Name: Halorhabdus utahensis AX-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5881

Type strain:

Species: Halorhabdus utahensis

Strain Designation: AX-2

Culture col. no.: DSM 12940, JCM 11049

Strain history: DSM 12940 <-- M. Wainø AX-2.

NCBI tax ID(s): 519442 (strain), 146826 (species)

SI-ID 100678

DSM 12940, JCM 11049

Section

Halorhabdus utahensis AX-2 is an archaeon that was isolated from sediment.

16S sequence
Archaea
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Archaea"
	Phylum	*Methanobacteriota*
	Class	*Halobacteria*
	Order	*Halobacteriales*
	Family	*Haloarculaceae*
	Genus	*Halorhabdus*
	Species	**Halorhabdus utahensis**
	Full Scientific Name (LPSN)	Halorhabdus utahensis Wainø et al. 2000

Information on morphological and physiological properties Morphology

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

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Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #4867]

Culture medium

HALORHABDUS UTAHENSIS MEDIUM (DSMZ Medium 927)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #4867]			growth	37-45 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #67770]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

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Observation

quinones: MK-8, MK-8(H₂)

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #4867]	Sample type/isolated from	sediment
[Ref.: #4867]	Geographic location (country and/or sea, region)	Utah, Great Salt Lake
[Ref.: #4867]	Country	USA
[Ref.: #4867]	Country ISO 3 Code	USA
[Ref.: #4867]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Sediment of Great Salt Lake
[Ref.: #67770]	Geographic location (country and/or sea, region)	UT
[Ref.: #67770]	Country	USA
[Ref.: #67770]	Country ISO 3 Code	USA
[Ref.: #67770]	Continent	North America
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF071880 (>99% sequence identity) for Halorhabdus from Microbeatlas

Aquatic Samples	23
Soil Samples	10
Animal Samples
Plant Samples
Total Samples	33

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

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Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Halobacter utahensis 16S ribosomal RNA gene, partial sequence	AF071880	1422	ENA	519442 tax ID
[Ref.: #20218]	Halorhabdus utahensis gene for 16S rRNA, complete sequence, strain: JCM 11049	AB663400	1472	ENA	146826 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halorhabdus utahensis DSM 12940	GCA_000023945	complete	GenBank	519442 tax ID	*
[Ref.: #66792]	Halorhabdus utahensis AX-2, DSM 12940	644736373	complete	JGI IMG/M	519442 tax ID	*
[Ref.: #66792]	Halorhabdus utahensis DSM 12940	519442.20	complete	PATRIC	519442 tax ID	*

[Ref.: #4867]	GC-content	64 mol%
[Ref.: #67770]	GC-content	64 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halorhabdus utahensis DSM 12940 DSM 12940 NCBI: GCA_000023945.1
[Ref.: #69480]	motile	no	74.078	no
[Ref.: #69480]	flagellated	no	96.14	no
[Ref.: #69480]	gram-positive	no	96.337	no
[Ref.: #69480]	anaerobic	no	79.961	no
[Ref.: #69480]	aerobic	yes	60.294	no
[Ref.: #69480]	halophile	yes	56.608	no
[Ref.: #69480]	spore-forming	no	95.235	no
[Ref.: #69480]	thermophile	no	78.109	yes
[Ref.: #69480]	glucose-util	yes	87.202	no
[Ref.: #69480]	glucose-ferment	no	73.074	no

Availability in culture collections External links

[Ref.: #4867]

Culture collection no.

DSM 12940, JCM 11049

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SI-ID 100678

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halorhabdus amylolytica sp. nov. and Halorhabdus salina sp. nov., isolated from hypersaline environments.	Wang R, Chen F, Wang J, Liu A, Ke L, Wan F, Chen S	Int J Syst Evol Microbiol	10.1099/ijsem.0.005346	2022	*
Phylogeny	Halorhabdus rudnickae sp. nov., a halophilic archaeon isolated from a salt mine borehole in Poland.	Albuquerque L, Kowalewicz-Kulbat M, Drzewiecka D, Staczek P, d'Auria G, Rossello-Mora R, da Costa MS	Syst Appl Microbiol	10.1016/j.syapm.2015.12.004	2015	*
Genetics	Halorhabdus tiamatea: proteogenomics and glycosidase activity measurements identify the first cultivated euryarchaeon from a deep-sea anoxic brine lake as potential polysaccharide degrader.	Werner J, Ferrer M, Michel G, Mann AJ, Huang S, Juarez S, Ciordia S, Albar JP, Alcaide M, La Cono V, Yakimov MM, Antunes A, Taborda M, da Costa MS, Hai T, Glockner FO, Golyshina OV, Golyshin PN, Teeling H	Environ Microbiol	10.1111/1462-2920.12393	2014	*
Phylogeny	Halovenus aranensis gen. nov., sp. nov., an extremely halophilic archaeon from Aran-Bidgol salt lake.	Makhdoumi-Kakhki A, Amoozegar MA, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.031419-0	2011	*
Genetics	Complete genome sequence of Halorhabdus utahensis type strain (AX-2).	Anderson I, Tindall BJ, Pomrenke H, Goker M, Lapidus A, Nolan M, Copeland A, Glavina Del Rio T, Chen F, Tice H, Cheng JF, Lucas S, Chertkov O, Bruce D, Brettin T, Detter JC, Han C, Goodwin L, Land M, Hauser L, Chang YJ, Jeffries CD, Pitluck S, Pati A, Mavromatis K, Ivanova N, Ovchinnikova G, Chen A, Palaniappan K, Chain P, Rohde M, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP	Stand Genomic Sci	10.4056/sigs.31864	2009	*
Phylogeny	Halorhabdus utahensis gen. nov., sp. nov., an aerobic, extremely halophilic member of the Archaea from Great Salt Lake, Utah.	Waino M, Tindall BJ, Ingvorsen K	Int J Syst Evol Microbiol	10.1099/00207713-50-1-183	2000	*

References

#4867

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 12940

#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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#75360

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID100678.1 )

* These data were automatically processed and therefore are not curated

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Halorhabdus utahensis DSM 12940 DSM 12940

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