Caldilinea aerophila (DSM 14535, JCM 11387, STL-6-01)

Cell morphology

Colony morphology

Multimedia

• @ref:	66793
  multimedia content:	EM_DSM_14535_1.jpg
  multimedia.multimedia content:	EM_DSM_14535_1.jpg
  caption:	electron microscopic image
  intellectual property rights:	© HZI/Manfred Rohde
  manual_annotation:	1

Culture medium

@ref	Name	Growth	Medium link	Composition
5287	ANAEROLINEA MEDIUM (DSMZ Medium 1004)		Medium recipe at MediaDive	Name: ANAEROLINEA MEDIUM (DSMZ Medium 1004) Composition: NaHCO3 2.49252 g/l Yeast extract 2.29312 g/l D-Glucose 2.19342 g/l NH4Cl 0.538385 g/l Na2S x 9 H2O 0.249252 g/l L-Cysteine HCl x H2O 0.249252 g/l MgCl2 x 6 H2O 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l KH2PO4 0.139581 g/l Na2-EDTA x 2 H2O 0.00518445 g/l FeCl2 x 4 H2O 0.00149551 g/l Sodium resazurin 0.000498504 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

Oxygen tolerance

Spore formation

Observation

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions	external links
66794	cellulose degradation	100	5 of 5
66794	hydrogen production	100	5 of 5
66794	gluconeogenesis	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	formaldehyde oxidation	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	teichoic acid biosynthesis	100	1 of 1
66794	sulfopterin metabolism	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	cyanate degradation	100	3 of 3
66794	vitamin K metabolism	100	5 of 5
66794	aspartate and asparagine metabolism	100	9 of 9
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	degradation of sugar alcohols	93.75	15 of 16
66794	pyrimidine metabolism	91.11	41 of 45
66794	pentose phosphate pathway	90.91	10 of 11
66794	Entner Doudoroff pathway	90	9 of 10
66794	threonine metabolism	90	9 of 10
66794	myo-inositol biosynthesis	90	9 of 10
66794	starch degradation	90	9 of 10
66794	propionate fermentation	90	9 of 10
66794	d-mannose degradation	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	purine metabolism	88.3	83 of 94
66794	ketogluconate metabolism	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	palmitate biosynthesis	86.36	19 of 22
66794	alanine metabolism	86.21	25 of 29
66794	photosynthesis	85.71	12 of 14
66794	heme metabolism	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	proline metabolism	81.82	9 of 11
66794	3-chlorocatechol degradation	80	4 of 5
66794	flavin biosynthesis	80	12 of 15
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	methylglyoxal degradation	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	serine metabolism	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	sulfate reduction	76.92	10 of 13
66794	vitamin B12 metabolism	76.47	26 of 34
66794	lysine metabolism	76.19	32 of 42
66794	acetate fermentation	75	3 of 4
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	degradation of pentoses	75	21 of 28
66794	glycogen biosynthesis	75	3 of 4
66794	degradation of hexoses	72.22	13 of 18
66794	degradation of sugar acids	72	18 of 25
66794	citric acid cycle	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	tryptophan metabolism	71.05	27 of 38
66794	glycolysis	70.59	12 of 17
66794	methionine metabolism	69.23	18 of 26
66794	histidine metabolism	68.97	20 of 29
66794	oxidative phosphorylation	68.13	62 of 91
66794	acetoin degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	NAD metabolism	66.67	12 of 18
66794	nitrate assimilation	66.67	6 of 9
66794	glutathione metabolism	64.29	9 of 14
66794	tetrahydrofolate metabolism	64.29	9 of 14
66794	carotenoid biosynthesis	63.64	14 of 22
66794	d-xylose degradation	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	polyamine pathway	60.87	14 of 23
66794	non-pathway related	60.53	23 of 38
66794	phenol degradation	60	12 of 20
66794	glycine betaine biosynthesis	60	3 of 5
66794	arginine metabolism	58.33	14 of 24
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	propanol degradation	57.14	4 of 7
66794	tyrosine metabolism	57.14	8 of 14
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	lipid metabolism	54.84	17 of 31
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	ascorbate metabolism	50	11 of 22
66794	ribulose monophosphate pathway	50	1 of 2
66794	kanosamine biosynthesis II	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	sphingosine metabolism	50	3 of 6
66794	coenzyme A metabolism	50	2 of 4
66794	cis-vaccenate biosynthesis	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	coenzyme M biosynthesis	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	methanogenesis from CO2	50	6 of 12
66794	lipid A biosynthesis	44.44	4 of 9
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	mevalonate metabolism	42.86	3 of 7
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	aclacinomycin biosynthesis	42.86	3 of 7
66794	creatinine degradation	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	vitamin B6 metabolism	36.36	4 of 11
66794	enterobactin biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	allantoin degradation	33.33	3 of 9
66794	octane oxidation	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	butanoate fermentation	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	arachidonic acid metabolism	22.22	4 of 18

Isolation source categories

Isolation

Taxonmaps

69479

Global distribution of 16S sequence AB067647 (>99% sequence identity) for Caldilinea aerophila subclade from Microbeatlas

Aquatic Samples	620
Soil Samples	195
Animal Samples	234
Plant Samples	20
Total Samples	1069

Risk assessment

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Caldilinea aerophila STL-6-O1, DSM 14535	complete			2513020048	926550	99.05
66792	ASM28117v1 assembly for Caldilinea aerophila DSM 14535 = NBRC 104270	complete	GCA_000281175	926550.5	2540341085	926550	97.57

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5287	Caldilinea aerophila gene for 16S rRNA, partial sequence	AB067647	1427		926550

GC content

Predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Characterization of a highly xylose tolerant beta-xylosidase isolated from high temperature horse manure compost.	Ndata K, Nevondo W, Cekuse B, van Zyl LJ, Trindade M.	BMC Biotechnol	10.1186/s12896-021-00722-6	2021
	Dissimilatory nitrate reduction to ammonium in four Pseudomonas spp. under aerobic conditions.	Huang X, Luoluo, Xie D, Li Z.	Heliyon	10.1016/j.heliyon.2023.e14983	2023
Enzymology	Thermophilic bacteria are potential sources of novel Rieske non-heme iron oxygenases.	Chakraborty J, Suzuki-Minakuchi C, Okada K, Nojiri H.	AMB Express	10.1186/s13568-016-0318-5	2017
	Anodic and Cathodic Extracellular Electron Transfer by the Filamentous Bacterium Ardenticatena maritima 110S.	Kawaichi S, Yamada T, Umezawa A, McGlynn SE, Suzuki T, Dohmae N, Yoshida T, Sako Y, Matsushita N, Hashimoto K, Nakamura R.	Front Microbiol	10.3389/fmicb.2018.00068	2018
	Phylogenetic Relationships and Potential Functional Attributes of the Genus Parapedobacter: A Member of Family Sphingobacteriaceae.	Nagar S, Talwar C, Haider S, Puri A, Ponnusamy K, Gupta M, Sood U, Bajaj A, Lal R, Kumar R.	Front Microbiol	10.3389/fmicb.2020.01725	2020
Genetics	Single-cell metabolite detection and genomics reveals uncultivated talented producer.	Kogawa M, Miyaoka R, Hemmerling F, Ando M, Yura K, Ide K, Nishikawa Y, Hosokawa M, Ise Y, Cahn JKB, Takada K, Matsunaga S, Mori T, Piel J, Takeyama H.	PNAS Nexus	10.1093/pnasnexus/pgab007	2022
Phylogeny	Genomic properties of Marine Group A bacteria indicate a role in the marine sulfur cycle.	Wright JJ, Mewis K, Hanson NW, Konwar KM, Maas KR, Hallam SJ.	ISME J	10.1038/ismej.2013.152	2014
Genetics	Genome Features and Secondary Metabolites Biosynthetic Potential of the Class Ktedonobacteria.	Zheng Y, Saitou A, Wang CM, Toyoda A, Minakuchi Y, Sekiguchi Y, Ueda K, Takano H, Sakai Y, Abe K, Yokota A, Yabe S.	Front Microbiol	10.3389/fmicb.2019.00893	2019
Phylogeny	The influence of temperature and pH on bacterial community composition of microbial mats in hot springs from Costa Rica.	Uribe-Lorio L, Brenes-Guillen L, Hernandez-Ascencio W, Mora-Amador R, Gonzalez G, Ramirez-Umana CJ, Diez B, Pedros-Alio C.	Microbiologyopen	10.1002/mbo3.893	2019
Metabolism	Stable Isotope Probing for Microbial Iron Reduction in Chocolate Pots Hot Spring, Yellowstone National Park.	Fortney NW, He S, Kulkarni A, Friedrich MW, Holz C, Boyd ES, Roden EE.	Appl Environ Microbiol	10.1128/aem.02894-17	2018
	Evolution and Functional Diversification of Serine Racemase Homologs in Bacteria.	Uda K, Nishimura R, Li Y, Shimoda E, Miyamoto T, Moe LA.	J Mol Evol	10.1007/s00239-024-10231-7	2025
Enzymology	Characteristics of a fructose 6-phosphate 4-epimerase from Caldilinea aerophila DSM 14535 and its application for biosynthesis of tagatose.	Dai Y, Zhang J, Zhang T, Chen J, Hassanin HA, Jiang B	Enzyme Microb Technol	10.1016/j.enzmictec.2020.109594	2020
Phylogeny	Anaerolinea thermophila gen. nov., sp. nov. and Caldilinea aerophila gen. nov., sp. nov., novel filamentous thermophiles that represent a previously uncultured lineage of the domain Bacteria at the subphylum level.	Sekiguchi Y, Yamada T, Hanada S, Ohashi A, Harada H, Kamagata Y	Int J Syst Evol Microbiol	10.1099/ijs.0.02699-0	2003
Phylogeny	Caldilinea tarbellica sp. nov., a filamentous, thermophilic, anaerobic bacterium isolated from a deep hot aquifer in the Aquitaine Basin.	Gregoire P, Bohli M, Cayol JL, Joseph M, Guasco S, Dubourg K, Cambar J, Michotey V, Bonin P, Fardeau ML, Ollivier B	Int J Syst Evol Microbiol	10.1099/ijs.0.025676-0	2010