Name: Flexilinea flocculi JCM 30897
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140919

Type strain:

Species: Flexilinea flocculi

Culture col. no.: JCM 30897, CGMCC 1.5202, TC 1

Strain history: Y. Sekiguchi; Biomed. Res. Inst., AIST, Japan; TC1.

NCBI tax ID(s): 1678840 (species)

Special Collections

Section

Flexilinea flocculi JCM 30897 is an obligate anaerobe, chemoorganotroph, Gram-negative bacterium that was isolated from A methanogenic granular sludge in a full-scale mesophilic UASB reactor treating high-strength starch-based organic wastewater.

filament-shaped
Gram-negative
chemoorganotroph
obligate anaerobe
16S sequence
Bacteria

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Chloroflexota*
	Class	*Anaerolineae*
	Order	[Anaerolineae, not assigned to order]
	Family	[Anaerolineae, not assigned to family]
	Genus	*Flexilinea*
	Species	**Flexilinea flocculi**
	Full Scientific Name (LPSN)	Flexilinea flocculi Sun et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #43788]	Gram stain	negative

[Ref.: #43788]	Cell length	100 µm

[Ref.: #43788]	Cell width	0.3-0.4 µm

[Ref.: #43788]	Cell shape	filament-shaped

[Ref.: #43788]	Motility	no

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #43788]	growth	25-43 °C
[Ref.: #43788]	optimum	37 °C
[Ref.: #67770]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #43788]			optimum	7
[Ref.: #43788]			growth	6-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43788]

Oxygen tolerance

obligate anaerobe

[Ref.: #43788]

Nutrition type

chemoorganotroph

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43788]		NaCl		optimum	0	g/L
[Ref.: #43788]		NaCl		growth	0-10	g/L

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43788]	acetate ChEBI	-	assimilation
[Ref.: #43788]	arabinose ChEBI	+	growth
[Ref.: #43788]	benzoate ChEBI	-	assimilation
[Ref.: #43788]	betaine ChEBI	-	assimilation
[Ref.: #43788]	betaine ChEBI	-	growth
[Ref.: #43788]	butyrate ChEBI	-	assimilation
[Ref.: #43788]	casamino acids	-	assimilation
[Ref.: #43788]	crotonate ChEBI	-	assimilation
[Ref.: #43788]	dihydrogen ChEBI	-	assimilation
[Ref.: #43788]	elemental sulfur ChEBI	-	electron acceptor
[Ref.: #43788]	ethanol ChEBI	-	assimilation
[Ref.: #43788]	ferric iron ChEBI	-	electron acceptor
[Ref.: #43788]	fructose ChEBI	+	growth
[Ref.: #43788]	fumarate ChEBI	-	assimilation
[Ref.: #43788]	fumarate ChEBI	-	electron acceptor
[Ref.: #43788]	galactose ChEBI	-	growth
[Ref.: #43788]	glucose ChEBI	+	growth
[Ref.: #43788]	glycerol 3-phosphate ChEBI	-	assimilation
[Ref.: #43788]	lactate ChEBI	-	assimilation
[Ref.: #43788]	malate ChEBI	-	assimilation
[Ref.: #43788]	mannose ChEBI	-	growth
[Ref.: #43788]	methanol ChEBI	-	assimilation
[Ref.: #43788]	nitrate ChEBI	-	electron acceptor
[Ref.: #43788]	pectin ChEBI	-	growth
[Ref.: #43788]	peptone	-	assimilation
[Ref.: #43788]	polyethylene glycol ChEBI	-	assimilation
[Ref.: #43788]	propanol ChEBI	-	assimilation
[Ref.: #43788]	propionate ChEBI	-	assimilation
[Ref.: #43788]	pyruvate ChEBI	+	growth
[Ref.: #43788]	raffinose ChEBI	-	assimilation
[Ref.: #43788]	ribose ChEBI	+	growth
[Ref.: #43788]	starch ChEBI	+	growth
[Ref.: #43788]	succinate ChEBI	-	assimilation
[Ref.: #43788]	sucrose ChEBI	-	assimilation
[Ref.: #43788]	sulfate ChEBI	-	electron acceptor
[Ref.: #43788]	sulfite ChEBI	-	electron acceptor
[Ref.: #43788]	thiosulfate ChEBI	-	electron acceptor
[Ref.: #43788]	tryptone	-	growth
[Ref.: #43788]	xylan ChEBI	-	assimilation
[Ref.: #43788]	xylose ChEBI	+	growth
[Ref.: #43788]	yeast extract	+	required for growth
	Only first 10 entries are displayed. Click here to see all.

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	vitamin E metabolism	100	4 of 4
[Ref.: #66794]	kanosamine biosynthesis II	100	2 of 2
[Ref.: #66794]	metabolism of amino sugars and derivatives	100	5 of 5
[Ref.: #66794]	acetoin degradation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	C4 and CAM-carbon fixation	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	hydrogen production	80	4 of 5
[Ref.: #66794]	starch degradation	80	8 of 10
[Ref.: #66794]	methylglyoxal degradation	80	4 of 5
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	myo-inositol biosynthesis	80	8 of 10
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	cellulose degradation	80	4 of 5
[Ref.: #66794]	pyrimidine metabolism	77.78	35 of 45
[Ref.: #66794]	d-mannose degradation	77.78	7 of 9
[Ref.: #66794]	palmitate biosynthesis	77.27	17 of 22
[Ref.: #66794]	phenylalanine metabolism	76.92	10 of 13
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	ppGpp biosynthesis	75	3 of 4
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	pentose phosphate pathway	72.73	8 of 11
[Ref.: #66794]	photosynthesis	71.43	10 of 14
[Ref.: #66794]	degradation of pentoses	71.43	20 of 28
[Ref.: #66794]	Entner Doudoroff pathway	70	7 of 10
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	purine metabolism	68.09	64 of 94
[Ref.: #66794]	aspartate and asparagine metabolism	66.67	6 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	66.67	6 of 9
[Ref.: #66794]	formaldehyde oxidation	66.67	2 of 3
[Ref.: #66794]	octane oxidation	66.67	2 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	NAD metabolism	66.67	12 of 18
[Ref.: #66794]	oxidative phosphorylation	65.93	60 of 91
[Ref.: #66794]	non-pathway related	65.79	25 of 38
[Ref.: #66794]	glutamate and glutamine metabolism	64.29	18 of 28
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	histidine metabolism	62.07	18 of 29
[Ref.: #66794]	methionine metabolism	57.69	15 of 26
[Ref.: #66794]	tyrosine metabolism	57.14	8 of 14
[Ref.: #66794]	tetrahydrofolate metabolism	57.14	8 of 14
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	propanol degradation	57.14	4 of 7
[Ref.: #66794]	cardiolipin biosynthesis	57.14	4 of 7
[Ref.: #66794]	degradation of hexoses	55.56	10 of 18
[Ref.: #66794]	alanine metabolism	55.17	16 of 29
[Ref.: #66794]	sulfopterin metabolism	50	2 of 4
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	cis-vaccenate biosynthesis	50	1 of 2
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	selenocysteine biosynthesis	50	3 of 6
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	adipate degradation	50	1 of 2
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	leucine metabolism	46.15	6 of 13
[Ref.: #66794]	urea cycle	46.15	6 of 13
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	molybdenum cofactor biosynthesis	44.44	4 of 9
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	degradation of sugar acids	44	11 of 25
[Ref.: #66794]	citric acid cycle	42.86	6 of 14
[Ref.: #66794]	lipid metabolism	41.94	13 of 31
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	arginine metabolism	41.67	10 of 24
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	propionate fermentation	40	4 of 10
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	tryptophan metabolism	39.47	15 of 38
[Ref.: #66794]	vitamin B1 metabolism	38.46	5 of 13
[Ref.: #66794]	proline metabolism	36.36	4 of 11
[Ref.: #66794]	ascorbate metabolism	36.36	8 of 22
[Ref.: #66794]	arachidonic acid metabolism	33.33	6 of 18
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	nitrate assimilation	33.33	3 of 9
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	flavin biosynthesis	33.33	5 of 15
[Ref.: #66794]	carotenoid biosynthesis	31.82	7 of 22
[Ref.: #66794]	androgen and estrogen metabolism	31.25	5 of 16
[Ref.: #66794]	lysine metabolism	30.95	13 of 42
[Ref.: #66794]	isoprenoid biosynthesis	30.77	8 of 26
[Ref.: #66794]	mevalonate metabolism	28.57	2 of 7
[Ref.: #66794]	glutathione metabolism	28.57	4 of 14
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	carnitine metabolism	25	2 of 8
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	cyclohexanol degradation	25	1 of 4
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	23.08	3 of 13
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	heme metabolism	21.43	3 of 14
		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.: #43788]	Sample type/isolated from	A methanogenic granular sludge in a full-scale mesophilic UASB reactor treating high-strength starch-based organic wastewater

[Ref.: #67770]	Sample type/isolated from	Methanogenic granular sludge in a full-scale USAB reactor treating high-strength starch-based organic wastewater
* marker position based on {}

Isolation sources categories

#Condition	#Anoxic (anaerobic)	-
#Engineered	#Biodegradation	#Anaerobic digestor
#Engineered	#Bioreactor	-
#Engineered	#Waste	#Wastewater

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence LC049585 (>99% sequence identity) for Flexilinea flocculi subclade from Microbeatlas

Aquatic Samples	464
Soil Samples	43
Animal Samples	150
Plant Samples	47
Total Samples	704

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.: #43788]	Flexilinea flocculi gene for 16S ribosomal RNA, partial sequence	LC049585		GenBank ENA

[Ref.: #67770]

GC-content

42.1 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #43788]

Culture collection no.

JCM 30897, CGMCC 1.5202, TC 1

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Isolation and characterization of Flexilinea flocculi gen. nov., sp. nov., a filamentous, anaerobic bacterium belonging to the class Anaerolineae in the phylum Chloroflexi.	Sun L, Toyonaga M, Ohashi A, Matsuura N, Tourlousse DM, Meng XY, Tamaki H, Hanada S, Cruz R, Yamaguchi T, Sekiguchi Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.000822	2015	*

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 )

#43788

Liwei Sun, Mayu Toyonaga, Akiko Ohashi, Norihisa Matsuura, Dieter M. Tourlousse, Xian-Ying Meng, Hideyuki Tamaki, Satoshi Hanada, Rodrigo Cruz, Takashi Yamaguchi, Yuji Sekiguchi: Isolation and characterization of Flexilinea flocculi gen. nov., sp. nov., a filamentous, anaerobic bacterium belonging to the class Anaerolineae in the phylum Chloroflexi. IJSEM 66: 988 - 996 2016 ( DOI 10.1099/ijsem.0.000822 , PubMed 26637817 )

#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 )

#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 .

* These data were automatically processed and therefore are not curated

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