Name: Thermovirga lienii Cas60314
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17776

Type strain:

Species: Thermovirga lienii

Strain Designation: Cas60314

Culture col. no.: DSM 17291, ATCC BAA-1197

Strain history: <- H. Dahle, University of Bergen, Department of Biology, Bergen, Norway; Cas60314 <- H. Dahle

NCBI tax ID(s): 580340 (strain), 336261 (species)

SI-ID 297362

ATCC BAA-1197, DSM 17291

Section

Thermovirga lienii Cas60314 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from production water from an oil well .

Gram-negative
motile
rod-shaped
anaerobe
thermophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Synergistota*
	Class	*Synergistia*
	Order	*Synergistales*
	Family	*Synergistaceae*
	Genus	*Thermovirga*
	Species	**Thermovirga lienii**
	Full Scientific Name (LPSN)	Thermovirga lienii Dahle and Birkeland 2006

Information on morphological and physiological properties Morphology

[Ref.: #31610]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.627

[Ref.: #31610]	Cell length	02-03 µm

[Ref.: #31610]	Cell width	0.4-0.8 µm

[Ref.: #31610]	Cell shape	rod-shaped

[Ref.: #31610]	Motility	yes

[Ref.: #31610]

Pigment production

yes

Multimedia content

[Ref.: #66793]

Caption:

electron microscopic image

[Ref.: #66793]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6876]

Culture medium

DESULFOBACTERIUM MEDIUM (DSMZ Medium 383)

[Ref.: #6876]

Culture medium growth

[Ref.: #6876]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6876]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6876]	growth	55 °C
[Ref.: #31610]	growth	37-68 °C
[Ref.: #31610]	optimum	58 °C

[Ref.: #6876]	Temperature range	thermophilic
[Ref.: #31610]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.638

	pH	Kind of pH		pH
[Ref.: #31610]			optimum	6.5-7
[Ref.: #31610]			growth	6.2-8

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6876]	Oxygen tolerance	anaerobe
[Ref.: #31610]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.666

[Ref.: #31610]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996

[Ref.: #31610]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31610]	alanine ChEBI	+	carbon source
[Ref.: #31610]	arginine ChEBI	+	carbon source
[Ref.: #31610]	glutamate ChEBI	+	carbon source
[Ref.: #31610]	leucine ChEBI	+	carbon source

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	aminopropanol phosphate biosynthesis	100	2 of 2
[Ref.: #66794]	threonine metabolism	100	10 of 10
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	gluconeogenesis	87.5	7 of 8
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	87.5	7 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	peptidoglycan biosynthesis	86.67	13 of 15
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	phenylalanine metabolism	84.62	11 of 13
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	valine metabolism	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	lysine metabolism	69.05	29 of 42
[Ref.: #66794]	alanine metabolism	68.97	20 of 29
[Ref.: #66794]	purine metabolism	67.02	63 of 94
[Ref.: #66794]	molybdenum cofactor biosynthesis	66.67	6 of 9
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	cysteine metabolism	66.67	12 of 18
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	chorismate metabolism	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	citric acid cycle	64.29	9 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	factor 420 biosynthesis	60	3 of 5
[Ref.: #66794]	glycolysis	58.82	10 of 17
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	CO2 fixation in Crenarchaeota	55.56	5 of 9
[Ref.: #66794]	serine metabolism	55.56	5 of 9
[Ref.: #66794]	NAD metabolism	55.56	10 of 18
[Ref.: #66794]	pentose phosphate pathway	54.55	6 of 11
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	biotin biosynthesis	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	glycogen biosynthesis	50	2 of 4
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	suberin monomers biosynthesis	50	1 of 2
[Ref.: #66794]	Entner Doudoroff pathway	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	polyamine pathway	47.83	11 of 23
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	46.15	6 of 13
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	degradation of hexoses	44.44	8 of 18
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	oxidative phosphorylation	42.86	39 of 91
[Ref.: #66794]	glutathione metabolism	42.86	6 of 14
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	vitamin B12 metabolism	41.18	14 of 34
[Ref.: #66794]	glycogen metabolism	40	2 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	ketogluconate metabolism	37.5	3 of 8
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	lipid metabolism	35.48	11 of 31
[Ref.: #66794]	isoprenoid biosynthesis	34.62	9 of 26
[Ref.: #66794]	non-pathway related	34.21	13 of 38
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	sulfate reduction	30.77	4 of 13
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	vitamin B6 metabolism	27.27	3 of 11
[Ref.: #66794]	3-phenylpropionate degradation	26.67	4 of 15
[Ref.: #66794]	degradation of sugar alcohols	25	4 of 16
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	degradation of pentoses	25	7 of 28
[Ref.: #66794]	dTDPLrhamnose biosynthesis	25	2 of 8
[Ref.: #66794]	ascorbate metabolism	22.73	5 of 22
[Ref.: #66794]	aspartate and asparagine metabolism	22.22	2 of 9
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #6876]	Sample type/isolated from	production water from an oil well (the Troll C oil well)
[Ref.: #6876]	Geographic location (country and/or sea, region)	North Sea
[Ref.: #6876]	Country	Norway
[Ref.: #6876]	Country ISO 3 Code	NOR
[Ref.: #6876]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Engineered	#Industrial	#Oil reservoir
#Environmental	#Aquatic	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ071273 (>99% sequence identity) for Thermovirga lienii subclade from Microbeatlas

Aquatic Samples	694
Soil Samples	141
Animal Samples	727
Plant Samples	66
Total Samples	1628

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

[Ref.: #6876]

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.: #6876]	Thermovirga lienii strain Cas60314 16S ribosomal RNA gene, partial sequence	DQ071273	1427	ENA	580340 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Thermovirga lienii DSM 17291	GCA_000233775	complete	GenBank	580340 tax ID	*
[Ref.: #66792]	Thermovirga lienii DSM 17291	580340.6	complete	PATRIC	580340 tax ID	*
[Ref.: #66792]	Thermovirga lienii DSM 17291	580340.17	plasmid	PATRIC	580340 tax ID	*
[Ref.: #66792]	Thermovirga lienii Cas60314, DSM 17291	2505119043	complete	JGI IMG/M	580340 tax ID	*

[Ref.: #6876]	GC-content	47.1 mol%	sequence analysis
[Ref.: #31610]	GC-content	46.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Thermovirga lienii DSM 17291 DSM 17291 NCBI: GCA_000233775.1
[Ref.: #69481]	spore-forming	no	62	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Thermovirga lienii DSM 17291 DSM 17291 NCBI: GCA_000233775.1
[Ref.: #69480]	motile	yes	88.075	no
[Ref.: #69480]	flagellated	no	87.108	no
[Ref.: #69480]	gram-positive	no	99.253	yes
[Ref.: #69480]	anaerobic	yes	99.999	no
[Ref.: #69480]	aerobic	no	99.323	no
[Ref.: #69480]	halophile	no	88.602	no
[Ref.: #69480]	spore-forming	no	89.744	no
[Ref.: #69480]	thermophile	yes	100	yes
[Ref.: #69480]	glucose-util	yes	60.843	no
[Ref.: #69480]	glucose-ferment	no	60.729	no

Availability in culture collections External links

[Ref.: #6876]

Culture collection no.

DSM 17291, ATCC BAA-1197

[Ref.: #86767]

SI-ID 297362

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome sequence of the moderately thermophilic, amino-acid-degrading and sulfur-reducing bacterium Thermovirga lienii type strain (Cas60314(T)).	Goker M, Saunders E, Lapidus A, Nolan M, Lucas S, Hammon N, Deshpande S, Cheng JF, Han C, Tapia R, Goodwin LA, Pitluck S, Liolios K, Mavromatis K, Pagani I, Ivanova N, Mikhailova N, Pati A, Chen A, Palaniappan K, Land M, Chang YJ, Jeffries CD, Brambilla EM, Rohde M, Spring S, Detter JC, Woyke T, Bristow J, Eisen JA, Markowitz V, Hugenholtz P, Kyrpides NC, Klenk HP	Stand Genomic Sci	10.4056/sigs.2726028	2012	*
Metabolism	Thermovirga lienii gen. nov., sp. nov., a novel moderately thermophilic, anaerobic, amino-acid-degrading bacterium isolated from a North Sea oil well.	Dahle H, Birkeland NK	Int J Syst Evol Microbiol	10.1099/ijs.0.63894-0	2006	*

References

#6876

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17291

#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 )

#31610

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #27898 (see below)

#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 )

#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 )

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#86767

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-ID297362.1 )

#27898

IJSEM 1539 2006 ( DOI 10.1099/ijs.0.63894-0 , PubMed 16825627 )

* These data were automatically processed and therefore are not curated

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Thermovirga lienii DSM 17291 DSM 17291

Thermovirga lienii DSM 17291 DSM 17291

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