Name: Flavobacterium noncentrifugens R-HLS-17
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133902

Type strain:

Species: Flavobacterium noncentrifugens

Strain Designation: R-HLS-17

Culture col. no.: CGMCC 1.10076, NBRC 108844

NCBI tax ID(s): 1128970 (species)

Section

Flavobacterium noncentrifugens R-HLS-17 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from meltwater of a glacier.

Gram-negative
rod-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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium noncentrifugens**
	Full Scientific Name (LPSN)	Flavobacterium noncentrifugens Zhu et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30833]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.966

[Ref.: #30833]	Cell length	1.25 µm

[Ref.: #30833]	Cell width	0.35 µm

[Ref.: #30833]	Cell shape	rod-shaped

[Ref.: #30833]	Motility	no

[Ref.: #30833]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #30833]			growth	0-29 °C
[Ref.: #30833]			optimum	15 °C

[Ref.: #30833]

Temperature range

psychrophilic

	pH	Kind of pH		pH
[Ref.: #30833]			optimum	7.5
[Ref.: #30833]			growth	6.0-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30833]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.994

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30833]		NaCl		growth	0-1.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30833]	esculin ChEBI	+	hydrolysis
[Ref.: #30833]	glucose ChEBI	+	carbon source
[Ref.: #30833]	melibiose ChEBI	+	carbon source
[Ref.: #30833]	trehalose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #30833]	acid phosphatase	+	3.1.3.2
[Ref.: #30833]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30833]	catalase	+	1.11.1.6
[Ref.: #30833]	cytochrome oxidase	+	1.9.3.1

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	sulfopterin metabolism	100	4 of 4
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	kanosamine biosynthesis II	100	2 of 2
[Ref.: #66794]	vitamin K metabolism	100	5 of 5
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	biotin biosynthesis	100	4 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	100	4 of 4
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	photosynthesis	85.71	12 of 14
[Ref.: #66794]	NAD metabolism	83.33	15 of 18
[Ref.: #66794]	pentose phosphate pathway	81.82	9 of 11
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	tetrahydrofolate metabolism	78.57	11 of 14
[Ref.: #66794]	serine metabolism	77.78	7 of 9
[Ref.: #66794]	lipid A biosynthesis	77.78	7 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	lipid metabolism	74.19	23 of 31
[Ref.: #66794]	heme metabolism	71.43	10 of 14
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	purine metabolism	70.21	66 of 94
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	phenylalanine metabolism	69.23	9 of 13
[Ref.: #66794]	tryptophan metabolism	68.42	26 of 38
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	pyrimidine metabolism	66.67	30 of 45
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	non-pathway related	63.16	24 of 38
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	alanine metabolism	62.07	18 of 29
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	leucine metabolism	61.54	8 of 13
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	arachidonate biosynthesis	60	3 of 5
[Ref.: #66794]	propionate fermentation	60	6 of 10
[Ref.: #66794]	bacilysin biosynthesis	60	3 of 5
[Ref.: #66794]	lysine metabolism	59.52	25 of 42
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	glutathione metabolism	57.14	8 of 14
[Ref.: #66794]	carotenoid biosynthesis	54.55	12 of 22
[Ref.: #66794]	phenylpropanoid biosynthesis	53.85	7 of 13
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	50	6 of 12
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	ketogluconate metabolism	50	4 of 8
[Ref.: #66794]	isoleucine metabolism	50	4 of 8
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	proline metabolism	45.45	5 of 11
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	d-xylose degradation	45.45	5 of 11
[Ref.: #66794]	valine metabolism	44.44	4 of 9
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	reductive acetyl coenzyme A pathway	42.86	3 of 7
[Ref.: #66794]	mevalonate metabolism	42.86	3 of 7
[Ref.: #66794]	histidine metabolism	41.38	12 of 29
[Ref.: #66794]	oxidative phosphorylation	40.66	37 of 91
[Ref.: #66794]	glycine metabolism	40	4 of 10
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	O-antigen biosynthesis	40	2 of 5
[Ref.: #66794]	3-chlorocatechol degradation	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	vitamin B1 metabolism	38.46	5 of 13
[Ref.: #66794]	metabolism of disaccharids	36.36	4 of 11
[Ref.: #66794]	pantothenate biosynthesis	33.33	2 of 6
[Ref.: #66794]	cyanate degradation	33.33	1 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	octane oxidation	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	molybdenum cofactor biosynthesis	33.33	3 of 9
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of pentoses	32.14	9 of 28
[Ref.: #66794]	ascorbate metabolism	31.82	7 of 22
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	degradation of sugar alcohols	31.25	5 of 16
[Ref.: #66794]	polyamine pathway	30.43	7 of 23
[Ref.: #66794]	4-hydroxyphenylacetate degradation	30	3 of 10
[Ref.: #66794]	arginine metabolism	29.17	7 of 24
[Ref.: #66794]	degradation of sugar acids	28	7 of 25
[Ref.: #66794]	degradation of hexoses	27.78	5 of 18
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	phenol degradation	25	5 of 20
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	23.53	4 of 17
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	4-hydroxymandelate degradation	22.22	2 of 9
[Ref.: #66794]	nitrate assimilation	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.: #30833]	Sample type/isolated from	meltwater of a glacier
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Glacier

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ002654 (>99% sequence identity) for Flavobacterium noncentrifugens subclade from Microbeatlas

Aquatic Samples	344
Soil Samples	236
Animal Samples	197
Plant Samples	111
Total Samples	888

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.: #30833]	Flavobacterium noncentrifugens strain R-HLS-17 16S ribosomal RNA gene, partial sequence	JQ002654	1359	GenBank	1128970 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium noncentrifugens CGMCC 1.10076	GCA_900100375	scaffold	GenBank	1128970 tax ID	*
[Ref.: #66792]	Flavobacterium noncentrifugens NBRC 108844	GCA_007992475	contig	GenBank	1128970 tax ID	*
[Ref.: #66792]	Flavobacterium noncentrifugens strain CGMCC 1.10076	1128970.3	wgs	PATRIC	1128970 tax ID	*
[Ref.: #66792]	Flavobacterium noncentrifugens strain NBRC 108844	1128970.6	wgs	PATRIC	1128970 tax ID	*
[Ref.: #66792]	Flavobacterium noncentrifugens CGMCC 1.10076	2619618994	draft	JGI IMG/M	1128970 tax ID	*

[Ref.: #30833]

GC-content

46.5 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: Flavobacterium noncentrifugens CGMCC 1.10076 NCBI: GCA_900100375.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium noncentrifugens CGMCC 1.10076 NCBI: GCA_900100375.1
[Ref.: #69480]	motile	no	90.302	no
[Ref.: #69480]	flagellated	no	94.577	yes
[Ref.: #69480]	gram-positive	no	98.392	yes
[Ref.: #69480]	anaerobic	no	99.744	yes
[Ref.: #69480]	aerobic	yes	92.085	yes
[Ref.: #69480]	halophile	no	94.034	yes
[Ref.: #69480]	spore-forming	no	94.039	no
[Ref.: #69480]	glucose-ferment	no	90.551	no
[Ref.: #69480]	thermophile	no	99.48	yes
[Ref.: #69480]	glucose-util	yes	82.794	yes

Availability in culture collections External links

[Ref.: #30833]

Culture collection no.

CGMCC 1.10076, NBRC 108844

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium kingsejongi sp. nov., a carotenoid-producing species isolated from Antarctic penguin faeces.	Choi JY, Kim JH, Lee PC	Int J Syst Evol Microbiol	10.1099/ijsem.0.002610	2018	*
Phylogeny	Flavobacterium noncentrifugens sp. nov., a psychrotolerant bacterium isolated from glacier meltwater.	Zhu L, Liu Q, Liu H, Zhang J, Dong X, Zhou Y, Xin Y	Int J Syst Evol Microbiol	10.1099/ijs.0.045534-0	2012	*
Phylogeny	Flavobacterium macacae sp. nov., isolated from Macaca mulatta faeces.	Li GD, Jiang Y, Li YL, Chen X, Zhang K, Shen R, Han L, Huang XS, Jiang CL	Int J Syst Evol Microbiol	10.1099/ijsem.0.003708	2020	*
Phylogeny	Flavobacterium dasani sp. nov., a psychrotolerant bacterium isolated from Arctic soil.	Chaudhary DK, Kim D, Kim J	Arch Microbiol	10.1007/s00203-018-1574-3	2018	*
Phylogeny	Flavobacterium qiangtangensis sp. nov., isolated from Qiangtang basin in Qinghai-Tibetan Plateau, China.	Huang F, Zhang Y, Zhu Y, Wang P, Lu J, Lv J	Curr Microbiol	10.1007/s00284-014-0579-7	2014	*

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 )

#30833

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 #27163 (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) .

#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 )

#27163

IJSEM 2032 2013 ( DOI 10.1099/ijs.0.045534-0 , PubMed 23064352 )

* These data were automatically processed and therefore are not curated

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Flavobacterium noncentrifugens CGMCC 1.10076

Flavobacterium noncentrifugens CGMCC 1.10076

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