Corynebacterium glyciniphilum (DSM 45795, ATCC 21341, JCM 31206)

Name: Corynebacterium glyciniphilum (DSM 45795, ATCC 21341, JCM 31206)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 130267

Type strain

Strain Designation AJ-3170

Culture col. no. DSM 45795 ATCC 21341 JCM 31206 CCM 9057 AJ-3170

NCBI tax ID(s) 1404245 1404244

Special Collections DSMZ JCM

History <- J. Kalinowski, Universität Bielefeld; ATCC 21341 DSM 45795 <-- J. Kalinowski; Univ. Bielefeld, Germany <-- ATCC 21341 <-- Ajinomoto Co., Inc., Japan; AJ 3170.

Links

Corynebacterium glyciniphilum AJ-3170 is a mesophilic prokaryote that was isolated from putrefied bananas.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 44599

DSM 45795,JCM 31206,ATCC 21341,CCUG 73584T

@ref 20215

Last LPSN update 2026-02-09 11:31:11

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Corynebacteriaceae

Genus Corynebacterium

Species Corynebacterium glyciniphilum

Full scientific name Corynebacterium glyciniphilum (ex Kubota et al. 1972) Al-Dilaimi et al. 2015

Morphology

Cell morphology

@ref	Confidence	Gram stain
125438	93.5
125438	92.485	positive
125439	93.3	positive

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
21562	TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)		Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
21562	positive	growth	38	mesophilic
67770	positive	growth	37	mesophilic

Physiology and metabolism

Observation

67770

Observationquinones: MK-9(II-H₂)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67770	17115 ChEBI	L-serine

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	biotin biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	enterobactin biosynthesis	100	3 of 3
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	resorcinol degradation	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	acetate fermentation	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	propanol degradation	100	7 of 7
66794	acetoin degradation	100	3 of 3
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	aerobactin biosynthesis	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	ceramide biosynthesis	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	formaldehyde oxidation	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	glutamate and glutamine metabolism	96.43	27 of 28
66794	threonine metabolism	90	9 of 10
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	heme metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	alanine metabolism	82.76	24 of 29
66794	proline metabolism	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	propionate fermentation	80	8 of 10
66794	lipoate biosynthesis	80	4 of 5
66794	glycine betaine biosynthesis	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	citric acid cycle	78.57	11 of 14
66794	NAD metabolism	77.78	14 of 18
66794	allantoin degradation	77.78	7 of 9
66794	leucine metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	ketogluconate metabolism	75	6 of 8
66794	lactate fermentation	75	3 of 4
66794	toluene degradation	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	degradation of sugar alcohols	68.75	11 of 16
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	methane metabolism	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	cyanate degradation	66.67	2 of 3
66794	pyrimidine metabolism	66.67	30 of 45
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	methionine metabolism	65.38	17 of 26
66794	lipid metabolism	64.52	20 of 31
66794	glutathione metabolism	64.29	9 of 14
66794	tyrosine metabolism	64.29	9 of 14
66794	metabolism of disaccharids	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	oxidative phosphorylation	62.64	57 of 91
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	urea cycle	61.54	8 of 13
66794	gallate degradation	60	3 of 5
66794	3-chlorocatechol degradation	60	3 of 5
66794	Entner Doudoroff pathway	60	6 of 10
66794	creatinine degradation	60	3 of 5
66794	non-pathway related	57.89	22 of 38
66794	lysine metabolism	57.14	24 of 42
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	cysteine metabolism	55.56	10 of 18
66794	d-mannose degradation	55.56	5 of 9
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	histidine metabolism	55.17	16 of 29
66794	phenol degradation	55	11 of 20
66794	vitamin B6 metabolism	54.55	6 of 11
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	glycine metabolism	50	5 of 10
66794	phenylmercury acetate degradation	50	1 of 2
66794	carotenoid biosynthesis	50	11 of 22
66794	cyclohexanol degradation	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	starch degradation	50	5 of 10
66794	quinate degradation	50	1 of 2
66794	ethanol fermentation	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	CMP-KDO biosynthesis	50	2 of 4
66794	lipid A biosynthesis	44.44	4 of 9
66794	chlorophyll metabolism	44.44	8 of 18
66794	mevalonate metabolism	42.86	3 of 7
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	ascorbate metabolism	40.91	9 of 22
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	glycogen metabolism	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	degradation of hexoses	38.89	7 of 18
66794	sulfate reduction	38.46	5 of 13
66794	d-xylose degradation	36.36	4 of 11
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	arachidonic acid metabolism	33.33	6 of 18
66794	sphingosine metabolism	33.33	2 of 6
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	nitrate assimilation	33.33	3 of 9
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	degradation of pentoses	32.14	9 of 28
66794	phosphatidylethanolamine bioynthesis	30.77	4 of 13
66794	4-hydroxyphenylacetate degradation	30	3 of 10
66794	myo-inositol biosynthesis	30	3 of 10
66794	bile acid biosynthesis, neutral pathway	29.41	5 of 17
66794	cholesterol biosynthesis	27.27	3 of 11
66794	polyamine pathway	26.09	6 of 23
66794	carnitine metabolism	25	2 of 8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Decomposing plant
#Host Body-Site	#Plant	#Fruit (Seed)

Isolation

@ref	Sample type
21562	putrefied bananas
67770	Putrefied banana

Taxonmaps

69479

Global distribution of 16S sequence KJ645918 (>99% sequence identity) for Corynebacterium glyciniphilum subclade from Microbeatlas

Aquatic Samples	92
Soil Samples	53
Animal Samples	1916
Plant Samples	69
Total Samples	2130

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
21562	1	Risk group (German classification)

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM62667v1 assembly for Corynebacterium glyciniphilum AJ 3170	complete	GCA_000626675	1404245.3	2576861442	1404245	96.56

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
21562	Corynebacterium glyciniphilum AJ 3170 16S ribosomal RNA, partial sequence	NR121782	1516		1404245
67770	Corynebacterium glycinophilum strain AJ 3170 16S ribosomal RNA gene, partial sequence	KJ645918	1489		1404245

GC content

@ref	GC-content (mol%)	Method
21562	64.82	sequence analysis
67770	64.82	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Corynebacterium glycinophilum AJ 3170
PATRIC: 1404245.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	82.30	no
125439	motility	BacteriaNetⓘ	no	80.70	no
125439	gram_stain	BacteriaNetⓘ	positive	93.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	78.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Corynebacterium glycinophilum AJ 3170
PATRIC: 1404245.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	92.49	no
125438	anaerobic	anaerobicⓘ	no	96.84	no
125438	spore-forming	spore-formingⓘ	no	76.73	no
125438	aerobic	aerobicⓘ	yes	80.40	no
125438	thermophilic	thermophileⓘ	no	95.34	no
125438	flagellated	motile2+ⓘ	no	93.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Corynebacterium kalidii sp. nov, an endophyte from a shoot of the halophyte Kalidium cuspidatum.	Feng JY, Xu L, Tang SK, Sun JQ.	Arch Microbiol	10.1007/s00203-022-03101-7	2022
Metabolism	Corynebacterium sp. 2-TD Mediated Toxicity of 2-Tridecanone to Helicoverpa armigera.	Gu M, Xue Z, Lv S, Cai Y, Zhang L, Gao X.	Toxins (Basel)	10.3390/toxins14100698	2022
Enzymology	Enzymatic production of L-alanyl-L-glutamine by recombinant E. coli expressing alpha-amino acid ester acyltransferase from Sphingobacterium siyangensis.	Hirao Y, Mihara Y, Kira I, Abe I, Yokozeki K.	Biosci Biotechnol Biochem	10.1271/bbb.120859	2013
Phylogeny	Revisiting Corynebacterium glyciniphilum (ex Kubota et al., 1972) sp. nov., nom. rev., isolated from putrefied banana.	Al-Dilaimi A, Bednarz H, Lomker A, Niehaus K, Kalinowski J, Ruckert C	Int J Syst Evol Microbiol	10.1099/ijs.0.065102-0	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 )
#21562	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45795
#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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Corynebacterium glyciniphilum (DSM 45795, ATCC 21341, JCM 31206)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Observation

Metabolite production

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000626675

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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