Name: Brevifollis gellanilyticus DC2c-G4
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133971

Type strain:

Species: Brevifollis gellanilyticus

Strain Designation: DC2c-G4

Culture col. no.: NBRC 108608, CIP 110457

Strain history: CIP <- 2012, NBRC <- S. Otsuka, Tokyo Univ., Tokyo, Japan: strain DC2c-G4, Prosthecobacter sp.

NCBI tax ID(s): 748831 (species)

SI-ID 390373

NBRC 108608, CIP 110457

Section

Brevifollis gellanilyticus DC2c-G4 is an aerobe, Gram-negative, ovoid-shaped bacterium that was isolated from Environment, Soil, consortia of bacteria inoculated from soil and alga, from an artificial consortium of Chlorella vulgaris and a mixed population of bacteria originating from soil..

Gram-negative
ovoid-shaped
aerobe
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	*Verrucomicrobiota*
	Class	*Verrucomicrobiia*
	Order	*Verrucomicrobiales*
	Family	*Verrucomicrobiaceae*
	Genus	*Brevifollis*
	Species	**Brevifollis gellanilyticus**
	Full Scientific Name (LPSN)	Brevifollis gellanilyticus Otsuka et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30977]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.959

[Ref.: #30977]	Cell length	2.75 µm

[Ref.: #30977]	Cell width	0.9 µm

[Ref.: #30977]	Cell shape	ovoid-shaped
[Ref.: #119569]	Cell shape	rod-shaped

[Ref.: #30977]	Motility	no
[Ref.: #119569]	Motility	no

[Ref.: #30977]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #34201]

Culture medium

MEDIUM 566- Reasoner's 2A agar for Flavobacterium micromati

[Ref.: #34201]

Culture medium growth

[Ref.: #34201]

Culture medium composition

expand / minimize

[Ref.: #119569]

Culture medium

CIP Medium 566

[Ref.: #119569]

Culture medium growth

[Ref.: #119569]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #30977]	growth	10-37 °C
[Ref.: #30977]	optimum	28 °C
[Ref.: #34201]	growth	30 °C

[Ref.: #30977]	Temperature range	mesophilic
[Ref.: #34201]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30977]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30977]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %97
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.98

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30977]		NaCl		growth	0-8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30977]	fructose ChEBI	+	carbon source
[Ref.: #30977]	galactose ChEBI	+	carbon source
[Ref.: #30977]	gluconate ChEBI	+	carbon source
[Ref.: #30977]	glucose ChEBI	+	carbon source
[Ref.: #30977]	mannose ChEBI	+	carbon source
[Ref.: #30977]	rhamnose ChEBI	+	carbon source
[Ref.: #30977]	sorbitol ChEBI	+	carbon source
[Ref.: #30977]	sucrose ChEBI	+	carbon source
[Ref.: #30977]	xylose ChEBI	+	carbon source

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #30977]		catalase	+	1.11.1.6
[Ref.: #30977]		cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	cyanate degradation	100	3 of 3
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	kanosamine biosynthesis II	100	2 of 2
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	cardiolipin biosynthesis	100	7 of 7
[Ref.: #66794]	tetrahydrofolate metabolism	100	14 of 14
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	proline metabolism	90.91	10 of 11
[Ref.: #66794]	Entner Doudoroff pathway	90	9 of 10
[Ref.: #66794]	starch degradation	90	9 of 10
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	purine metabolism	86.17	81 of 94
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	degradation of sugar acids	76	19 of 25
[Ref.: #66794]	alanine metabolism	75.86	22 of 29
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	lipid metabolism	74.19	23 of 31
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	degradation of pentoses	71.43	20 of 28
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	glycolysis	70.59	12 of 17
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	enterobactin biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	vitamin B6 metabolism	63.64	7 of 11
[Ref.: #66794]	metabolism of disaccharids	63.64	7 of 11
[Ref.: #66794]	gluconeogenesis	62.5	5 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	62.5	5 of 8
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	isoprenoid biosynthesis	61.54	16 of 26
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	metabolism of amino sugars and derivatives	60	3 of 5
[Ref.: #66794]	cellulose degradation	60	3 of 5
[Ref.: #66794]	gallate degradation	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	glycogen metabolism	60	3 of 5
[Ref.: #66794]	vitamin K metabolism	60	3 of 5
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
[Ref.: #66794]	arginine metabolism	58.33	14 of 24
[Ref.: #66794]	non-pathway related	57.89	22 of 38
[Ref.: #66794]	tryptophan metabolism	57.89	22 of 38
[Ref.: #66794]	lysine metabolism	57.14	24 of 42
[Ref.: #66794]	nitrate assimilation	55.56	5 of 9
[Ref.: #66794]	oxidative phosphorylation	54.95	50 of 91
[Ref.: #66794]	polyamine pathway	52.17	12 of 23
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	grixazone biosynthesis	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	ppGpp biosynthesis	50	2 of 4
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	cholesterol biosynthesis	45.45	5 of 11
[Ref.: #66794]	arachidonic acid metabolism	44.44	8 of 18
[Ref.: #66794]	tyrosine metabolism	42.86	6 of 14
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	3-phenylpropionate degradation	40	6 of 15
[Ref.: #66794]	hydrogen production	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	degradation of hexoses	38.89	7 of 18
[Ref.: #66794]	carotenoid biosynthesis	36.36	8 of 22
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	phenylpropanoid biosynthesis	30.77	4 of 13
[Ref.: #66794]	leucine metabolism	30.77	4 of 13
[Ref.: #66794]	coenzyme M biosynthesis	30	3 of 10
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	phenol degradation	30	6 of 20
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	androgen and estrogen metabolism	25	4 of 16
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	vitamin B12 metabolism	23.53	8 of 34
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
		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.: #119569]	Sample type/isolated from	Environment, Soil, consortia of bacteria inoculated from soil and alga, from an artificial consortium of Chlorella vulgaris (green alga) and a mixed population of bacteria originating from soil.
[Ref.: #119569]	Geographic location (country and/or sea, region)	Tokyo
[Ref.: #119569]	Country	Japan
[Ref.: #119569]	Country ISO 3 Code	JPN
[Ref.: #119569]	Continent	Asia
[Ref.: #119569]	Isolation date	2009
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB552872 (>99% sequence identity) for Brevifollis gellanilyticus subclade from Microbeatlas

Aquatic Samples	1447
Soil Samples	773
Animal Samples	242
Plant Samples	399
Total Samples	2861

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

[Ref.: #119569]

Biosafety level

Risk group (French classification)

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.: #30977]	Brevifollis gellanilyticus gene for 16S rRNA, partial sequence	AB552872	1469	GenBank	748831 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Brevifollis gellanilyticus NBRC 108608	GCA_007992435	contig	GenBank	748831 tax ID	*
[Ref.: #66792]	Brevifollis gellanilyticus strain NBRC 108608	748831.3	wgs	PATRIC	748831 tax ID	*
[Ref.: #66792]	Brevifollis gellanilyticus NBRC 108608	2886798102	draft	JGI IMG/M	748831 tax ID	*

[Ref.: #30977]

GC-content

59.4 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: Brevifollis gellanilyticus strain NBRC 108608 PATRIC: 748831.3
[Ref.: #69481]	spore-forming	no	97	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Brevifollis gellanilyticus strain NBRC 108608 PATRIC: 748831.3
[Ref.: #69480]	motile	no	86.413	yes
[Ref.: #69480]	flagellated	no	94.998	yes
[Ref.: #69480]	gram-positive	no	96.72	yes
[Ref.: #69480]	anaerobic	no	98.157	yes
[Ref.: #69480]	aerobic	yes	89.592	yes
[Ref.: #69480]	halophile	no	91.798	no
[Ref.: #69480]	spore-forming	no	93.346	no
[Ref.: #69480]	thermophile	no	99.381	no
[Ref.: #69480]	glucose-util	yes	85.182	yes
[Ref.: #69480]	glucose-ferment	no	88.93	no

Availability in culture collections External links

[Ref.: #30977]

Culture collection no.

NBRC 108608, CIP 110457

[Ref.: #91650]

SI-ID 390373

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Brevifollis gellanilyticus gen. nov., sp. nov., a gellan-gum-degrading bacterium of the phylum Verrucomicrobia.	Otsuka S, Suenaga T, Vu HT, Ueda H, Yokota A, Senoo K	Int J Syst Evol Microbiol	10.1099/ijs.0.048793-0	2013	*

References

#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 )

#30977

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 #27307 (see below)

#34201 ; Curators of the CIP;

#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 )

#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 )

#91650

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-ID390373.1 )

#119569 Collection of Institut Pasteur ; Curators of the CIP; CIP 110457

#27307

IJSEM 3075 2013 ( DOI 10.1099/ijs.0.048793-0 , PubMed 23416572 )

* These data were automatically processed and therefore are not curated

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Brevifollis gellanilyticus strain NBRC 108608

Brevifollis gellanilyticus strain NBRC 108608

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