Levilinea saccharolytica (DSM 16555, JCM 12578, KIBI-1)

Name: Levilinea saccharolytica (DSM 16555, JCM 12578, KIBI-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 504

Type strain

Strain Designation KIBI-1

Culture col. no. DSM 16555 JCM 12578 KIBI-1

NCBI tax ID(s) 229921

Special Collections DSMZ JCM Literature strains

History <- T. Yamada, Nagaoka University of Technology, Japan; KIBI-1 <- T. Yamada; {2001} T. Yamada KIBI-1.

Links

Levilinea saccharolytica KIBI-1 is an anaerobe, Gram-negative, filament-shaped bacterium that was isolated from sludge in a mesophilic UASB reactor.

Gram-negative filament-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297234

DSM 16555,JCM 12578

@ref 20215

Last LPSN update 2026-02-09 11:17:53

Domain Bacteria

Phylum Chloroflexota

Class Anaerolineae

Order Anaerolineales

Family Anaerolineaceae

Genus Levilinea

Species Levilinea saccharolytica

Full scientific name Levilinea saccharolytica Yamada et al. 2006

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility
23356	negative	>100 µm	0.4-0.5 µm	filament-shaped

Colony morphology

6507

Incubation period8-14 days

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6507	ANAEROLINEA MEDIUM (DSMZ Medium 1004)		Medium recipe at MediaDive	Name: ANAEROLINEA MEDIUM (DSMZ Medium 1004; with strain-specific modifications) Composition: Sucrose 7.17846 g/l NaHCO3 2.49252 g/l NH4Cl 0.538385 g/l Na2S x 9 H2O 0.249252 g/l L-Cysteine HCl x H2O 0.249252 g/l MgCl2 x 6 H2O 0.199402 g/l CaCl2 x 2 H2O 0.149551 g/l KH2PO4 0.139581 g/l Yeast extract 0.0997009 g/l Na2-EDTA x 2 H2O 0.00518445 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Folic acid 1.99402e-05 g/l Biotin 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6507	positive	growth	37
23356	positive	maximum	50
23356	positive	minimum	25
23356	positive	optimum	37
67770	positive	growth	37

Culture pH

@ref	Ability	Type	PH
23356	positive	maximum	7.2
23356	positive	minimum	6.0
23356	positive	optimum	7.0

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6507	anaerobe
23356	anaerobe
125439	facultative anaerobe	92.2

Spore formation

23356

Spore formationno

Metabolite utilization

@ref	Metabolite	Utilization activity	Kind of utilization tested
23356	yeast extract	+	required for growth

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ceramide biosynthesis	100	1 of 1
66794	C4 and CAM-carbon fixation	100	8 of 8
66794	adipate degradation	100	2 of 2
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	reductive acetyl coenzyme A pathway	100	7 of 7
66794	vitamin E metabolism	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	denitrification	100	2 of 2
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	suberin monomers biosynthesis	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	folate polyglutamylation	100	1 of 1
66794	cellulose degradation	100	5 of 5
66794	palmitate biosynthesis	90.91	20 of 22
66794	serine metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	glycolysis	82.35	14 of 17
66794	hydrogen production	80	4 of 5
66794	starch degradation	80	8 of 10
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glycogen metabolism	80	4 of 5
66794	photosynthesis	78.57	11 of 14
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	pyrimidine metabolism	77.78	35 of 45
66794	d-mannose degradation	77.78	7 of 9
66794	alanine metabolism	75.86	22 of 29
66794	glycogen biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	ppGpp biosynthesis	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	propanol degradation	71.43	5 of 7
66794	ubiquinone biosynthesis	71.43	5 of 7
66794	threonine metabolism	70	7 of 10
66794	myo-inositol biosynthesis	70	7 of 10
66794	phenylalanine metabolism	69.23	9 of 13
66794	urea cycle	69.23	9 of 13
66794	NAD metabolism	66.67	12 of 18
66794	acetoin degradation	66.67	2 of 3
66794	cysteine metabolism	66.67	12 of 18
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	formaldehyde oxidation	66.67	2 of 3
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	citric acid cycle	64.29	9 of 14
66794	oxidative phosphorylation	63.74	58 of 91
66794	cholesterol biosynthesis	63.64	7 of 11
66794	non-pathway related	63.16	24 of 38
66794	degradation of sugar alcohols	62.5	10 of 16
66794	histidine metabolism	62.07	18 of 29
66794	methionine metabolism	61.54	16 of 26
66794	lipoate biosynthesis	60	3 of 5
66794	propionate fermentation	60	6 of 10
66794	factor 420 biosynthesis	60	3 of 5
66794	methylglyoxal degradation	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
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	metabolism of disaccharids	54.55	6 of 11
66794	pentose phosphate pathway	54.55	6 of 11
66794	flavin biosynthesis	53.33	8 of 15
66794	tryptophan metabolism	52.63	20 of 38
66794	degradation of pentoses	50	14 of 28
66794	isoleucine metabolism	50	4 of 8
66794	kanosamine biosynthesis II	50	1 of 2
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	toluene degradation	50	2 of 4
66794	lactate fermentation	50	2 of 4
66794	ketogluconate metabolism	50	4 of 8
66794	Entner Doudoroff pathway	50	5 of 10
66794	lipid metabolism	48.39	15 of 31
66794	isoprenoid biosynthesis	46.15	12 of 26
66794	carotenoid biosynthesis	45.45	10 of 22
66794	d-xylose degradation	45.45	5 of 11
66794	proline metabolism	45.45	5 of 11
66794	degradation of hexoses	44.44	8 of 18
66794	nitrate assimilation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	allantoin degradation	44.44	4 of 9
66794	valine metabolism	44.44	4 of 9
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	glutathione metabolism	42.86	6 of 14
66794	mevalonate metabolism	42.86	3 of 7
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	vitamin K metabolism	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	O-antigen biosynthesis	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	polyamine pathway	39.13	9 of 23
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	sulfate reduction	38.46	5 of 13
66794	vitamin B1 metabolism	38.46	5 of 13
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	arginine metabolism	37.5	9 of 24
66794	enterobactin biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	degradation of sugar acids	32	8 of 25
66794	ascorbate metabolism	31.82	7 of 22
66794	leucine metabolism	30.77	4 of 13
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	vitamin B12 metabolism	26.47	9 of 34
66794	carnitine metabolism	25	2 of 8
66794	methanogenesis from CO2	25	3 of 12
66794	phenol degradation	25	5 of 20
66794	cyclohexanol degradation	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	biotin biosynthesis	25	1 of 4
66794	chlorophyll metabolism	22.22	4 of 18
66794	heme metabolism	21.43	3 of 14

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Biodegradation	#Anaerobic digestor
#Engineered	#Waste	#Wastewater
#Environmental	#Terrestrial	#Mud (Sludge)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6507	sludge in a mesophilic UASB reactor	Niigata, Nagaoka	Japan	JPN	Asia
23356	sludge in a mesophilic UASB reactor, in sugar-manufacturing wastewater
67770	Granular sludge collected from a UASB reactor operated under a mesophilic condition (37C)

Taxonmaps

69479

Global distribution of 16S sequence AB109439 (>99% sequence identity) for Levilinea saccharolytica subclade from Microbeatlas

Aquatic Samples	5334
Soil Samples	746
Animal Samples	302
Plant Samples	150
Total Samples	6532

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6507	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM130603v1 assembly for Levilinea saccharolytica KIBI-1	contig	GCA_001306035	229921.16	2740892510	229921	61.48
67770	ASM105025v2 assembly for Levilinea saccharolytica KIBI-1	scaffold	GCA_001050255	229921.15		229921	33.26

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6507	Levilinea saccharolytica gene for 16S rRNA, partial sequence	AB109439	1424		229921

GC content

@ref	GC-content (mol%)	Method
6507	59.5
23356	48.2	high performance liquid chromatography (HPLC)
67770	59.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Levilinea saccharolytica KIBI-1
NCBI: GCA_001050255

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	58.30	no
125439	motility	BacteriaNetⓘ	yes	51.00	no
125439	gram_stain	BacteriaNetⓘ	negative	76.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	92.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Levilinea saccharolytica strain KIBI-1
PATRIC: 229921.15

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	63.27	yes
125438	anaerobic	anaerobicⓘ	yes	71.86	yes
125438	spore-forming	spore-formingⓘ	no	74.97	yes
125438	aerobic	aerobicⓘ	no	65.52	yes
125438	thermophilic	thermophileⓘ	no	76.37	no
125438	flagellated	motile2+ⓘ	no	82.16	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequence of Levilinea saccharolytica KIBI-1, a Member of the Chloroflexi Class Anaerolineae.	Hemp J, Ward LM, Pace LA, Fischer WW	Genome Announc	10.1128/genomeA.01357-15	2015
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	Ornatilinea apprima gen. nov., sp. nov., a cellulolytic representative of the class Anaerolineae.	Podosokorskaya OA, Bonch-Osmolovskaya EA, Novikov AA, Kolganova TV, Kublanov IV	Int J Syst Evol Microbiol	10.1099/ijs.0.041012-0	2012
Phylogeny	Anaerolinea thermolimosa sp. nov., Levilinea saccharolytica gen. nov., sp. nov. and Leptolinea tardivitalis gen. nov., sp. nov., novel filamentous anaerobes, and description of the new classes Anaerolineae classis nov. and Caldilineae classis nov. in the bacterial phylum Chloroflexi.	Yamada T, Sekiguchi Y, Hanada S, Imachi H, Ohashi A, Harada H, Kamagata Y	Int J Syst Evol Microbiol	10.1099/ijs.0.64169-0	2006

References

#6507	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16555
#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 )
#23356	Takeshi Yamada, Yuji Sekiguchi, Satoshi Hanada, Hiroyuki Imachi, Akiyoshi Ohashi, Hideki Harada, Yoichi Kamagata: Anaerolinea thermolimosa sp. nov., Levilinea saccharolytica gen. nov., sp. nov. and Leptolinea tardivitalis gen. nov., sp. nov., novel filamentous anaerobes, and description of the new classes Anaerolineae classis nov. and Caldilineae classis nov. in the bacterial phylum Chloroflexi. IJSEM 56: 1331 - 1340 2006 ( DOI 10.1099/ijs.0.64169-0 , PubMed 16738111 )
#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 .
#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 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#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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Levilinea saccharolytica (DSM 16555, JCM 12578, KIBI-1)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Metabolite utilization

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_001306035

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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