Lactobacillus catenaformis (LMG 9915, CECT 4140, DSM 20559)

Name: Lactobacillus catenaformis (LMG 9915, CECT 4140, DSM 20559)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5377

Type strain

Strain Designation 1871

Culture col. no. LMG 9915 CECT 4140 DSM 20559 ATCC 25536 CCUG 48174 6 more

NCBI tax ID(s) 999415 31973

Special Collections DSMZ CCUG JCM CIP

History DSMZ <- ATCC <- L. Holdeman, VPI 2933 <- A. Prévot, 1871 JCM <-- ATCC 25536 <-- L. Holdeman VPI 2933 <-- A. Prévot 1871. CIP <- 1996, JCM <- ATCC <- L. Holdeman: strain VPI 2933 <- A. Prévot: strain 1871

Links

Lactobacillus catenaformis 1871 is an anaerobe, Gram-positive, rod-shaped bacterium that was isolated from pulmonary infection.

Gram-positive rod-shaped anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 3265

LMG 9915,ATCC 25536,DSM 20559,CIP 104817,JCM 1121,CCRC 14626,CECT 4140,CCUG 48174,BCRC 14626,LMG23559

@ref 20215

Last LPSN update 2026-05-29 08:26:09

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Lactobacillales

Family Lactobacillaceae

Genus Lactobacillus

Species Lactobacillus catenaformis

Full scientific name Lactobacillus catenaformis corrig. (Eggerth 1935) Moore and Holdeman 1970 (Approved Lists 1980)

Synonyms (4)

Lactobacillus catenaforme
Eggerthia catenaformis
"Catenabacterium catenaforme"
"Bacteroides catenaformis"

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility	Confidence
117214	positive	rod-shaped
125438				92.622

Colony morphology

58018

Incubation period2 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8909	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)	Medium recipe at MediaDive	Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
39108	MEDIUM 20 - for Anaerobic bacteria		Agar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
117214	CIP Medium 20	Medium recipe at CIP
117214	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
8909	positive	growth	37
39108	positive	growth	37
58018	positive	growth	37
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
8909	anaerobe
58018	anaerobe
125439	anaerobe	99.953

Murein

@ref	Murein short key	Type
8909	A11.06	A3alpha L-Lys-L-Ala₃

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
117214	17632 ChEBI	nitrate	-	reduction
117214	16301 ChEBI	nitrite	-	reduction

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
117214	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
117214	catalase	-	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	-		from API zym
68382	leucine arylamidase	-	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
117214	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
117214	ornithine decarboxylase	-	4.1.1.17
117214	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
68382	valine arylamidase	-		from API zym

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	formaldehyde oxidation	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	adipate degradation	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	teichoic acid biosynthesis	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	starch degradation	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	glycogen metabolism	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	aspartate and asparagine metabolism	77.78	7 of 9
66794	phenylalanine metabolism	76.92	10 of 13
66794	glycogen biosynthesis	75	3 of 4
66794	acetate fermentation	75	3 of 4
66794	ppGpp biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	CMP-KDO biosynthesis	75	3 of 4
66794	photosynthesis	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	pyrimidine metabolism	71.11	32 of 45
66794	threonine metabolism	70	7 of 10
66794	purine metabolism	68.09	64 of 94
66794	d-mannose degradation	66.67	6 of 9
66794	serine metabolism	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	NAD metabolism	66.67	12 of 18
66794	octane oxidation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	peptidoglycan biosynthesis	66.67	10 of 15
66794	methane metabolism	66.67	2 of 3
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	CO2 fixation in Crenarchaeota	66.67	6 of 9
66794	glycolysis	64.71	11 of 17
66794	metabolism of disaccharids	63.64	7 of 11
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	methylglyoxal degradation	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	oxidative phosphorylation	58.24	53 of 91
66794	propanol degradation	57.14	4 of 7
66794	degradation of sugar alcohols	56.25	9 of 16
66794	phosphatidylethanolamine bioynthesis	53.85	7 of 13
66794	histidine metabolism	51.72	15 of 29
66794	lipid metabolism	51.61	16 of 31
66794	cysteine metabolism	50	9 of 18
66794	Entner Doudoroff pathway	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	gluconeogenesis	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	toluene degradation	50	2 of 4
66794	non-pathway related	47.37	18 of 38
66794	glutamate and glutamine metabolism	46.43	13 of 28
66794	vitamin B1 metabolism	46.15	6 of 13
66794	methionine metabolism	46.15	12 of 26
66794	proline metabolism	45.45	5 of 11
66794	molybdenum cofactor biosynthesis	44.44	4 of 9
66794	citric acid cycle	42.86	6 of 14
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	isoprenoid biosynthesis	42.31	11 of 26
66794	cellulose degradation	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	tryptophan metabolism	39.47	15 of 38
66794	alanine metabolism	37.93	11 of 29
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	vitamin B6 metabolism	36.36	4 of 11
66794	pentose phosphate pathway	36.36	4 of 11
66794	d-xylose degradation	36.36	4 of 11
66794	tyrosine metabolism	35.71	5 of 14
66794	degradation of aromatic, nitrogen containing compounds	33.33	4 of 12
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	lysine metabolism	33.33	14 of 42
66794	flavin biosynthesis	33.33	5 of 15
66794	lipid A biosynthesis	33.33	3 of 9
66794	degradation of pentoses	32.14	9 of 28
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	leucine metabolism	30.77	4 of 13
66794	glycine metabolism	30	3 of 10
66794	propionate fermentation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	arginine metabolism	29.17	7 of 24
66794	reductive acetyl coenzyme A pathway	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	arachidonic acid metabolism	27.78	5 of 18
66794	degradation of hexoses	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	lactate fermentation	25	1 of 4
66794	isoleucine metabolism	25	2 of 8
66794	carnitine metabolism	25	2 of 8
66794	cyclohexanol degradation	25	1 of 4
66794	sulfate reduction	23.08	3 of 13
66794	urea cycle	23.08	3 of 13
66794	ascorbate metabolism	22.73	5 of 22
66794	valine metabolism	22.22	2 of 9
66794	glutathione metabolism	21.43	3 of 14

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
117214	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	+	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Infection	#Disease	-
#Host Body-Site	#Oral cavity and airways	#Airways

Isolation

@ref	Sample type	Host species
8909	pulmonary infection
58018	Human pulmonary infection	Homo sapiens
67770	Pulmonary infection
117214	Human, Pulmonary infection	Homo sapiens

Taxonmaps

69479

Global distribution of 16S sequence LC145551 (>99% sequence identity) for Eggerthia catenaformis subclade from Microbeatlas

Aquatic Samples	293
Soil Samples	210
Animal Samples	18916
Plant Samples	85
Total Samples	19504

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
8909	yes, in single cases	1	Risk group (German classification) According to TRBA 466
117214		1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Lact_cate_OT_569_V1 assembly for Eggerthia catenaformis OT 569 = DSM 20559	scaffold	GCA_000340375	999415.3	2537561938	999415	71.42
67770	ASM42260v1 assembly for Eggerthia catenaformis OT 569 = DSM 20559	scaffold	GCA_000422605	999415.14	2522572066	999415	65.64

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Eggerthia catenaformis gene for 16S rRNA, partial sequence, strain: JCM 1121	AB289059	694	999415
8909	Lactobacillus catenaformis partial 16S rRNA gene, strain DSM 20559T	AJ621549	1506	999415
67770	Eggerthia catenaformis gene for 16S ribosomal RNA, partial sequence, strain: JCM 1121	LC145551	1411	999415
67770	L.catenaforme 16S ribosomal RNA small subunit	M23729	1549	31973

GC content

8909

GC-content (mol%)31.7

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Lact_cate_OT_569_V1 assembly for Eggerthia catenaformis OT 569 = DSM 20559
NCBI: GCA_000340375

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.95	no
125439	gram_stain	BacteriaNetⓘ	positive	54.30	no
125439	motility	BacteriaNetⓘ	no	61.30	no
125439	spore_formation	BacteriaNetⓘ	no	78.63	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Eggerthia catenaformis OT 569 = DSM 20559 OT 569
NCBI: GCA_000340375.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.11	no
125438	anaerobic	anaerobicⓘ	yes	80.10	yes
125438	aerobic	aerobicⓘ	no	98.58	yes
125438	spore-forming	spore-formingⓘ	no	77.95	no
125438	thermophilic	thermophileⓘ	no	97.46	yes
125438	flagellated	motile2+ⓘ	no	92.62	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Draft Genome Sequence of Eggerthia catenaformis Strain MAR1 Isolated from Saliva of Healthy Humans.	Rahman MA, Mullany P, Roberts AP.	Genome Announc	10.1128/genomea.00638-17	2017
	A Genomic View of Lactobacilli and Pediococci Demonstrates that Phylogeny Matches Ecology and Physiology.	Zheng J, Ruan L, Sun M, Ganzle M.	Appl Environ Microbiol	10.1128/aem.02116-15	2015
Phylogeny	Reclassification of Lactobacillus catenaformis (Eggerth 1935) Moore and Holdeman 1970 and Lactobacillus vitulinus Sharpe et al. 1973 as Eggerthia catenaformis gen. nov., comb. nov. and Kandleria vitulina gen. nov., comb. nov., respectively.	Salvetti E, Felis GE, Dellaglio F, Castioni A, Torriani S, Lawson PA	Int J Syst Evol Microbiol	10.1099/ijs.0.029231-0	2010
Phylogeny	Sharpea azabuensis gen. nov., sp. nov., a Gram-positive, strictly anaerobic bacterium isolated from the faeces of thoroughbred horses.	Morita H, Shiratori C, Murakami M, Takami H, Toh H, Kato Y, Nakajima F, Takagi M, Akita H, Masaoka T, Hattori M	Int J Syst Evol Microbiol	10.1099/ijs.0.65543-0	2008

References

#8909	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20559
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#39108	; Curators of the CIP;
#58018	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 48174
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#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 .
#117214	Collection of Institut Pasteur ; Curators of the CIP; CIP 104817
#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 )

Content

About us

Lactobacillus catenaformis (LMG 9915, CECT 4140, DSM 20559)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Murein

Metabolite utilization

Enzymes

Pathway annotation

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000340375

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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