Longilinea arvoryzae (JCM 13670, KCTC 5380, KOME-1)

Name: Longilinea arvoryzae (JCM 13670, KCTC 5380, KOME-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134261

Type strain

Strain Designation KOME-1

Culture col. no. JCM 13670 KCTC 5380 KOME-1

NCBI tax ID(s) 360412

Special Collections JCM KCTC Literature strains

Links

Longilinea arvoryzae KOME-1 is an anaerobe bacterium that was isolated from soil.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 310994

JCM 13670,DSM 17881,KCTC 5380

@ref 20215

Last LPSN update 2026-02-09 11:32:09

Domain Bacteria

Phylum Chloroflexota

Class Anaerolineae

Order Anaerolineales

Family Anaerolineaceae

Genus Longilinea

Species Longilinea arvoryzae

Full scientific name Longilinea arvoryzae Yamada et al. 2007

Morphology

Pigmentation

32190

Productionno

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
32190	positive	growth	30-40
32190	positive	optimum	37

Culture pH

@ref	Ability	Type	PH	PH range
32190	positive	optimum	7
32190	positive	growth	5-8.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

32190

Oxygen toleranceanaerobe

Spore formation

32190

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32190	NaCl	positive	growth	0-0.2 %
32190	NaCl	positive	optimum	0.1 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32190	28757 ChEBI	fructose	+	carbon source
32190	16634 ChEBI	raffinose	+	carbon source
32190	17992 ChEBI	sucrose	+	carbon source
32190	18222 ChEBI	xylose	+	carbon source

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	cellulose degradation	100	5 of 5
66794	glycogen metabolism	100	5 of 5
66794	suberin monomers biosynthesis	100	2 of 2
66794	propanol degradation	100	7 of 7
66794	gluconeogenesis	100	8 of 8
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	ceramide biosynthesis	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	glycine betaine biosynthesis	100	5 of 5
66794	pentose phosphate pathway	90.91	10 of 11
66794	palmitate biosynthesis	90.91	20 of 22
66794	threonine metabolism	90	9 of 10
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	glycolysis	82.35	14 of 17
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	methylglyoxal degradation	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	lipoate biosynthesis	80	4 of 5
66794	starch degradation	80	8 of 10
66794	purine metabolism	79.79	75 of 94
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	ketogluconate metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	butanoate fermentation	75	3 of 4
66794	degradation of sugar alcohols	75	12 of 16
66794	acetate fermentation	75	3 of 4
66794	pyrimidine metabolism	73.33	33 of 45
66794	alanine metabolism	72.41	21 of 29
66794	histidine metabolism	72.41	21 of 29
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	citric acid cycle	71.43	10 of 14
66794	oxidative phosphorylation	70.33	64 of 91
66794	propionate fermentation	70	7 of 10
66794	myo-inositol biosynthesis	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	non-pathway related	68.42	26 of 38
66794	octane oxidation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	cysteine metabolism	66.67	12 of 18
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	L-lactaldehyde degradation	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	degradation of pentoses	64.29	18 of 28
66794	proline metabolism	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	isoleucine metabolism	62.5	5 of 8
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	coenzyme M biosynthesis	60	6 of 10
66794	Entner Doudoroff pathway	60	6 of 10
66794	creatinine degradation	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	methionine metabolism	57.69	15 of 26
66794	cardiolipin biosynthesis	57.14	4 of 7
66794	tyrosine metabolism	57.14	8 of 14
66794	lysine metabolism	57.14	24 of 42
66794	degradation of hexoses	55.56	10 of 18
66794	metabolism of disaccharids	54.55	6 of 11
66794	leucine metabolism	53.85	7 of 13
66794	vitamin B1 metabolism	53.85	7 of 13
66794	lipid metabolism	51.61	16 of 31
66794	ethanol fermentation	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	biotin biosynthesis	50	2 of 4
66794	sulfopterin metabolism	50	2 of 4
66794	toluene degradation	50	2 of 4
66794	CMP-KDO biosynthesis	50	2 of 4
66794	tryptophan metabolism	50	19 of 38
66794	lactate fermentation	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	ribulose monophosphate pathway	50	1 of 2
66794	carnitine metabolism	50	4 of 8
66794	tetrahydrofolate metabolism	50	7 of 14
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	lipid A biosynthesis	44.44	4 of 9
66794	valine metabolism	44.44	4 of 9
66794	nitrate assimilation	44.44	4 of 9
66794	mevalonate metabolism	42.86	3 of 7
66794	glutathione metabolism	42.86	6 of 14
66794	arginine metabolism	41.67	10 of 24
66794	carotenoid biosynthesis	40.91	9 of 22
66794	flavin biosynthesis	40	6 of 15
66794	arachidonate biosynthesis	40	2 of 5
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	ascorbate metabolism	36.36	8 of 22
66794	degradation of sugar acids	36	9 of 25
66794	cyanate degradation	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	enterobactin biosynthesis	33.33	1 of 3
66794	chorismate metabolism	33.33	3 of 9
66794	3-phenylpropionate degradation	33.33	5 of 15
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	methanogenesis from CO2	33.33	4 of 12
66794	sulfoquinovose degradation	33.33	1 of 3
66794	sulfate reduction	30.77	4 of 13
66794	polyamine pathway	30.43	7 of 23
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	phenol degradation	30	6 of 20
66794	heme metabolism	28.57	4 of 14
66794	aclacinomycin biosynthesis	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	vitamin E metabolism	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	phosphatidylethanolamine bioynthesis	23.08	3 of 13
66794	4-hydroxymandelate degradation	22.22	2 of 9
66794	chlorophyll metabolism	22.22	4 of 18

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

32190

Sample typesoil

Taxonmaps

69479

Global distribution of 16S sequence AB243673 (>99% sequence identity) for Longilinea arvoryzae subclade from Microbeatlas

Aquatic Samples	47
Soil Samples	31
Animal Samples	6
Plant Samples
Total Samples	84

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM105023v2 assembly for Longilinea arvoryzae KOME-1	scaffold	GCA_001050235	360412.5	360412	70.33

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
32190	Longilinea arvoryzae gene for 16S rRNA, partial sequence	AB243673	1422		360412

GC content

32190

GC-content (mol%)57.6

Genome-based predictions

Predictions

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Longilinea arvoryzae KOME-1
NCBI: GCA_001050235.2

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	59.70	no
125438	anaerobic	anaerobicⓘ	yes	67.53	yes
125438	aerobic	aerobicⓘ	no	68.40	no
125438	spore-forming	spore-formingⓘ	no	62.01	no
125438	thermophilic	thermophileⓘ	no	81.12	yes
125438	flagellated	motile2+ⓘ	no	81.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequences of Anaerolinea thermolimosa IMO-1, Bellilinea caldifistulae GOMI-1, Leptolinea tardivitalis YMTK-2, Levilinea saccharolytica KIBI-1, Longilinea arvoryzae KOME-1, Previously Described as Members of the Class Anaerolineae (Chloroflexi).	Matsuura N, Tourlousse DM, Ohashi A, Hugenholtz P, Sekiguchi Y	Genome Announc	10.1128/genomeA.00975-15	2015
Phylogeny	Bellilinea caldifistulae gen. nov., sp. nov. and Longilinea arvoryzae gen. nov., sp. nov., strictly anaerobic, filamentous bacteria of the phylum Chloroflexi isolated from methanogenic propionate-degrading consortia.	Yamada T, Imachi H, Ohashi A, Harada H, Hanada S, Kamagata Y, Sekiguchi Y	Int J Syst Evol Microbiol	10.1099/ijs.0.65098-0	2007

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 )
#28432	IJSEM 2299 2007 ( DOI 10.1099/ijs.0.65098-0 , PubMed 17911301 )
#32190	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 #28432
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Longilinea arvoryzae (JCM 13670, KCTC 5380, KOME-1)

Name and taxonomic classification

Morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001050235

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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