261/rna.113106	2006
	Probing the structural hierarchy and energy landscape of an RNA T-loop hairpin.	Zhuang Z, Jaeger L, Shea JE.	Nucleic Acids Res	10.1093/nar/gkm719	2007
	Negamycin interferes with decoding and translocation by simultaneous interaction with rRNA and tRNA.	Polikanov YS, Szal T, Jiang F, Gupta P, Matsuda R, Shiozuka M, Steitz TA, Vazquez-Laslop N, Mankin AS.	Mol Cell	10.1016/j.molcel.2014.09.021	2014
Metabolism	Elemental sulfur and acetate can support life of a novel strictly anaerobic haloarchaeon.	Sorokin DY, Kublanov IV, Gavrilov SN, Rojo D, Roman P, Golyshin PN, Slepak VZ, Smedile F, Ferrer M, Messina E, La Cono V, Yakimov MM.	ISME J	10.1038/ismej.2015.79	2016
	A structural database for k-turn motifs in RNA.	Schroeder KT, McPhee SA, Ouellet J, Lilley DM.	RNA	10.1261/rna.2207910	2010
	Directed evolution of the rRNA methylating enzyme Cfr reveals molecular basis of antibiotic resistance.	Tsai K, Stojkovic V, Noda-Garcia L, Young ID, Myasnikov AG, Kleinman J, Palla A, Floor SN, Frost A, Fraser JS, Tawfik DS, Fujimori DG.	Elife	10.7554/elife.70017	2022
	Structural snapshots of actively translating human ribosomes.	Behrmann E, Loerke J, Budkevich TV, Yamamoto K, Schmidt A, Penczek PA, Vos MR, Burger J, Mielke T, Scheerer P, Spahn CM.	Cell	10.1016/j.cell.2015.03.052	2015
Phylogeny	Patterns and determinants of halophilic archaea (class halobacteria) diversity in tunisian endorheic salt lakes and sebkhet systems.	Najjari A, Elshahed MS, Cherif A, Youssef NH.	Appl Environ Microbiol	10.1128/aem.01097-15	2015
	A comparative analysis of the triloops in all high-resolution RNA structures reveals sequence structure relationships.	Lisi V, Major F.	RNA	10.1261/rna.597507	2007
	NASSAM: a server to search for and annotate tertiary interactions and motifs in three-dimensional structures of complex RNA molecules.	Hamdani HY, Appasamy SD, Willett P, Artymiuk PJ, Firdaus-Raih M.	Nucleic Acids Res	10.1093/nar/gks513	2012
Genetics	The genome of the square archaeon Haloquadratum walsbyi : life at the limits of water activity.	Bolhuis H, Palm P, Wende A, Falb M, Rampp M, Rodriguez-Valera F, Pfeiffer F, Oesterhelt D.	BMC Genomics	10.1186/1471-2164-7-169	2006
	Many nonuniversal archaeal ribosomal proteins are found in conserved gene clusters.	Wang J, Dasgupta I, Fox GE.	Archaea	10.1155/2009/971494	2009
Metabolism	The signal transfer from the receptor NpSRII to the transducer NpHtrII is not hampered by the D75N mutation.	Holterhues J, Bordignon E, Klose D, Rickert C, Klare JP, Martell S, Li L, Engelhard M, Steinhoff HJ.	Biophys J	10.1016/j.bpj.2011.03.017	2011
	Structural insights into peptide bond formation.	Hansen JL, Schmeing TM, Moore PB, Steitz TA.	Proc Natl Acad Sci U S A	10.1073/pnas.172404099	2002
Metabolism	Lipid Anchoring of Archaeosortase Substrates and Midcell Growth in Haloarchaea.	Abdul-Halim MF, Schulze S, DiLucido A, Pfeiffer F, Bisson Filho AW, Pohlschroder M.	mBio	10.1128/mbio.00349-20	2020
Metabolism	Characterization of two members among the five ADP-forming acyl coenzyme A (Acyl-CoA) synthetases reveals the presence of a 2-(Imidazol-4-yl)acetyl-CoA synthetase in Thermococcus kodakarensis.	Awano T, Wilming A, Tomita H, Yokooji Y, Fukui T, Imanaka T, Atomi H.	J Bacteriol	10.1128/jb.00877-13	2014
Metabolism	Genomic analysis of anaerobic respiration in the archaeon Halobacterium sp. strain NRC-1: dimethyl sulfoxide and trimethylamine N-oxide as terminal electron acceptors.	Muller JA, DasSarma S.	J Bacteriol	10.1128/jb.187.5.1659-1667.2005	2005
	Selective Translation of Low Abundance and Upregulated Transcripts in Halobacterium salinarum.	Lopez Garcia de Lomana A, Kusebauch U, Raman AV, Pan M, Turkarslan S, Lorenzetti APR, Moritz RL, Baliga NS.	mSystems	10.1128/msystems.00329-20	2020
Enzymology	Three-dimensional model and molecular mechanism of Mycobacterium tuberculosis catalase-peroxidase (KatG) and isoniazid-resistant KatG mutants.	Mo L, Zhang W, Wang J, Weng XH, Chen S, Shao LY, Pang MY, Chen ZW.	Microb Drug Resist	10.1089/mdr.2004.10.269	2004
	The G2447A mutation does not affect ionization of a ribosomal group taking part in peptide bond formation.	Beringer M, Adio S, Wintermeyer W, Rodnina M.	RNA	10.1261/rna.5600503	2003
Metabolism	Glyco-engineering in Archaea: differential N-glycosylation of the S-layer glycoprotein in a transformed Haloferax volcanii strain.	Calo D, Guan Z, Eichler J.	Microb Biotechnol	10.1111/j.1751-7915.2011.00250.x	2011
Metabolism	Identification of the haloarchaeal phasin (PhaP) that functions in polyhydroxyalkanoate accumulation and granule formation in Haloferax mediterranei.	Cai S, Cai L, Liu H, Liu X, Han J, Zhou J, Xiang H.	Appl Environ Microbiol	10.1128/aem.07114-11	2012
	Promiscuous behaviour of archaeal ribosomal proteins: implications for eukaryotic ribosome evolution.	Armache JP, Anger AM, Marquez V, Franckenberg S, Frohlich T, Villa E, Berninghausen O, Thomm M, Arnold GJ, Beckmann R, Wilson DN.	Nucleic Acids Res	10.1093/nar/gks1259	2013
	Transcription analysis of two disparate rRNA operons in the halophilic archaeon Haloarcula marismortui.	Dennis PP, Ziesche S, Mylvaganam S.	J Bacteriol	10.1128/jb.180.18.4804-4813.1998	1998
Metabolism	AglS, a novel component of the Haloferax volcanii N-glycosylation pathway, is a dolichol phosphate-mannose mannosyltransferase.	Cohen-Rosenzweig C, Yurist-Doutsch S, Eichler J.	J Bacteriol	10.1128/jb.01716-12	2012
Metabolism	Molecular analyses of a three-subunit euryarchaeal clamp loader complex from Methanosarcina acetivorans.	Chen YH, Lin Y, Yoshinaga A, Chhotani B, Lorenzini JL, Crofts AA, Mei S, Mackie RI, Ishino Y, Cann IK.	J Bacteriol	10.1128/jb.00414-09	2009
	Reduced ribosomes of the apicoplast and mitochondrion of Plasmodium spp. and predicted interactions with antibiotics.	Gupta A, Shah P, Haider A, Gupta K, Siddiqi MI, Ralph SA, Habib S.	Open Biol	10.1098/rsob.140045	2014
Metabolism	Anaerobic Growth of Haloarchaeon Haloferax volcanii by Denitrification Is Controlled by the Transcription Regulator NarO.	Hattori T, Shiba H, Ashiki K, Araki T, Nagashima YK, Yoshimatsu K, Fujiwara T.	J Bacteriol	10.1128/jb.00833-15	2016
	The Microbial Opsin Homolog Sop1 is involved in Sclerotinia sclerotiorum Development and Environmental Stress Response.	Lyu X, Shen C, Fu Y, Xie J, Jiang D, Li G, Cheng J.	Front Microbiol	10.3389/fmicb.2015.01504	2015
	5S Ribosomal RNA Database.	Szymanski M, Barciszewska MZ, Erdmann VA, Barciszewski J.	Nucleic Acids Res	10.1093/nar/30.1.176	2002
Enzymology	Multisite-specific archaeosine tRNA-guanine transglycosylase (ArcTGT) from Thermoplasma acidophilum, a thermo-acidophilic archaeon.	Kawamura T, Hirata A, Ohno S, Nomura Y, Nagano T, Nameki N, Yokogawa T, Hori H.	Nucleic Acids Res	10.1093/nar/gkv1522	2016
	Cryo-EM structure and rRNA model of a translating eukaryotic 80S ribosome at 5.5-A resolution.	Armache JP, Jarasch A, Anger AM, Villa E, Becker T, Bhushan S, Jossinet F, Habeck M, Dindar G, Franckenberg S, Marquez V, Mielke T, Thomm M, Berninghausen O, Beatrix B, Soding J, Westhof E, Wilson DN, Beckmann R.	Proc Natl Acad Sci U S A	10.1073/pnas.1009999107	2010
Enzymology	Structural characteristics of alkaline phosphatase from the moderately halophilic bacterium Halomonas sp. 593.	Arai S, Yonezawa Y, Ishibashi M, Matsumoto F, Adachi M, Tamada T, Tokunaga H, Blaber M, Tokunaga M, Kuroki R.	Acta Crystallogr D Biol Crystallogr	10.1107/s1399004713033609	2014
Pathogenicity	In Vitro and In Vivo Activities of a Bi-Aryl Oxazolidinone, RBx 11760, against Gram-Positive Bacteria.	Barman TK, Kumar M, Mathur T, Chaira T, Ramkumar G, Kalia V, Rao M, Pandya M, Yadav AS, Das B, Upadhyay DJ, Hamidullah, Konwar R, Raj VS, Singh H.	Antimicrob Agents Chemother	10.1128/aac.00453-16	2016
Metabolism	The last rRNA methyltransferase of E. coli revealed: the yhiR gene encodes adenine-N6 methyltransferase specific for modification of A2030 of 23S ribosomal RNA.	Golovina AY, Dzama MM, Osterman IA, Sergiev PV, Serebryakova MV, Bogdanov AA, Dontsova OA.	RNA	10.1261/rna.034207.112	2012
Metabolism	Interactions of cations with RNA loop-loop complexes.	Singh A, Sethaphong L, Yingling YG.	Biophys J	10.1016/j.bpj.2011.06.033	2011
	FASTR3D: a fast and accurate search tool for similar RNA 3D structures.	Lai CE, Tsai MY, Liu YC, Wang CW, Chen KT, Lu CL.	Nucleic Acids Res	10.1093/nar/gkp330	2009
Metabolism	Structure, function, and evolution of the tRNA endonucleases of Archaea: an example of subfunctionalization.	Tocchini-Valentini GD, Fruscoloni P, Tocchini-Valentini GP.	Proc Natl Acad Sci U S A	10.1073/pnas.0502350102	2005
Pathogenicity	Crystallographic characterization of the ribosomal binding site and molecular mechanism of action of Hygromycin A.	Kaminishi T, Schedlbauer A, Fabbretti A, Brandi L, Ochoa-Lizarralde B, He CG, Milon P, Connell SR, Gualerzi CO, Fucini P.	Nucleic Acids Res	10.1093/nar/gkv975	2015
Metabolism	A proton wire to couple aminoacyl-tRNA accommodation and peptide-bond formation on the ribosome.	Polikanov YS, Steitz TA, Innis CA.	Nat Struct Mol Biol	10.1038/nsmb.2871	2014
Metabolism	Interaction of two strongly divergent archaellins stabilizes the structure of the Halorubrum archaellum.	Pyatibratov MG, Syutkin AS, Quax TEF, Melnik TN, Papke RT, Gogarten JP, Kireev II, Surin AK, Beznosov SN, Galeva AV, Fedorov OV.	Microbiologyopen	10.1002/mbo3.1047	2020
Metabolism	C/D box sRNA-guided 2'-O-methylation patterns of archaeal rRNA molecules.	Dennis PP, Tripp V, Lui L, Lowe T, Randau L.	BMC Genomics	10.1186/s12864-015-1839-z	2015
	Autofix for backward-fit sidechains: using MolProbity and real-space refinement to put misfits in their place.	Headd JJ, Immormino RM, Keedy DA, Emsley P, Richardson DC, Richardson JS.	J Struct Funct Genomics	10.1007/s10969-008-9045-8	2009
Enzymology	Extracellular Ca2(+)-dependent inducible alkaline phosphatase from extremely halophilic archaebacterium Haloarcula marismortui.	Goldman S, Hecht K, Eisenberg H, Mevarech M.	J Bacteriol	10.1128/jb.172.12.7065-7070.1990	1990
	Complex long-distance effects of mutations that confer linezolid resistance in the large ribosomal subunit.	Fulle S, Saini JS, Homeyer N, Gohlke H.	Nucleic Acids Res	10.1093/nar/gkv729	2015
Pathogenicity	Mode of action of Ranbezolid against staphylococci and structural modeling studies of its interaction with ribosomes.	Kalia V, Miglani R, Purnapatre KP, Mathur T, Singhal S, Khan S, Voleti SR, Upadhyay DJ, Saini KS, Rattan A, Raj VS.	Antimicrob Agents Chemother	10.1128/aac.00887-08	2009
Genetics	An archaeal chromosomal autonomously replicating sequence element from an extreme halophile, Halobacterium sp. strain NRC-1.	Berquist BR, DasSarma S.	J Bacteriol	10.1128/jb.185.20.5959-5966.2003	2003
	Use of RNA structure flexibility data in nanostructure modeling.	Kasprzak W, Bindewald E, Kim TJ, Jaeger L, Shapiro BA.	Methods	10.1016/j.ymeth.2010.12.010	2011
Metabolism	Accumulation of high-value lipids in single-cell microorganisms: a mechanistic approach and future perspectives.	Garay LA, Boundy-Mills KL, German JB.	J Agric Food Chem	10.1021/jf4042134	2014
	S-layers at second glance? Altiarchaeal grappling hooks (hami) resemble archaeal S-layer proteins in structure and sequence.	Perras AK, Daum B, Ziegler C, Takahashi LK, Ahmed M, Wanner G, Klingl A, Leitinger G, Kolb-Lenz D, Gribaldo S, Auerbach A, Mora M, Probst AJ, Bellack A, Moissl-Eichinger C.	Front Microbiol	10.3389/fmicb.2015.00543	2015
Metabolism	Aminoglycoside interactions and impacts on the eukaryotic ribosome.	Prokhorova I, Altman RB, Djumagulov M, Shrestha JP, Urzhumtsev A, Ferguson A, Chang CT, Yusupov M, Blanchard SC, Yusupova G.	Proc Natl Acad Sci U S A	10.1073/pnas.1715501114	2017
Metabolism	Processing of multiple-intron-containing pretRNA.	Tocchini-Valentini GD, Fruscoloni P, Tocchini-Valentini GP.	Proc Natl Acad Sci U S A	10.1073/pnas.0911658106	2009
Metabolism	Treadmilling of a prokaryotic tubulin-like protein, TubZ, required for plasmid stability in Bacillus thuringiensis.	Larsen RA, Cusumano C, Fujioka A, Lim-Fong G, Patterson P, Pogliano J.	Genes Dev	10.1101/gad.1546107	2007
Metabolism	Biochemical Validation of the Glyoxylate Cycle in the Cyanobacterium Chlorogloeopsis fritschii Strain PCC 9212.	Zhang S, Bryant DA.	J Biol Chem	10.1074/jbc.m115.648170	2015
Metabolism	New bioinformatic tools for analysis of nucleotide modifications in eukaryotic rRNA.	Piekna-Przybylska D, Decatur WA, Fournier MJ.	RNA	10.1261/rna.373107	2007
Metabolism	Comparative Analysis of Archaeal Lipid-linked Oligosaccharides That Serve as Oligosaccharide Donors for Asn Glycosylation.	Taguchi Y, Fujinami D, Kohda D.	J Biol Chem	10.1074/jbc.m115.713156	2016
	COPASAAR--a database for proteomic analysis of single amino acid repeats.	Depledge DP, Dalby AR.	BMC Bioinformatics	10.1186/1471-2105-6-196	2005
Proteome	Charge segregation and low hydrophobicity are key features of ribosomal proteins from different organisms.	Fedyukina DV, Jennaro TS, Cavagnero S.	J Biol Chem	10.1074/jbc.m113.507707	2014
Metabolism	Ribosomal protein L3: influence on ribosome structure and function.	Petrov A, Meskauskas A, Dinman JD.	RNA Biol	10.4161/rna.1.1.957	2004
	Bacteriophage P22 antitermination boxB sequence requirements are complex and overlap with those of lambda.	Cocozaki AI, Ghattas IR, Smith CA.	J Bacteriol	10.1128/jb.00059-08	2008
Enzymology	Structure of a highly acidic beta-lactamase from the moderate halophile Chromohalobacter sp. 560 and the discovery of a Cs(+)-selective binding site.	Arai S, Yonezawa Y, Okazaki N, Matsumoto F, Shibazaki C, Shimizu R, Yamada M, Adachi M, Tamada T, Kawamoto M, Tokunaga H, Ishibashi M, Blaber M, Tokunaga M, Kuroki R.	Acta Crystallogr D Biol Crystallogr	10.1107/s1399004714027734	2015
Metabolism	Discovery of widespread GTP-binding motifs in genomic DNA and RNA.	Curtis EA, Liu DR.	Chem Biol	10.1016/j.chembiol.2013.02.015	2013
	2-Thiouracil deprived of thiocarbonyl function preferentially base pairs with guanine rather than adenine in RNA and DNA duplexes.	Sochacka E, Szczepanowski RH, Cypryk M, Sobczak M, Janicka M, Kraszewska K, Bartos P, Chwialkowska A, Nawrot B.	Nucleic Acids Res	10.1093/nar/gkv109	2015
Enzymology	The crystal structures of the tri-functional Chloroflexus aurantiacus and bi-functional Rhodobacter sphaeroides malyl-CoA lyases and comparison with CitE-like superfamily enzymes and malate synthases.	Zarzycki J, Kerfeld CA.	BMC Struct Biol	10.1186/1472-6807-13-28	2013
Metabolism	Binding Site Identification and Flexible Docking of Single Stranded RNA to Proteins Using a Fragment-Based Approach.	Chauvot de Beauchene I, de Vries SJ, Zacharias M.	PLoS Comput Biol	10.1371/journal.pcbi.1004697	2016
	Thermodynamic characterization of tandem mismatches found in naturally occurring RNA.	Christiansen ME, Znosko BM.	Nucleic Acids Res	10.1093/nar/gkp465	2009
	RNAMotifScanX: a graph alignment approach for RNA structural motif identification.	Zhong C, Zhang S.	RNA	10.1261/rna.044891.114	2015
Metabolism	Genes Contributing to the Unique Biology and Intrinsic Antibiotic Resistance of Enterococcus faecalis.	Gilmore MS, Salamzade R, Selleck E, Bryan N, Mello SS, Manson AL, Earl AM.	mBio	10.1128/mbio.02962-20	2020
Metabolism	Tubulin homolog TubZ in a phage-encoded partition system.	Oliva MA, Martin-Galiano AJ, Sakaguchi Y, Andreu JM.	Proc Natl Acad Sci U S A	10.1073/pnas.1121546109	2012
	A comprehensive history of motility and Archaellation in Archaea.	Jarrell KF, Albers SV, Machado JNS.	FEMS Microbes	10.1093/femsmc/xtab002	2021
	The application of cluster analysis in the intercomparison of loop structures in RNA.	Huang HC, Nagaswamy U, Fox GE.	RNA	10.1261/rna.7104605	2005
Metabolism	Insights into substrate stabilization from snapshots of the peptidyl transferase center of the intact 70S ribosome.	Voorhees RM, Weixlbaumer A, Loakes D, Kelley AC, Ramakrishnan V.	Nat Struct Mol Biol	10.1038/nsmb.1577	2009
Pathogenicity	Avilamycin and evernimicin induce structural changes in rProteins uL16 and CTC that enhance the inhibition of A-site tRNA binding.	Krupkin M, Wekselman I, Matzov D, Eyal Z, Diskin Posner Y, Rozenberg H, Zimmerman E, Bashan A, Yonath A.	Proc Natl Acad Sci U S A	10.1073/pnas.1614297113	2016
Genetics	Whole-genome comparison between the type strain of Halobacterium salinarum (DSM 3754^T ) and the laboratory strains R1 and NRC-1.	Pfeiffer F, Losensky G, Marchfelder A, Habermann B, Dyall-Smith M.	Microbiologyopen	10.1002/mbo3.974	2020
Metabolism	Characterization of the PAS domain in the sensor-kinase BvgS: mechanical role in signal transmission.	Dupre E, Wohlkonig A, Herrou J, Locht C, Jacob-Dubuisson F, Antoine R.	BMC Microbiol	10.1186/1471-2180-13-172	2013
	Distribution of centromere-like parS sites in bacteria: insights from comparative genomics.	Livny J, Yamaichi Y, Waldor MK.	J Bacteriol	10.1128/jb.01239-07	2007
Proteome	The structure of SSO2064, the first representative of Pfam family PF01796, reveals a novel two-domain zinc-ribbon OB-fold architecture with a potential acyl-CoA-binding role.	Krishna SS, Aravind L, Bakolitsa C, Caruthers J, Carlton D, Miller MD, Abdubek P, Astakhova T, Axelrod HL, Chiu HJ, Clayton T, Deller MC, Duan L, Feuerhelm J, Grant JC, Han GW, Jaroszewski L, Jin KK, Klock HE, Knuth MW, Kumar A, Marciano D, McMullan D, Morse AT, Nigoghossian E, Okach L, Reyes R, Rife CL, van den Bedem H, Weekes D, Xu Q, Hodgson KO, Wooley J, Elsliger MA, Deacon AM, Godzik A, Lesley SA, Wilson IA.	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/s1744309110002514	2010
Metabolism	Increments and duplication events of enzymes and transcription factors influence metabolic and regulatory diversity in prokaryotes.	Martinez-Nunez MA, Poot-Hernandez AC, Rodriguez-Vazquez K, Perez-Rueda E.	PLoS One	10.1371/journal.pone.0069707	2013
	An enumerative stepwise ansatz enables atomic-accuracy RNA loop modeling.	Sripakdeevong P, Kladwang W, Das R.	Proc Natl Acad Sci U S A	10.1073/pnas.1106516108	2011
Enzymology	Genetic evidence for the importance of protein acetylation and protein deacetylation in the halophilic archaeon Haloferax volcanii.	Altman-Price N, Mevarech M.	J Bacteriol	10.1128/jb.01252-08	2009
	Structural motifs of the bacterial ribosomal proteins S20, S18 and S16 that contact rRNA present in the eukaryotic ribosomal proteins S25, S26 and S27A, respectively.	Malygin AA, Karpova GG.	Nucleic Acids Res	10.1093/nar/gkp1170	2010
	Secondary structure and domain architecture of the 23S and 5S rRNAs.	Petrov AS, Bernier CR, Hershkovits E, Xue Y, Waterbury CC, Hsiao C, Stepanov VG, Gaucher EA, Grover MA, Harvey SC, Hud NV, Wartell RM, Fox GE, Williams LD.	Nucleic Acids Res	10.1093/nar/gkt513	2013
	Synthesis and evaluation of chloramphenicol homodimers: molecular target, antimicrobial activity, and toxicity against human cells.	Kostopoulou ON, Magoulas GE, Papadopoulos GE, Mouzaki A, Dinos GP, Papaioannou D, Kalpaxis DL.	PLoS One	10.1371/journal.pone.0134526	2015
Metabolism	Bacterial RNA polymerase subunit omega and eukaryotic RNA polymerase subunit RPB6 are sequence, structural, and functional homologs and promote RNA polymerase assembly.	Minakhin L, Bhagat S, Brunning A, Campbell EA, Darst SA, Ebright RH, Severinov K.	Proc Natl Acad Sci U S A	10.1073/pnas.98.3.892	2001
	Dynamic expression of the translational machinery during Bacillus subtilis life cycle at a single cell level.	Rosenberg A, Sinai L, Smith Y, Ben-Yehuda S.	PLoS One	10.1371/journal.pone.0041921	2012
Metabolism	Localization of eukaryote-specific ribosomal proteins in a 5.5-Å cryo-EM map of the 80S eukaryotic ribosome.	Armache JP, Jarasch A, Anger AM, Villa E, Becker T, Bhushan S, Jossinet F, Habeck M, Dindar G, Franckenberg S, Marquez V, Mielke T, Thomm M, Berninghausen O, Beatrix B, Soding J, Westhof E, Wilson DN, Beckmann R.	Proc Natl Acad Sci U S A	10.1073/pnas.1010005107	2010
Metabolism	The oxazolidinone antibiotics perturb the ribosomal peptidyl-transferase center and effect tRNA positioning.	Wilson DN, Schluenzen F, Harms JM, Starosta AL, Connell SR, Fucini P.	Proc Natl Acad Sci U S A	10.1073/pnas.0804276105	2008
Metabolism	A molecular switch and electronic circuit modulate catalase activity in catalase-peroxidases.	Carpena X, Wiseman B, Deemagarn T, Singh R, Switala J, Ivancich A, Fita I, Loewen PC.	EMBO Rep	10.1038/sj.embor.7400550	2005
Metabolism	Distinct glycan-charged phosphodolichol carriers are required for the assembly of the pentasaccharide N-linked to the Haloferax volcanii S-layer glycoprotein.	Guan Z, Naparstek S, Kaminski L, Konrad Z, Eichler J.	Mol Microbiol	10.1111/j.1365-2958.2010.07405.x	2010
Enzymology	Asparagine peptide lyases: a seventh catalytic type of proteolytic enzymes.	Rawlings ND, Barrett AJ, Bateman A.	J Biol Chem	10.1074/jbc.m111.260026	2011
	Structure and folding of a rare, natural kink turn in RNA with an AA pair at the 2b2n position.	Schroeder KT, Daldrop P, McPhee SA, Lilley DM.	RNA	10.1261/rna.032409.112	2012
Metabolism	Importance of uncharged polar residues and proline in the proximal two-thirds (Pro107-Ser128) of the highly conserved region of mouse ileal Na+-dependent bile acid transporter, Slc10a2, in transport activity and cellular expression.	Saeki T, Sato K, Ito S, Ikeda K, Kanamoto R.	BMC Physiol	10.1186/1472-6793-13-4	2013
Metabolism	Molecular basis for RNA kink-turn recognition by the h15.5K small RNP protein.	Szewczak LB, Gabrielsen JS, Degregorio SJ, Strobel SA, Steitz JA.	RNA	10.1261/rna.2830905	2005
	Mass spectrometry of the fifth nucleoside: a review of the identification of pseudouridine in nucleic acids.	Durairaj A, Limbach PA.	Anal Chim Acta	10.1016/j.aca.2008.06.027	2008
Metabolism	Protein Synthesis with Ribosomes Selected for the Incorporation of beta-Amino Acids.	Maini R, Chowdhury SR, Dedkova LM, Roy B, Daskalova SM, Paul R, Chen S, Hecht SM.	Biochemistry	10.1021/acs.biochem.5b00389	2015
Metabolism	The role of specific 2'-hydroxyl groups in the stabilization of the folded conformation of kink-turn RNA.	Liu J, Lilley DM.	RNA	10.1261/rna.285707	2007
	Selection of a novel class of RNA-RNA interaction motifs based on the ligase ribozyme with defined modular architecture.	Ohuchi SP, Ikawa Y, Nakamura Y.	Nucleic Acids Res	10.1093/nar/gkn206	2008
Phylogeny	Three globin lineages belonging to two structural classes in genomes from the three kingdoms of life.	Vinogradov SN, Hoogewijs D, Bailly X, Arredondo-Peter R, Guertin M, Gough J, Dewilde S, Moens L, Vanfleteren JR.	Proc Natl Acad Sci U S A	10.1073/pnas.0502103102	2005
	Cytochromes c in Archaea: distribution, maturation, cell architecture, and the special case of Ignicoccus hospitalis.	Kletzin A, Heimerl T, Flechsler J, van Niftrik L, Rachel R, Klingl A.	Front Microbiol	10.3389/fmicb.2015.00439	2015
Enzymology	Archaeal aminoacyl-tRNA synthetases interact with the ribosome to recycle tRNAs.	Godinic-Mikulcic V, Jaric J, Greber BJ, Franke V, Hodnik V, Anderluh G, Ban N, Weygand-Durasevic I.	Nucleic Acids Res	10.1093/nar/gku164	2014
	Function and biotechnology of extremophilic enzymes in low water activity.	Karan R, Capes MD, Dassarma S.	Aquat Biosyst	10.1186/2046-9063-8-4	2012
Metabolism	Proteomic analysis of Haloferax volcanii reveals salinity-mediated regulation of the stress response protein PspA.	Bidle KA, Kirkland PA, Nannen JL, Maupin-Furlow JA.	Microbiology (Reading)	10.1099/mic.0.2007/015586-0	2008
	A CA(+) pair adjacent to a sheared GA or AA pair stabilizes size-symmetric RNA internal loops.	Chen G, Kennedy SD, Turner DH.	Biochemistry	10.1021/bi8019405	2009
Metabolism	Metabolism of halophilic archaea.	Falb M, Muller K, Konigsmaier L, Oberwinkler T, Horn P, von Gronau S, Gonzalez O, Pfeiffer F, Bornberg-Bauer E, Oesterhelt D.	Extremophiles	10.1007/s00792-008-0138-x	2008
Enzymology	Activity of 3'-thioAMP derivatives as ribosomal P-site substrates.	Dorner S, Schmid W, Barta A.	Nucleic Acids Res	10.1093/nar/gki617	2005
Metabolism	Sequence specific detection of bacterial 23S ribosomal RNA by TLR13.	Li XD, Chen ZJ.	Elife	10.7554/elife.00102	2012
Enzymology	Unraveling the evolutionary history of the phosphoryl-transfer chain of the phosphoenolpyruvate:phosphotransferase system through phylogenetic analyses and genome context.	Comas I, Gonzalez-Candelas F, Zuniga M.	BMC Evol Biol	10.1186/1471-2148-8-147	2008
	Investigating the entire course of telithromycin binding to Escherichia coli ribosomes.	Kostopoulou ON, Petropoulos AD, Dinos GP, Choli-Papadopoulou T, Kalpaxis DL.	Nucleic Acids Res	10.1093/nar/gks174	2012
Metabolism	Functional importance of individual rRNA 2'-O-ribose methylations revealed by high-resolution phenotyping.	Esguerra J, Warringer J, Blomberg A.	RNA	10.1261/rna.845808	2008
Metabolism	Structures of translationally inactive mammalian ribosomes.	Brown A, Baird MR, Yip MC, Murray J, Shao S.	Elife	10.7554/elife.40486	2018
	Archaeal ribosomal protein L7 is a functional homolog of the eukaryotic 15.5kD/Snu13p snoRNP core protein.	Kuhn JF, Tran EJ, Maxwell ES.	Nucleic Acids Res	10.1093/nar/30.4.931	2002
	An ancient family of SelB elongation factor-like proteins with a broad but disjunct distribution across archaea.	Atkinson GC, Hauryliuk V, Tenson T.	BMC Evol Biol	10.1186/1471-2148-11-22	2011
	The RNA backbone plays a crucial role in mediating the intrinsic stability of the GpU dinucleotide platform and the GpUpA/GpA miniduplex.	Lu XJ, Olson WK, Bussemaker HJ.	Nucleic Acids Res	10.1093/nar/gkq155	2010
Metabolism	The contribution of metal ions to the structural stability of the large ribosomal subunit.	Klein DJ, Moore PB, Steitz TA.	RNA	10.1261/rna.7390804	2004
	Evolution of introns in the archaeal world.	Tocchini-Valentini GD, Fruscoloni P, Tocchini-Valentini GP.	Proc Natl Acad Sci U S A	10.1073/pnas.1100862108	2011
	Conformations of flanking bases in HIV-1 RNA DIS kissing complexes studied by molecular dynamics.	Reblova K, Fadrna E, Sarzynska J, Kulinski T, Kulhanek P, Ennifar E, Koca J, Sponer J.	Biophys J	10.1529/biophysj.107.110056	2007
Metabolism	Analysis of the transcriptional regulator GlpR, promoter elements, and posttranscriptional processing involved in fructose-induced activation of the phosphoenolpyruvate-dependent sugar phosphotransferase system in Haloferax mediterranei.	Cai L, Cai S, Zhao D, Wu J, Wang L, Liu X, Li M, Hou J, Zhou J, Liu J, Han J, Xiang H.	Appl Environ Microbiol	10.1128/aem.03372-13	2014
	Multiple replication origins with diverse control mechanisms in Haloarcula hispanica.	Wu Z, Liu J, Yang H, Liu H, Xiang H.	Nucleic Acids Res	10.1093/nar/gkt1214	2014
Enzymology	Phylogeny of Rieske/cytb complexes with a special focus on the Haloarchaeal enzymes.	Baymann F, Schoepp-Cothenet B, Lebrun E, van Lis R, Nitschke W.	Genome Biol Evol	10.1093/gbe/evs056	2012
Phylogeny	Type material in the NCBI Taxonomy Database.	Federhen S.	Nucleic Acids Res	10.1093/nar/gku1127	2015
Genetics	Widespread occurrence of organelle genome-encoded 5S rRNAs including permuted molecules.	Valach M, Burger G, Gray MW, Lang BF.	Nucleic Acids Res	10.1093/nar/gku1266	2014
	DIAL: a web server for the pairwise alignment of two RNA three-dimensional structures using nucleotide, dihedral angle and base-pairing similarities.	Ferre F, Ponty Y, Lorenz WA, Clote P.	Nucleic Acids Res	10.1093/nar/gkm334	2007
	Evolutionary patterns of carbohydrate transport and metabolism in Halomonas boliviensis as derived from its genome sequence: influences on polyester production.	Guzman D, Balderrama-Subieta A, Cardona-Ortuno C, Guevara-Martinez M, Callisaya-Quispe N, Quillaguaman J.	Aquat Biosyst	10.1186/2046-9063-8-9	2012
	Differences in lateral gene transfer in hypersaline versus thermal environments.	Rhodes ME, Spear JR, Oren A, House CH.	BMC Evol Biol	10.1186/1471-2148-11-199	2011
	The phosphate clamp: a small and independent motif for nucleic acid backbone recognition.	Komeda S, Moulaei T, Chikuma M, Odani A, Kipping R, Farrell NP, Williams LD.	Nucleic Acids Res	10.1093/nar/gkq723	2011
Metabolism	L25 functions as a conserved ribosomal docking site shared by nascent chain-associated complex and signal-recognition particle.	Grallath S, Schwarz JP, Bottcher UM, Bracher A, Hartl FU, Siegers K.	EMBO Rep	10.1038/sj.embor.7400551	2006
	RNAMotifScan: automatic identification of RNA structural motifs using secondary structural alignment.	Zhong C, Tang H, Zhang S.	Nucleic Acids Res	10.1093/nar/gkq672	2010
Phylogeny	Essential and non-essential DNA replication genes in the model halophilic Archaeon, Halobacterium sp. NRC-1.	Berquist BR, DasSarma P, DasSarma S.	BMC Genet	10.1186/1471-2156-8-31	2007
Metabolism	Identification of genes involved in the biosynthesis of the third and fourth sugars of the Methanococcus maripaludis archaellin N-linked tetrasaccharide.	Ding Y, Jones GM, Uchida K, Aizawa S, Robotham A, Logan SM, Kelly J, Jarrell KF.	J Bacteriol	10.1128/jb.00668-13	2013
Metabolism	A combined cryo-EM and molecular dynamics approach reveals the mechanism of ErmBL-mediated translation arrest.	Arenz S, Bock LV, Graf M, Innis CA, Beckmann R, Grubmuller H, Vaiana AC, Wilson DN.	Nat Commun	10.1038/ncomms12026	2016
Metabolism	New photoreactive tRNA derivatives for probing the peptidyl transferase center of the ribosome.	Manuilov AV, Hixson SS, Zimmermann RA.	RNA	10.1261/rna.425907	2007
	Sequence heterogeneity between the two genes encoding 16S rRNA from the halophilic archaebacterium Haloarcula marismortui.	Mylvaganam S, Dennis PP.	Genetics	10.1093/genetics/130.3.399	1992
	Structure analysis of free and bound states of an RNA aptamer against ribosomal protein S8 from Bacillus anthracis.	Davlieva M, Donarski J, Wang J, Shamoo Y, Nikonowicz EP.	Nucleic Acids Res	10.1093/nar/gku743	2014
Metabolism	Characterization of the nuclear export adaptor protein Nmd3 in association with the 60S ribosomal subunit.	Sengupta J, Bussiere C, Pallesen J, West M, Johnson AW, Frank J.	J Cell Biol	10.1083/jcb.201001124	2010
Enzymology	Metatranscriptomic analysis of extremely halophilic viral communities.	Santos F, Moreno-Paz M, Meseguer I, Lopez C, Rossello-Mora R, Parro V, Anton J.	ISME J	10.1038/ismej.2011.34	2011
Metabolism	AMP-forming acetyl coenzyme A synthetase in the outermost membrane of the hyperthermophilic crenarchaeon Ignicoccus hospitalis.	Mayer F, Kuper U, Meyer C, Daxer S, Muller V, Rachel R, Huber H.	J Bacteriol	10.1128/jb.06130-11	2012
Pathogenicity	Synergy of streptogramin antibiotics occurs independently of their effects on translation.	Noeske J, Huang J, Olivier NB, Giacobbe RA, Zambrowski M, Cate JH.	Antimicrob Agents Chemother	10.1128/aac.03389-14	2014
Metabolism	Cryo-EM structure of the archaeal 50S ribosomal subunit in complex with initiation factor 6 and implications for ribosome evolution.	Greber BJ, Boehringer D, Godinic-Mikulcic V, Crnkovic A, Ibba M, Weygand-Durasevic I, Ban N.	J Mol Biol	10.1016/j.jmb.2012.01.018	2012
Metabolism	Dissection of the high rate constant for the binding of a ribotoxin to the ribosome.	Qin S, Zhou HX.	Proc Natl Acad Sci U S A	10.1073/pnas.0900291106	2009
	Developmentally regulated HEART STOPPER, a mitochondrially targeted L18 ribosomal protein gene, is required for cell division, differentiation, and seed development in Arabidopsis.	Zhang H, Luo M, Day RC, Talbot MJ, Ivanova A, Ashton AR, Chaudhury AM, Macknight RC, Hrmova M, Koltunow AM.	J Exp Bot	10.1093/jxb/erv296	2015
Metabolism	Protein content of minimal and ancestral ribosome.	Mushegian A.	RNA	10.1261/rna.2180205	2005
Metabolism	The amino terminal domain from Mrt4 protein can functionally replace the RNA binding domain of the ribosomal P0 protein.	Rodriguez-Mateos M, Abia D, Garcia-Gomez JJ, Morreale A, de la Cruz J, Santos C, Remacha M, Ballesta JP.	Nucleic Acids Res	10.1093/nar/gkp209	2009
	Functional interaction between bases C1049 in domain II and G2751 in domain VI of 23S rRNA in Escherichia coli ribosomes.	Miyoshi T, Uchiumi T.	Nucleic Acids Res	10.1093/nar/gkm1171	2008
Metabolism	Identification of 8-methyladenosine as the modification catalyzed by the radical SAM methyltransferase Cfr that confers antibiotic resistance in bacteria.	Giessing AM, Jensen SS, Rasmussen A, Hansen LH, Gondela A, Long K, Vester B, Kirpekar F.	RNA	10.1261/rna.1371409	2009
Metabolism	Saturation mutagenesis of 5S rRNA in Saccharomyces cerevisiae.	Smith MW, Meskauskas A, Wang P, Sergiev PV, Dinman JD.	Mol Cell Biol	10.1128/mcb.21.24.8264-8275.2001	2001
Metabolism	Comparative genomic analyses of copper transporters and cuproproteomes reveal evolutionary dynamics of copper utilization and its link to oxygen.	Ridge PG, Zhang Y, Gladyshev VN.	PLoS One	10.1371/journal.pone.0001378	2008
Metabolism	An archaeal tRNA-synthetase complex that enhances aminoacylation under extreme conditions.	Godinic-Mikulcic V, Jaric J, Hausmann CD, Ibba M, Weygand-Durasevic I.	J Biol Chem	10.1074/jbc.m110.168526	2011
	Modification of the active site of Mycobacterium tuberculosis KatG after disruption of the Met-Tyr-Trp cross-linked adduct.	Kapetanaki SM, Zhao X, Yu S, Magliozzo RS, Schelvis JP.	J Inorg Biochem	10.1016/j.jinorgbio.2006.11.004	2007
Pathogenicity	Distinct mode of interaction of a novel ketolide antibiotic that displays enhanced antimicrobial activity.	Kouvela EC, Kalpaxis DL, Wilson DN, Dinos GP.	Antimicrob Agents Chemother	10.1128/aac.01425-08	2009
Metabolism	UPF201 archaeal specific family members reveal structural similarity to RNA-binding proteins but low likelihood for RNA-binding function.	Rao KN, Burley SK, Swaminathan S.	PLoS One	10.1371/journal.pone.0003903	2008
Metabolism	The methyltransferase YfgB/RlmN is responsible for modification of adenosine 2503 in 23S rRNA.	Toh SM, Xiong L, Bae T, Mankin AS.	RNA	10.1261/rna.814408	2008
	23S rRNA 2058A-->G alteration mediates ketolide resistance in combination with deletion in L22.	Berisio R, Corti N, Pfister P, Yonath A, Bottger EC.	Antimicrob Agents Chemother	10.1128/aac.00767-06	2006
Genetics	Deconstruction of archaeal genome depict strategic consensus in core pathways coding sequence assembly.	Pal A, Banerjee R, Mondal UK, Mukhopadhyay S, Bothra AK.	PLoS One	10.1371/journal.pone.0118245	2015
	In search of novel drug target sites on estrogen receptors using RNA aptamers.	Xu D, Chatakonda VK, Kourtidis A, Conklin DS, Shi H.	Nucleic Acid Ther	10.1089/nat.2013.0474	2014
Metabolism	Posttranslational modification of the 20S proteasomal proteins of the archaeon Haloferax volcanii.	Humbard MA, Stevens SM, Maupin-Furlow JA.	J Bacteriol	10.1128/jb.00943-06	2006
	Modulation of the stability of the Salmonella fourU-type RNA thermometer.	Rinnenthal J, Klinkert B, Narberhaus F, Schwalbe H.	Nucleic Acids Res	10.1093/nar/gkr314	2011
Pathogenicity	Inhibition of eukaryotic translation elongation by the antitumor natural product Mycalamide B.	Dang Y, Schneider-Poetsch T, Eyler DE, Jewett JC, Bhat S, Rawal VH, Green R, Liu JO.	RNA	10.1261/rna.2624511	2011
Metabolism	The A2453-C2499 wobble base pair in Escherichia coli 23S ribosomal RNA is responsible for pH sensitivity of the peptidyltransferase active site conformation.	Bayfield MA, Thompson J, Dahlberg AE.	Nucleic Acids Res	10.1093/nar/gkh888	2004
Pathogenicity	Mutations in 23S rRNA at the peptidyl transferase center and their relationship to linezolid binding and cross-resistance.	Long KS, Munck C, Andersen TM, Schaub MA, Hobbie SN, Bottger EC, Vester B.	Antimicrob Agents Chemother	10.1128/aac.00644-10	2010
Genetics	Divergence and redundancy of 16S rRNA sequences in genomes with multiple rrn operons.	Acinas SG, Marcelino LA, Klepac-Ceraj V, Polz MF, Polz MF.	J Bacteriol	10.1128/jb.186.9.2629-2635.2004	2004
Phylogeny	A phylogenomic profile of globins.	Vinogradov SN, Hoogewijs D, Bailly X, Arredondo-Peter R, Gough J, Dewilde S, Moens L, Vanfleteren JR.	BMC Evol Biol	10.1186/1471-2148-6-31	2006
	Comparative analysis of zinc finger proteins involved in plant disease resistance.	Gupta SK, Rai AK, Kanwar SS, Sharma TR.	PLoS One	10.1371/journal.pone.0042578	2012
Enzymology	Crystal structures of a halophilic archaeal malate synthase from Haloferax volcanii and comparisons with isoforms A and G.	Bracken CD, Neighbor AM, Lamlenn KK, Thomas GC, Schubert HL, Whitby FG, Howard BR.	BMC Struct Biol	10.1186/1472-6807-11-23	2011
	A structural model for the large subunit of the mammalian mitochondrial ribosome.	Mears JA, Sharma MR, Gutell RR, McCook AS, Richardson PE, Caulfield TR, Agrawal RK, Harvey SC.	J Mol Biol	10.1016/j.jmb.2006.01.094	2006
Metabolism	Recognition of the regulatory nascent chain TnaC by the ribosome.	Trabuco LG, Harrison CB, Schreiner E, Schulten K.	Structure	10.1016/j.str.2010.02.011	2010
Metabolism	Glycerol-mediated repression of glucose metabolism and glycerol kinase as the sole route of glycerol catabolism in the haloarchaeon Haloferax volcanii.	Sherwood KE, Cano DJ, Maupin-Furlow JA.	J Bacteriol	10.1128/jb.00131-09	2009
	Composite RNA aptamers as functional mimics of proteins.	Xu D, Shi H.	Nucleic Acids Res	10.1093/nar/gkp243	2009
	Structure, folding and activity of the VS ribozyme: importance of the 2-3-6 helical junction.	Lafontaine DA, Norman DG, Lilley DM.	EMBO J	10.1093/emboj/20.6.1415	2001
Enzymology	SecM-stalled ribosomes adopt an altered geometry at the peptidyl transferase center.	Bhushan S, Hoffmann T, Seidelt B, Frauenfeld J, Mielke T, Berninghausen O, Wilson DN, Beckmann R.	PLoS Biol	10.1371/journal.pbio.1000581	2011
Pathogenicity	Alterations at the peptidyl transferase centre of the ribosome induced by the synergistic action of the streptogramins dalfopristin and quinupristin.	Harms JM, Schlunzen F, Fucini P, Bartels H, Yonath A.	BMC Biol	10.1186/1741-7007-2-4	2004
	The many applications of acid urea polyacrylamide gel electrophoresis to studies of tRNAs and aminoacyl-tRNA synthetases.	Kohrer C, Rajbhandary UL.	Methods	10.1016/j.ymeth.2007.10.006	2008
Metabolism	Inactivation of the RluD pseudouridine synthase has minimal effects on growth and ribosome function in wild-type Escherichia coli and Salmonella enterica.	O'Connor M, Gregory ST.	J Bacteriol	10.1128/jb.00970-10	2011
	Revisiting the structure/function relationships of H/ACA(-like) RNAs: a unified model for Euryarchaea and Crenarchaea.	Toffano-Nioche C, Gautheret D, Leclerc F.	Nucleic Acids Res	10.1093/nar/gkv756	2015
Metabolism	Identification of amino acid residues in protein SRP72 required for binding to a kinked 5e motif of the human signal recognition particle RNA.	Iakhiaeva E, Iakhiaev A, Zwieb C.	BMC Mol Biol	10.1186/1471-2199-11-83	2010
Metabolism	Genetic analysis of a novel pathway for D-xylose metabolism in Caulobacter crescentus.	Stephens C, Christen B, Fuchs T, Sundaram V, Watanabe K, Jenal U.	J Bacteriol	10.1128/jb.01438-06	2007
	R3D Align: global pairwise alignment of RNA 3D structures using local superpositions.	Rahrig RR, Leontis NB, Zirbel CL.	Bioinformatics	10.1093/bioinformatics/btq506	2010
	Ion-induced folding of a kink turn that departs from the conventional sequence.	Schroeder KT, Lilley DM.	Nucleic Acids Res	10.1093/nar/gkp791	2009
Enzymology	Characterization of mutations in the PAS domain of the EvgS sensor kinase selected by laboratory evolution for acid resistance in Escherichia coli.	Johnson MD, Bell J, Clarke K, Chandler R, Pathak P, Xia Y, Marshall RL, Weinstock GM, Loman NJ, Winn PJ, Lund PA.	Mol Microbiol	10.1111/mmi.12704	2014
Metabolism	A small protein from the bop-brp intergenic region of Halobacterium salinarum contains a zinc finger motif and regulates bop and crtB1 transcription.	Tarasov VY, Besir H, Schwaiger R, Klee K, Furtwangler K, Pfeiffer F, Oesterhelt D.	Mol Microbiol	10.1111/j.1365-2958.2007.06081.x	2008
Metabolism	Ribosomal protein L2 is involved in the association of the ribosomal subunits, tRNA binding to A and P sites and peptidyl transfer.	Diedrich G, Spahn CM, Stelzl U, Schafer MA, Wooten T, Bochkariov DE, Cooperman BS, Traut RR, Nierhaus KH.	EMBO J	10.1093/emboj/19.19.5241	2000
Metabolism	A novel 3-methylhistidine modification of yeast ribosomal protein Rpl3 is dependent upon the YIL110W methyltransferase.	Webb KJ, Zurita-Lopez CI, Al-Hadid Q, Laganowsky A, Young BD, Lipson RS, Souda P, Faull KF, Whitelegge JP, Clarke SG.	J Biol Chem	10.1074/jbc.m110.170787	2010
	Crystal structures of native and xylosaccharide-bound alkali thermostable xylanase from an alkalophilic Bacillus sp. NG-27: structural insights into alkalophilicity and implications for adaptation to polyextreme conditions.	Manikandan K, Bhardwaj A, Gupta N, Lokanath NK, Ghosh A, Reddy VS, Ramakumar S.	Protein Sci	10.1110/ps.062220206	2006
	Biochemical characterization of the kink-turn RNA motif.	Matsumura S, Ikawa Y, Inoue T.	Nucleic Acids Res	10.1093/nar/gkg760	2003
Pathogenicity	Myriaporone 3/4 structure--activity relationship studies define a pharmacophore targeting eukaryotic protein synthesis.	Hines J, Roy M, Cheng H, Agapakis CM, Taylor R, Crews CM.	Mol Biosyst	10.1039/b602936a	2006
Pathogenicity	The Cfr rRNA methyltransferase confers resistance to Phenicols, Lincosamides, Oxazolidinones, Pleuromutilins, and Streptogramin A antibiotics.	Long KS, Poehlsgaard J, Kehrenberg C, Schwarz S, Vester B.	Antimicrob Agents Chemother	10.1128/aac.00131-06	2006
	Resistance to the peptidyl transferase inhibitor tiamulin caused by mutation of ribosomal protein l3.	Bosling J, Poulsen SM, Vester B, Long KS.	Antimicrob Agents Chemother	10.1128/aac.47.9.2892-2896.2003	2003
	RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures.	Miao Z, Adamiak RW, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cheng C, Chojnowski G, Chou FC, Cordero P, Cruz JA, Ferre-D'Amare AR, Das R, Ding F, Dokholyan NV, Dunin-Horkawicz S, Kladwang W, Krokhotin A, Lach G, Magnus M, Major F, Mann TH, Masquida B, Matelska D, Meyer M, Peselis A, Popenda M, Purzycka KJ, Serganov A, Stasiewicz J, Szachniuk M, Tandon A, Tian S, Wang J, Xiao Y, Xu X, Zhang J, Zhao P, Zok T, Westhof E.	RNA	10.1261/rna.049502.114	2015
Genetics	CRISPR loci reveal networks of gene exchange in archaea.	Brodt A, Lurie-Weinberger MN, Gophna U.	Biol Direct	10.1186/1745-6150-6-65	2011
	Structural signatures of antibiotic binding sites on the ribosome.	David-Eden H, Mankin AS, Mandel-Gutfreund Y.	Nucleic Acids Res	10.1093/nar/gkq411	2010
Metabolism	Displacement of the canonical single-stranded DNA-binding protein in the Thermoproteales.	Paytubi S, McMahon SA, Graham S, Liu H, Botting CH, Makarova KS, Koonin EV, Naismith JH, White MF.	Proc Natl Acad Sci U S A	10.1073/pnas.1113277108	2012
Metabolism	Cracking pre-40S ribosomal subunit structure by systematic analyses of RNA-protein cross-linking.	Granneman S, Petfalski E, Swiatkowska A, Tollervey D.	EMBO J	10.1038/emboj.2010.86	2010
Metabolism	Coexistence of bacterial leucyl-tRNA synthetases with archaeal tRNA binding domains that distinguish tRNA(Leu) in the archaeal mode.	Fang ZP, Wang M, Ruan ZR, Tan M, Liu RJ, Zhou M, Zhou XL, Wang ED.	Nucleic Acids Res	10.1093/nar/gku108	2014
Genetics	Metagenomic analysis of a southern maritime antarctic soil.	Pearce DA, Newsham KK, Thorne MA, Calvo-Bado L, Krsek M, Laskaris P, Hodson A, Wellington EM.	Front Microbiol	10.3389/fmicb.2012.00403	2012
Enzymology	An antibiotic-resistance enzyme from a deep-sea bacterium.	Toth M, Smith C, Frase H, Mobashery S, Vakulenko S.	J Am Chem Soc	10.1021/ja908850p	2010
Metabolism	Simulating movement of tRNA into the ribosome during decoding.	Sanbonmatsu KY, Joseph S, Tung CS.	Proc Natl Acad Sci U S A	10.1073/pnas.0503456102	2005
	Structure/function analysis of yeast ribosomal protein L2.	Meskauskas A, Russ JR, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkn034	2008
Pathogenicity	Oxazolidinones inhibit cellular proliferation via inhibition of mitochondrial protein synthesis.	Nagiec EE, Wu L, Swaney SM, Chosay JG, Ross DE, Brieland JK, Leach KL.	Antimicrob Agents Chemother	10.1128/aac.49.9.3896-3902.2005	2005
	Specificity of the ribosomal A site for aminoacyl-tRNAs.	Dale T, Fahlman RP, Olejniczak M, Uhlenbeck OC.	Nucleic Acids Res	10.1093/nar/gkn1040	2009
	Conserved, disordered C terminus of DnaK enhances cellular survival upon stress and DnaK in vitro chaperone activity.	Smock RG, Blackburn ME, Gierasch LM.	J Biol Chem	10.1074/jbc.m111.265835	2011
Metabolism	Structural basis for translation factor recruitment to the eukaryotic/archaeal ribosomes.	Naganuma T, Nomura N, Yao M, Mochizuki M, Uchiumi T, Tanaka I.	J Biol Chem	10.1074/jbc.m109.068098	2010
	The interaction networks of structured RNAs.	Lescoute A, Westhof E.	Nucleic Acids Res	10.1093/nar/gkl963	2006
	Shape and oligomerization state of the cytoplasmic domain of the phototaxis transducer II from Natronobacterium pharaonis.	Budyak IL, Pipich V, Mironova OS, Schlesinger R, Zaccai G, Klein-Seetharaman J.	Proc Natl Acad Sci U S A	10.1073/pnas.0607201103	2006
	In vivo assembling of bacterial ribosomal protein L11 into yeast ribosomes makes the particles sensitive to the prokaryotic specific antibiotic thiostrepton.	Garcia-Marcos A, Morreale A, Guarinos E, Briones E, Remacha M, Ortiz AR, Ballesta JP.	Nucleic Acids Res	10.1093/nar/gkm773	2007
	The crystal structure of Haloferax volcanii proliferating cell nuclear antigen reveals unique surface charge characteristics due to halophilic adaptation.	Winter JA, Christofi P, Morroll S, Bunting KA.	BMC Struct Biol	10.1186/1472-6807-9-55	2009
Metabolism	The ribosomal l1 protuberance in yeast is methylated on a lysine residue catalyzed by a seven-beta-strand methyltransferase.	Webb KJ, Al-Hadid Q, Zurita-Lopez CI, Young BD, Lipson RS, Clarke SG.	J Biol Chem	10.1074/jbc.m110.200410	2011
Metabolism	Divergence of catalytic mechanism within a glycosidase family provides insight into evolution of carbohydrate metabolism by human gut flora.	Gloster TM, Turkenburg JP, Potts JR, Henrissat B, Davies GJ.	Chem Biol	10.1016/j.chembiol.2008.09.005	2008
Metabolism	Nitrogen regulation of protein-protein interactions and transcript levels of GlnK PII regulator and AmtB ammonium transporter homologs in Archaea.	Pedro-Roig L, Lange C, Bonete MJ, Soppa J, Maupin-Furlow J.	Microbiologyopen	10.1002/mbo3.120	2013
Metabolism	Proteomic analysis of grape berry cell cultures reveals that developmentally regulated ripening related processes can be studied using cultured cells.	Sharathchandra RG, Stander C, Jacobson D, Ndimba B, Vivier MA.	PLoS One	10.1371/journal.pone.0014708	2011
Metabolism	Engineering of functional replication protein a homologs based on insights into the evolution of oligonucleotide/oligosaccharide-binding folds.	Lin Y, Lin LJ, Sriratana P, Coleman K, Ha T, Spies M, Cann IK.	J Bacteriol	10.1128/jb.01930-07	2008
Metabolism	Angiostatin regulates the expression of antiangiogenic and proapoptotic pathways via targeted inhibition of mitochondrial proteins.	Lee TY, Muschal S, Pravda EA, Folkman J, Abdollahi A, Javaherian K.	Blood	10.1182/blood-2008-12-197236	2009
Metabolism	Mg2+ binding and archaeosine modification stabilize the G15 C48 Levitt base pair in tRNAs.	Oliva R, Tramontano A, Cavallo L.	RNA	10.1261/rna.574407	2007
	RNA structure comparison, motif search and discovery using a reduced representation of RNA conformational space.	Duarte CM, Wadley LM, Pyle AM.	Nucleic Acids Res	10.1093/nar/gkg682	2003
	Limited proteolysis analysis of the ribosome is affected by subunit association.	Hamburg DM, Suh MJ, Limbach PA.	Biopolymers	10.1002/bip.21161	2009
	Molecular dynamics simulations suggest that RNA three-way junctions can act as flexible RNA structural elements in the ribosome.	Besseova I, Reblova K, Leontis NB, Sponer J.	Nucleic Acids Res	10.1093/nar/gkq414	2010
	Induced-fit tightens pleuromutilins binding to ribosomes and remote interactions enable their selectivity.	Davidovich C, Bashan A, Auerbach-Nevo T, Yaggie RD, Gontarek RR, Yonath A.	Proc Natl Acad Sci U S A	10.1073/pnas.0700041104	2007
	Improving CMC-derivatization of pseudouridine in RNA for mass spectrometric detection.	Durairaj A, Limbach PA.	Anal Chim Acta	10.1016/j.aca.2008.02.026	2008
Pathogenicity	In vitro activities of the Rx-01 oxazolidinones against hospital and community pathogens.	Lawrence L, Danese P, DeVito J, Franceschi F, Sutcliffe J.	Antimicrob Agents Chemother	10.1128/aac.01383-07	2008
	New information content in RNA base pairing deduced from quantitative analysis of high-resolution structures.	Olson WK, Esguerra M, Xin Y, Lu XJ.	Methods	10.1016/j.ymeth.2008.12.003	2009
Metabolism	An important role for the multienzyme aminoacyl-tRNA synthetase complex in mammalian translation and cell growth.	Kyriacou SV, Deutscher MP.	Mol Cell	10.1016/j.molcel.2007.11.038	2008
Genetics	Genome sequence of Thermofilum pendens reveals an exceptional loss of biosynthetic pathways without genome reduction.	Anderson I, Rodriguez J, Susanti D, Porat I, Reich C, Ulrich LE, Elkins JG, Mavromatis K, Lykidis A, Kim E, Thompson LS, Nolan M, Land M, Copeland A, Lapidus A, Lucas S, Detter C, Zhulin IB, Olsen GJ, Whitman W, Mukhopadhyay B, Bristow J, Kyrpides N.	J Bacteriol	10.1128/jb.01949-07	2008
	Genomics and physiology of a marine flavobacterium encoding a proteorhodopsin and a xanthorhodopsin-like protein.	Riedel T, Gomez-Consarnau L, Tomasch J, Martin M, Jarek M, Gonzalez JM, Spring S, Rohlfs M, Brinkhoff T, Cypionka H, Goker M, Fiebig A, Klein J, Goesmann A, Fuhrman JA, Wagner-Dobler I.	PLoS One	10.1371/journal.pone.0057487	2013
Metabolism	Translation elongation after assembly of ribosomes on the Cricket paralysis virus internal ribosomal entry site without initiation factors or initiator tRNA.	Pestova TV, Hellen CU.	Genes Dev	10.1101/gad.1040803	2003
	A molecular clamp ensures allosteric coordination of peptidyltransfer and ligand binding to the ribosomal A-site.	Meskauskas A, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkq641	2010
	Localization, mobility and fidelity of retrotransposed Group II introns in rRNA genes.	Conlan LH, Stanger MJ, Ichiyanagi K, Belfort M.	Nucleic Acids Res	10.1093/nar/gki819	2005
Pathogenicity	The ribosomal stalk is required for ribosome binding, depurination of the rRNA and cytotoxicity of ricin A chain in Saccharomyces cerevisiae.	Chiou JC, Li XP, Remacha M, Ballesta JP, Tumer NE.	Mol Microbiol	10.1111/j.1365-2958.2008.06492.x	2008
	Annotation of tertiary interactions in RNA structures reveals variations and correlations.	Xin Y, Laing C, Leontis NB, Schlick T.	RNA	10.1261/rna.1249208	2008
Enzymology	Discovery of a dipeptide epimerase enzymatic function guided by homology modeling and virtual screening.	Kalyanaraman C, Imker HJ, Fedorov AA, Fedorov EV, Glasner ME, Babbitt PC, Almo SC, Gerlt JA, Jacobson MP.	Structure	10.1016/j.str.2008.08.015	2008
	Ribosomal protein L3 functions as a 'rocker switch' to aid in coordinating of large subunit-associated functions in eukaryotes and Archaea.	Meskauskas A, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkn642	2008
Metabolism	Transcriptional control by two leucine-responsive regulatory proteins in Halobacterium salinarum R1.	Schwaiger R, Schwarz C, Furtwangler K, Tarasov V, Wende A, Oesterhelt D.	BMC Mol Biol	10.1186/1471-2199-11-40	2010
	Analysis of gene order conservation in eukaryotes identifies transcriptionally and functionally linked genes.	Davila Lopez M, Martinez Guerra JJ, Samuelsson T.	PLoS One	10.1371/journal.pone.0010654	2010
	Structure of the K-turn U4 RNA: a combined NMR and SANS study.	Falb M, Amata I, Gabel F, Simon B, Carlomagno T.	Nucleic Acids Res	10.1093/nar/gkq380	2010
Genetics	The genome of Sulfolobus acidocaldarius, a model organism of the Crenarchaeota.	Chen L, Brugger K, Skovgaard M, Redder P, She Q, Torarinsson E, Greve B, Awayez M, Zibat A, Klenk HP, Garrett RA.	J Bacteriol	10.1128/jb.187.14.4992-4999.2005	2005
Metabolism	Quinol-cytochrome c oxidoreductase and cytochrome c4 mediate electron transfer during selenate respiration in Thauera selenatis.	Lowe EC, Bydder S, Hartshorne RS, Tape HL, Dridge EJ, Debieux CM, Paszkiewicz K, Singleton I, Lewis RJ, Santini JM, Richardson DJ, Butler CS.	J Biol Chem	10.1074/jbc.m110.115873	2010
Pathogenicity	In vitro selection and characterization of resistance to macrolides and related antibiotics in Mycoplasma pneumoniae.	Pereyre S, Guyot C, Renaudin H, Charron A, Bebear C, Bebear CM.	Antimicrob Agents Chemother	10.1128/aac.48.2.460-465.2004	2004
	Automated de novo prediction of native-like RNA tertiary structures.	Das R, Baker D.	Proc Natl Acad Sci U S A	10.1073/pnas.0703836104	2007
Enzymology	Characterization of two new aminopeptidases in Escherichia coli.	Zheng Y, Roberts RJ, Kasif S, Guan C.	J Bacteriol	10.1128/jb.187.11.3671-3677.2005	2005
	Revealing unique properties of the ribosome using a network based analysis.	David-Eden H, Mandel-Gutfreund Y.	Nucleic Acids Res	10.1093/nar/gkn433	2008
Metabolism	The repertoire of ICE in prokaryotes underscores the unity, diversity, and ubiquity of conjugation.	Guglielmini J, Quintais L, Garcillan-Barcia MP, de la Cruz F, Rocha EP.	PLoS Genet	10.1371/journal.pgen.1002222	2011
Metabolism	Tertiary structure and function of an RNA motif required for plant vascular entry to initiate systemic trafficking.	Zhong X, Tao X, Stombaugh J, Leontis N, Ding B.	EMBO J	10.1038/sj.emboj.7601812	2007
Metabolism	A conserved chloramphenicol binding site at the entrance to the ribosomal peptide exit tunnel.	Long KS, Porse BT.	Nucleic Acids Res	10.1093/nar/gkg945	2003
	Evidence for strong selective constraint acting on the nucleotide composition of 16S ribosomal RNA genes.	Wang HC, Hickey DA.	Nucleic Acids Res	10.1093/nar/30.11.2501	2002
Genetics	Insights from 20 years of bacterial genome sequencing.	Land M, Hauser L, Jun SR, Nookaew I, Leuze MR, Ahn TH, Karpinets T, Lund O, Kora G, Wassenaar T, Poudel S, Ussery DW.	Funct Integr Genomics	10.1007/s10142-015-0433-4	2015
Pathogenicity	23S rRNA base pair 2057-2611 determines ketolide susceptibility and fitness cost of the macrolide resistance mutation 2058A-->G.	Pfister P, Corti N, Hobbie S, Bruell C, Zarivach R, Yonath A, Bottger EC.	Proc Natl Acad Sci U S A	10.1073/pnas.0501598102	2005
	Molecular mechanism and structure of Trigger Factor bound to the translating ribosome.	Merz F, Boehringer D, Schaffitzel C, Preissler S, Hoffmann A, Maier T, Rutkowska A, Lozza J, Ban N, Bukau B, Deuerling E.	EMBO J	10.1038/emboj.2008.89	2008
Metabolism	Pseudouridine formation in archaeal RNAs: The case of Haloferax volcanii.	Blaby IK, Majumder M, Chatterjee K, Jana S, Grosjean H, de Crecy-Lagard V, Gupta R.	RNA	10.1261/rna.2712811	2011
Metabolism	Maturation of the 5S rRNA 5' end is catalyzed in vitro by the endonuclease tRNase Z in the archaeon H. volcanii.	Holzle A, Fischer S, Heyer R, Schutz S, Zacharias M, Walther P, Allers T, Marchfelder A.	RNA	10.1261/rna.933208	2008
	Modeling RNA tertiary structure motifs by graph-grammars.	St-Onge K, Thibault P, Hamel S, Major F.	Nucleic Acids Res	10.1093/nar/gkm069	2007
Metabolism	Two distinct structural elements of 5S rRNA are needed for its import into human mitochondria.	Smirnov A, Tarassov I, Mager-Heckel AM, Letzelter M, Martin RP, Krasheninnikov IA, Entelis N.	RNA	10.1261/rna.952208	2008
	Single nucleotide RNA choreography.	Hsiao C, Mohan S, Hershkovitz E, Tannenbaum A, Williams LD.	Nucleic Acids Res	10.1093/nar/gkj500	2006
	Atomic model of the Thermus thermophilus 70S ribosome developed in silico.	Tung CS, Sanbonmatsu KY.	Biophys J	10.1529/biophysj.104.040162	2004
Metabolism	General trends in trace element utilization revealed by comparative genomic analyses of Co, Cu, Mo, Ni, and Se.	Zhang Y, Gladyshev VN.	J Biol Chem	10.1074/jbc.m109.071746	2010
	Chemistry and biology of macrolide antiparasitic agents.	Lee Y, Choi JY, Fu H, Harvey C, Ravindran S, Roush WR, Boothroyd JC, Khosla C.	J Med Chem	10.1021/jm101593u	2011
Enzymology	A study of archaeal enzymes involved in polar lipid synthesis linking amino acid sequence information, genomic contexts and lipid composition.	Daiyasu H, Kuma K, Yokoi T, Morii H, Koga Y, Toh H.	Archaea	10.1155/2005/452563	2005
	The K-turn motif in riboswitches and other RNA species.	Lilley DM.	Biochim Biophys Acta	10.1016/j.bbagrm.2014.04.020	2014
	The genetic core of the universal ancestor.	Harris JK, Kelley ST, Spiegelman GB, Pace NR.	Genome Res	10.1101/gr.652803	2003
Enzymology	Assembly of core helices and rapid tertiary folding of a small bacterial group I ribozyme.	Rangan P, Masquida B, Westhof E, Woodson SA.	Proc Natl Acad Sci U S A	10.1073/pnas.0337743100	2003
	Performance of Molecular Mechanics Force Fields for RNA Simulations: Stability of UUCG and GNRA Hairpins.	Banas P, Hollas D, Zgarbova M, Jurecka P, Orozco M, Cheatham TE, Sponer J, Otyepka M.	J Chem Theory Comput	10.1021/ct100481h	2010
Metabolism	Mutual interactions between subunits of the human RNase MRP ribonucleoprotein complex.	Welting TJ, van Venrooij WJ, Pruijn GJ.	Nucleic Acids Res	10.1093/nar/gkh539	2004
	The use of polyoxometalates in protein crystallography - An attempt to widen a well-known bottleneck.	Bijelic A, Rompel A.	Coord Chem Rev	10.1016/j.ccr.2015.03.018	2015
	Promoting RNA helical stacking via A-minor junctions.	Geary C, Chworos A, Jaeger L.	Nucleic Acids Res	10.1093/nar/gkq748	2011
	Resistance to the macrolide antibiotic tylosin is conferred by single methylations at 23S rRNA nucleotides G748 and A2058 acting in synergy.	Liu M, Douthwaite S.	Proc Natl Acad Sci U S A	10.1073/pnas.232580599	2002
Metabolism	The three-dimensional architecture of the class I ligase ribozyme.	Bergman NH, Lau NC, Lehnert V, Westhof E, Bartel DP.	RNA	10.1261/rna.5177504	2004
	Structural metals in the group I intron: a ribozyme with a multiple metal ion core.	Stahley MR, Adams PL, Wang J, Strobel SA.	J Mol Biol	10.1016/j.jmb.2007.06.026	2007
Metabolism	Crystal structure of RlmAI: implications for understanding the 23S rRNA G745/G748-methylation at the macrolide antibiotic-binding site.	Das K, Acton T, Chiang Y, Shih L, Arnold E, Montelione GT.	Proc Natl Acad Sci U S A	10.1073/pnas.0400189101	2004
Metabolism	A loop loop interaction and a K-turn motif located in the lysine aptamer domain are important for the riboswitch gene regulation control.	Blouin S, Lafontaine DA.	RNA	10.1261/rna.560307	2007
	Genome scanning of Amazonian Plasmodium falciparum shows subtelomeric instability and clindamycin-resistant parasites.	Dharia NV, Plouffe D, Bopp SE, Gonzalez-Paez GE, Lucas C, Salas C, Soberon V, Bursulaya B, Kochel TJ, Bacon DJ, Winzeler EA.	Genome Res	10.1101/gr.105163.110	2010
Metabolism	Different conformations of nascent polypeptides during translocation across the ER membrane.	Mingarro I, Nilsson I, Whitley P, von Heijne G.	BMC Cell Biol	10.1186/1471-2121-1-3	2000
Phylogeny	Universal artifacts affect the branching of phylogenetic trees, not universal scaling laws.	Altaba CR.	PLoS One	10.1371/journal.pone.0004611	2009
Phylogeny	BranchClust: a phylogenetic algorithm for selecting gene families.	Poptsova MS, Gogarten JP.	BMC Bioinformatics	10.1186/1471-2105-8-120	2007
	Predicting helical coaxial stacking in RNA multibranch loops.	Tyagi R, Mathews DH.	RNA	10.1261/rna.305307	2007
Metabolism	A flexible loop in yeast ribosomal protein L11 coordinates P-site tRNA binding.	Rhodin MH, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkq711	2010
	FR3D: finding local and composite recurrent structural motifs in RNA 3D structures.	Sarver M, Zirbel CL, Stombaugh J, Mokdad A, Leontis NB.	J Math Biol	10.1007/s00285-007-0110-x	2008
Metabolism	Methylation of ribosomal protein L42 regulates ribosomal function and stress-adapted cell growth.	Shirai A, Sadaie M, Shinmyozu K, Nakayama J.	J Biol Chem	10.1074/jbc.m110.132274	2010
Enzymology	A gene cluster for chlorate metabolism in Ideonella dechloratans.	Thorell HD, Stenklo K, Karlsson J, Nilsson T.	Appl Environ Microbiol	10.1128/aem.69.9.5585-5592.2003	2003
Metabolism	Ribosomal features essential for tna operon induction: tryptophan binding at the peptidyl transferase center.	Cruz-Vera LR, New A, Squires C, Yanofsky C.	J Bacteriol	10.1128/jb.01869-06	2007
	Structural motifs in the RNA encoded by the early nodulation gene enod40 of soybean.	Girard G, Roussis A, Gultyaev AP, Pleij CW, Spaink HP.	Nucleic Acids Res	10.1093/nar/gkg721	2003
Metabolism	The ribosome filter hypothesis.	Mauro VP, Edelman GM.	Proc Natl Acad Sci U S A	10.1073/pnas.192442499	2002
	On the role of Hoogsteen:Hoogsteen interactions in RNA: ab initio investigations of structures and energies.	Sharma P, Chawla M, Sharma S, Mitra A.	RNA	10.1261/rna.1919010	2010
	Yeast ribosomal protein L10 helps coordinate tRNA movement through the large subunit.	Petrov AN, Meskauskas A, Roshwalb SC, Dinman JD.	Nucleic Acids Res	10.1093/nar/gkn643	2008
	The NMR structure of an internal loop from 23S ribosomal RNA differs from its structure in crystals of 50s ribosomal subunits.	Shankar N, Kennedy SD, Chen G, Krugh TR, Turner DH.	Biochemistry	10.1021/bi0605787	2006
Metabolism	Novel insights into the diversity of catabolic metabolism from ten haloarchaeal genomes.	Anderson I, Scheuner C, Goker M, Mavromatis K, Hooper SD, Porat I, Klenk HP, Ivanova N, Kyrpides N.	PLoS One	10.1371/journal.pone.0020237	2011
Metabolism	Physics and evolution of thermophilic adaptation.	Berezovsky IN, Shakhnovich EI.	Proc Natl Acad Sci U S A	10.1073/pnas.0503890102	2005
	Sites Inferred by Metabolic Background Assertion Labeling (SIMBAL): adapting the Partial Phylogenetic Profiling algorithm to scan sequences for signatures that predict protein function.	Selengut JD, Rusch DB, Haft DH.	BMC Bioinformatics	10.1186/1471-2105-11-52	2010
	Multiwavelength anomalous diffraction analysis at the M absorption edges of uranium.	Liu Y, Ogata CM, Hendrickson WA.	Proc Natl Acad Sci U S A	10.1073/pnas.191003998	2001
	The crystal structure of a 26-nucleotide RNA containing a hook-turn.	Szep S, Wang J, Moore PB.	RNA	10.1261/rna.2107303	2003
Metabolism	Individual gvp transcript segments in Haloferax mediterranei exhibit varying half-lives, which are differentially affected by salt concentration and growth phase.	Jager A, Samorski R, Pfeifer F, Klug G.	Nucleic Acids Res	10.1093/nar/gkf699	2002
Metabolism	Dissection of the regulatory mechanism of a heat-shock responsive promoter in Haloarchaea: a new paradigm for general transcription factor directed archaeal gene regulation.	Lu Q, Han J, Zhou L, Coker JA, DasSarma P, DasSarma S, Xiang H.	Nucleic Acids Res	10.1093/nar/gkn152	2008
Metabolism	IcmF is a fusion between the radical B12 enzyme isobutyryl-CoA mutase and its G-protein chaperone.	Cracan V, Padovani D, Banerjee R.	J Biol Chem	10.1074/jbc.m109.062182	2010
	RNA and protein 3D structure modeling: similarities and differences.	Rother K, Rother M, Boniecki M, Puton T, Bujnicki JM.	J Mol Model	10.1007/s00894-010-0951-x	2011
Metabolism	Pleiotropic roles of a ribosomal protein in Dictyostelium discoideum.	Amarnath S, Kawli T, Mohanty S, Srinivasan N, Nanjundiah V.	PLoS One	10.1371/journal.pone.0030644	2012
	The identification of novel RNA structural motifs using COMPADRES: an automated approach to structural discovery.	Wadley LM, Pyle AM.	Nucleic Acids Res	10.1093/nar/gkh1002	2004
	Parameter optimized surfaces (POPS): analysis of key interactions and conformational changes in the ribosome.	Fraternali F, Cavallo L.	Nucleic Acids Res	10.1093/nar/gkf373	2002
	Isosteric and nonisosteric base pairs in RNA motifs: molecular dynamics and bioinformatics study of the sarcin-ricin internal loop.	Havrila M, Reblova K, Zirbel CL, Leontis NB, Sponer J.	J Phys Chem B	10.1021/jp408530w	2013
Genetics	Living with two extremes: conclusions from the genome sequence of Natronomonas pharaonis.	Falb M, Pfeiffer F, Palm P, Rodewald K, Hickmann V, Tittor J, Oesterhelt D.	Genome Res	10.1101/gr.3952905	2005
	The complete genome sequence of Thermoproteus tenax: a physiologically versatile member of the Crenarchaeota.	Siebers B, Zaparty M, Raddatz G, Tjaden B, Albers SV, Bell SD, Blombach F, Kletzin A, Kyrpides N, Lanz C, Plagens A, Rampp M, Rosinus A, von Jan M, Makarova KS, Klenk HP, Schuster SC, Hensel R.	PLoS One	10.1371/journal.pone.0024222	2011
Metabolism	Yeast ribosomal protein L40 assembles late into precursor 60 S ribosomes and is required for their cytoplasmic maturation.	Fernandez-Pevida A, Rodriguez-Galan O, Diaz-Quintana A, Kressler D, de la Cruz J.	J Biol Chem	10.1074/jbc.m112.400564	2012
Metabolism	Functional conservation between structurally diverse ribosomal proteins from Drosophila melanogaster and Saccharomyces cerevisiae: fly L23a can substitute for yeast L25 in ribosome assembly and function.	Ross CL, Patel RR, Mendelson TC, Ware VC.	Nucleic Acids Res	10.1093/nar/gkm428	2007
	Mutational analysis of 16S and 23S rRNA genes of Thermus thermophilus.	Gregory ST, Carr JF, Rodriguez-Correa D, Dahlberg AE.	J Bacteriol	10.1128/jb.187.14.4804-4812.2005	2005
Genetics	Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale.	Lecompte O, Ripp R, Thierry JC, Moras D, Poch O.	Nucleic Acids Res	10.1093/nar/gkf693	2002
	Interaction between trichosanthin, a ribosome-inactivating protein, and the ribosomal stalk protein P2 by chemical shift perturbation and mutagenesis analyses.	Chan DS, Chu LO, Lee KM, Too PH, Ma KW, Sze KH, Zhu G, Shaw PC, Wong KB.	Nucleic Acids Res	10.1093/nar/gkm065	2007
Genetics	RNomics and Modomics in the halophilic archaea Haloferax volcanii: identification of RNA modification genes.	Grosjean H, Gaspin C, Marck C, Decatur WA, de Crecy-Lagard V.	BMC Genomics	10.1186/1471-2164-9-470	2008
Metabolism	Internal loop mutations in the ribosomal protein L30 binding site of the yeast L30 RNA transcript.	White SA, Hoeger M, Schweppe JJ, Shillingford A, Shipilov V, Zarutskie J.	RNA	10.1261/rna.2159504	2004
	Modular RNA architecture revealed by computational analysis of existing pseudoknots and ribosomal RNAs.	Pasquali S, Gan HH, Schlick T.	Nucleic Acids Res	10.1093/nar/gki267	2005
Enzymology	Crystal structure of the catalytic domain of RluD, the only rRNA pseudouridine synthase required for normal growth of Escherichia coli.	Del Campo M, Ofengand J, Malhotra A.	RNA	10.1261/rna.5187404	2004
Metabolism	Path of nascent polypeptide in exit tunnel revealed by molecular dynamics simulation of ribosome.	Ishida H, Hayward S.	Biophys J	10.1529/biophysj.108.134890	2008
Enzymology	Chemical engineering of the peptidyl transferase center reveals an important role of the 2'-hydroxyl group of A2451.	Erlacher MD, Lang K, Shankaran N, Wotzel B, Huttenhofer A, Micura R, Mankin AS, Polacek N.	Nucleic Acids Res	10.1093/nar/gki308	2005
	Protein attributes contribute to halo-stability, bioinformatics approach.	Ebrahimie E, Ebrahimi M, Sarvestani NR, Ebrahimi M.	Saline Syst	10.1186/1746-1448-7-1	2011
Metabolism	Mechanisms of photoprotection and nonphotochemical quenching in pea light-harvesting complex at 2.5 A resolution.	Standfuss J, Terwisscha van Scheltinga AC, Lamborghini M, Kuhlbrandt W.	EMBO J	10.1038/sj.emboj.7600585	2005
Pathogenicity	A novel site of antibiotic action in the ribosome: interaction of evernimicin with the large ribosomal subunit.	Belova L, Tenson T, Xiong L, McNicholas PM, Mankin AS.	Proc Natl Acad Sci U S A	10.1073/pnas.071527498	2001
Metabolism	Ribosome performance is enhanced by a rich cluster of pseudouridines in the A-site finger region of the large subunit.	Piekna-Przybylska D, Przybylski P, Baudin-Baillieu A, Rousset JP, Fournier MJ.	J Biol Chem	10.1074/jbc.m803049200	2008
Transcriptome	Recurrent RNA motifs as probes for studying RNA-protein interactions in the ribosome.	Gagnon MG, Boutorine YI, Steinberg SV.	Nucleic Acids Res	10.1093/nar/gkq031	2010
Genetics	A comparative genomics perspective on the genetic content of the alkaliphilic haloarchaeon Natrialba magadii ATCC 43099T.	Siddaramappa S, Challacombe JF, Decastro RE, Pfeiffer F, Sastre DE, Gimenez MI, Paggi RA, Detter JC, Davenport KW, Goodwin LA, Kyrpides N, Tapia R, Pitluck S, Lucas S, Woyke T, Maupin-Furlow JA.	BMC Genomics	10.1186/1471-2164-13-165	2012
Enzymology	Schistosoma mansoni arginase shares functional similarities with human orthologs but depends upon disulphide bridges for enzymatic activity.	Fitzpatrick JM, Fuentes JM, Chalmers IW, Wynn TA, Modolell M, Hoffmann KF, Hesse M.	Int J Parasitol	10.1016/j.ijpara.2008.06.015	2009
Metabolism	Effect of polyamines on the inhibition of peptidyltransferase by antibiotics: revisiting the mechanism of chloramphenicol action.	Xaplanteri MA, Andreou A, Dinos GP, Kalpaxis DL.	Nucleic Acids Res	10.1093/nar/gkg686	2003
Phylogeny	Diversity of nitrite reductase (nirK and nirS) gene fragments in forested upland and wetland soils.	Prieme A, Braker G, Tiedje JM.	Appl Environ Microbiol	10.1128/aem.68.4.1893-1900.2002	2002
Metabolism	MRM2 encodes a novel yeast mitochondrial 21S rRNA methyltransferase.	Pintard L, Bujnicki JM, Lapeyre B, Bonnerot C.	EMBO J	10.1093/emboj/21.5.1139	2002
Genetics	Genomic context analysis in Archaea suggests previously unrecognized links between DNA replication and translation.	Berthon J, Cortez D, Forterre P.	Genome Biol	10.1186/gb-2008-9-4-r71	2008
	Interference probing of rRNA with snoRNPs: a novel approach for functional mapping of RNA in vivo.	Liu B, Fournier MJ.	RNA	10.1261/rna.7190104	2004
Metabolism	Exploration of the conserved A+C wobble pair within the ribosomal peptidyl transferase center using affinity purified mutant ribosomes.	Hesslein AE, Katunin VI, Beringer M, Kosek AB, Rodnina MV, Strobel SA.	Nucleic Acids Res	10.1093/nar/gkh672	2004
Metabolism	Prediction of RNA binding sites in proteins from amino acid sequence.	Terribilini M, Lee JH, Yan C, Jernigan RL, Honavar V, Dobbs D.	RNA	10.1261/rna.2197306	2006
Metabolism	Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.	Eyal Z, Matzov D, Krupkin M, Wekselman I, Paukner S, Zimmerman E, Rozenberg H, Bashan A, Yonath A.	Proc Natl Acad Sci U S A	10.1073/pnas.1517952112	2015
Metabolism	The coiled-coil domain of the Nop56/58 core protein is dispensable for sRNP assembly but is critical for archaeal box C/D sRNP-guided nucleotide methylation.	Zhang X, Champion EA, Tran EJ, Brown BA, Baserga SJ, Maxwell ES.	RNA	10.1261/rna.2230106	2006
	Three-dimensional motifs from the SCOR, structural classification of RNA database: extruded strands, base triples, tetraloops and U-turns.	Klosterman PS, Hendrix DK, Tamura M, Holbrook SR, Brenner SE.	Nucleic Acids Res	10.1093/nar/gkh537	2004
Metabolism	Solid phase synthesis and binding affinity of peptidyl transferase transition state mimics containing 2'-OH at P-site position A76.	Weinger JS, Kitchen D, Scaringe SA, Strobel SA, Muth GW.	Nucleic Acids Res	10.1093/nar/gkh311	2004
Phylogeny	Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified.	Keane TM, Creevey CJ, Pentony MM, Naughton TJ, Mclnerney JO.	BMC Evol Biol	10.1186/1471-2148-6-29	2006
	Assessing the evolutionary rate of positional orthologous genes in prokaryotes using synteny data.	Lemoine F, Lespinet O, Labedan B.	BMC Evol Biol	10.1186/1471-2148-7-237	2007
Metabolism	A role for ubiquitin in the clearance of nonfunctional rRNAs.	Fujii K, Kitabatake M, Sakata T, Miyata A, Ohno M.	Genes Dev	10.1101/gad.1775609	2009
	Molecular dynamics simulations of sarcin-ricin rRNA motif.	Spackova N, Sponer J.	Nucleic Acids Res	10.1093/nar/gkj470	2006
Metabolism	Yeast Oxa1 interacts with mitochondrial ribosomes: the importance of the C-terminal region of Oxa1.	Jia L, Dienhart M, Schramp M, McCauley M, Hell K, Stuart RA.	EMBO J	10.1093/emboj/cdg624	2003
	In situ accessibility of Escherichia coli 23S rRNA to fluorescently labeled oligonucleotide probes.	Fuchs BM, Syutsubo K, Ludwig W, Amann R.	Appl Environ Microbiol	10.1128/aem.67.2.961-968.2001	2001
Metabolism	Alanine-scanning mutagenesis of the predicted rRNA-binding domain of ErmC' redefines the substrate-binding site and suggests a model for protein-RNA interactions.	Maravic G, Bujnicki JM, Feder M, Pongor S, Flogel M.	Nucleic Acids Res	10.1093/nar/gkg666	2003
Metabolism	Mak5 and Ebp2 act together on early pre-60S particles and their reduced functionality bypasses the requirement for the essential pre-60S factor Nsa1.	Pratte D, Singh U, Murat G, Kressler D.	PLoS One	10.1371/journal.pone.0082741	2013
Metabolism	Enzymology and evolution of the pyruvate pathway to 2-oxobutyrate in Methanocaldococcus jannaschii.	Drevland RM, Waheed A, Graham DE.	J Bacteriol	10.1128/jb.00166-07	2007
	Constituents of SH1, a novel lipid-containing virus infecting the halophilic euryarchaeon Haloarcula hispanica.	Bamford DH, Ravantti JJ, Ronnholm G, Laurinavicius S, Kukkaro P, Dyall-Smith M, Somerharju P, Kalkkinen N, Bamford JK.	J Virol	10.1128/jvi.79.14.9097-9107.2005	2005
	Location of translational initiation factor IF3 on the small ribosomal subunit.	McCutcheon JP, Agrawal RK, Philips SM, Grassucci RA, Gerchman SE, Clemons WM, Ramakrishnan V, Frank J.	Proc Natl Acad Sci U S A	10.1073/pnas.96.8.4301	1999
	Genetic and physical mapping of DNA replication origins in Haloferax volcanii.	Norais C, Hawkins M, Hartman AL, Eisen JA, Myllykallio H, Allers T.	PLoS Genet	10.1371/journal.pgen.0030077	2007
	Recurrent structural RNA motifs, Isostericity Matrices and sequence alignments.	Lescoute A, Leontis NB, Massire C, Westhof E.	Nucleic Acids Res	10.1093/nar/gki535	2005
	DISPLAR: an accurate method for predicting DNA-binding sites on protein surfaces.	Tjong H, Zhou HX.	Nucleic Acids Res	10.1093/nar/gkm008	2007
Metabolism	Dynamic evolution of selenocysteine utilization in bacteria: a balance between selenoprotein loss and evolution of selenocysteine from redox active cysteine residues.	Zhang Y, Romero H, Salinas G, Gladyshev VN.	Genome Biol	10.1186/gb-2006-7-10-r94	2006
	The non-Watson-Crick base pairs and their associated isostericity matrices.	Leontis NB, Stombaugh J, Westhof E.	Nucleic Acids Res	10.1093/nar/gkf481	2002
Metabolism	23S rRNA assisted folding of cytoplasmic malate dehydrogenase is distinctly different from its self-folding.	Sanyal SC, Pal S, Chowdhury S, DasGupta C.	Nucleic Acids Res	10.1093/nar/30.11.2390	2002
	The Dedicated Chaperone Acl4 Escorts Ribosomal Protein Rpl4 to Its Nuclear Pre-60S Assembly Site.	Pillet B, Garcia-Gomez JJ, Pausch P, Falquet L, Bange G, de la Cruz J, Kressler D.	PLoS Genet	10.1371/journal.pgen.1005565	2015
	Structural and evolutionary classification of G/U wobble basepairs in the ribosome.	Mokdad A, Krasovska MV, Sponer J, Leontis NB.	Nucleic Acids Res	10.1093/nar/gkl025	2006
Metabolism	Methanoarchaeal sulfolactate dehydrogenase: prototype of a new family of NADH-dependent enzymes.	Irimia A, Madern D, Zaccai G, Vellieux FM.	EMBO J	10.1038/sj.emboj.7600147	2004
	Distribution of substitution rates and location of insertion sites in the tertiary structure of ribosomal RNA.	Wuyts J, Van de Peer Y, De Wachter R.	Nucleic Acids Res	10.1093/nar/29.24.5017	2001
Genetics	Understanding the adaptation of Halobacterium species NRC-1 to its extreme environment through computational analysis of its genome sequence.	Kennedy SP, Ng WV, Salzberg SL, Hood L, DasSarma S.	Genome Res	10.1101/gr.190201	2001
Metabolism	The kink-turn motif in RNA is dimorphic, and metal ion-dependent.	Goody TA, Melcher SE, Norman DG, Lilley DM.	RNA	10.1261/rna.5176604	2004
Enzymology	An atomic-resolution view of neofunctionalization in the evolution of apicomplexan lactate dehydrogenases.	Boucher JI, Jacobowitz JR, Beckett BC, Classen S, Theobald DL.	Elife	10.7554/elife.02304	2014
	Purine biosynthesis in archaea: variations on a theme.	Brown AM, Hoopes SL, White RH, Sarisky CA.	Biol Direct	10.1186/1745-6150-6-63	2011
Metabolism	An improved definition of the RNA-binding specificity of SECIS-binding protein 2, an essential component of the selenocysteine incorporation machinery.	Clery A, Bourguignon-Igel V, Allmang C, Krol A, Branlant C.	Nucleic Acids Res	10.1093/nar/gkm066	2007
Metabolism	Inactivation of vimF, a putative glycosyltransferase gene downstream of vimE, alters glycosylation and activation of the gingipains in Porphyromonas gingivalis W83.	Vanterpool E, Roy F, Fletcher HM.	Infect Immun	10.1128/iai.73.7.3971-3982.2005	2005
	Localization of spermine binding sites in 23S rRNA by photoaffinity labeling: parsing the spermine contribution to ribosomal 50S subunit functions.	Xaplanteri MA, Petropoulos AD, Dinos GP, Kalpaxis DL.	Nucleic Acids Res	10.1093/nar/gki557	2005
Metabolism	RNA-structural mimicry in Escherichia coli ribosomal protein L4-dependent regulation of the S10 operon.	Stelzl U, Zengel JM, Tovbina M, Walker M, Nierhaus KH, Lindahl L, Patel DJ.	J Biol Chem	10.1074/jbc.m302651200	2003
	The snRNP 15.5K protein folds its cognate K-turn RNA: a combined theoretical and biochemical study.	Cojocaru V, Nottrott S, Klement R, Jovin TM.	RNA	10.1261/rna.7149605	2005
Enzymology	Subunit topology of two 20S proteasomes from Haloferax volcanii.	Kaczowka SJ, Maupin-Furlow JA.	J Bacteriol	10.1128/jb.185.1.165-174.2003	2003
Metabolism	Release of the export adapter, Nmd3p, from the 60S ribosomal subunit requires Rpl10p and the cytoplasmic GTPase Lsg1p.	Hedges J, West M, Johnson AW.	EMBO J	10.1038/sj.emboj.7600547	2005
	Combined in silico and experimental identification of the Pyrococcus abyssi H/ACA sRNAs and their target sites in ribosomal RNAs.	Muller S, Leclerc F, Behm-Ansmant I, Fourmann JB, Charpentier B, Branlant C.	Nucleic Acids Res	10.1093/nar/gkn077	2008
Metabolism	Methanosarcina acetivorans flap endonuclease 1 activity is inhibited by a cognate single-stranded-DNA-binding protein.	Lin Y, Guzman CE, McKinney MC, Nair SK, Ha T, Cann IK.	J Bacteriol	10.1128/jb.00045-06	2006
Metabolism	Probing the structure and function of an archaeal C/D-box methylation guide sRNA.	Omer AD, Zago M, Chang A, Dennis PP.	RNA	10.1261/rna.31506	2006
	Comprehensive features of natural and in vitro selected GNRA tetraloop-binding receptors.	Geary C, Baudrey S, Jaeger L.	Nucleic Acids Res	10.1093/nar/gkm1048	2008
	Three-dimensional cryo-electron microscopy localization of EF2 in the Saccharomyces cerevisiae 80S ribosome at 17.5 A resolution.	Gomez-Lorenzo MG, Spahn CM, Agrawal RK, Grassucci RA, Penczek P, Chakraburtty K, Ballesta JP, Lavandera JL, Garcia-Bustos JF, Frank J.	EMBO J	10.1093/emboj/19.11.2710	2000
Metabolism	Comprehensive de novo structure prediction in a systems-biology context for the archaea Halobacterium sp. NRC-1.	Bonneau R, Baliga NS, Deutsch EW, Shannon P, Hood L.	Genome Biol	10.1186/gb-2004-5-8-r52	2004
	An evidence of laccases in archaea.	Sharma KK, Kuhad RC	Indian J Microbiol	10.1007/s12088-009-0039-4	2009
Genetics	Genome-Based Reclassification of Two Haloarcula Species and Characterization of Haloarcula montana sp. nov.	Liu JQ, Zhu LR, Mao YL, Ma X, Hou J.	Biology (Basel)	10.3390/biology14060615	2025
	Halomicroarcula laminariae sp. nov. and Halomicroarcula marina sp. nov., extremely halophilic archaea isolated from salted brown alga Laminaria and coastal saline-alkali lands.	Ma X, Hu Y, Li XX, Tan S, Cheng M, Hou J, Cui HL.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005889	2023
Phylogeny	Halomicroarcula pellucida gen. nov., sp. nov., a non-pigmented, transparent-colony-forming, halophilic archaeon isolated from solar salt.	Echigo A, Minegishi H, Shimane Y, Kamekura M, Itoh T, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.049965-0	2013
Phylogeny	Haloarcula marismortui (Volcani) sp. nov., nom. rev., an extremely halophilic bacterium from the Dead Sea.	Oren A, Ginzburg M, Ginzburg BZ, Hochstein LI, Volcani BE	Int J Syst Bacteriol	10.1099/00207713-40-2-209	1990

References

#1463	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3752
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Haloarcula marismortui (DSM 3752, ATCC 43049, Halobacterium of the Dead Sea)

Name and taxonomic classification

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