Mycobacterium gastri (DSM 43505, ATCC 15754, ATCC 15980)

Name: Mycobacterium gastri (DSM 43505, ATCC 15754, ATCC 15980)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8407

Type strain

Strain Designation W-417, 14 034 0001

Culture col. no. DSM 43505 ATCC 15754 ATCC 15980 IMET 10662 TMC 1456 9 more

NCBI tax ID(s) 1777

Special Collections DSMZ CCUG JCM CIP

History <- I. Tarnok, Res. Centre Borstel; SN 583 <- L. G. Wayne; W-417 CIP 104530 <-- V. Vincent <-- ATCC 15754 <-- L. G. Wayne W-417. CIP <- 1995, V. Vincent, Inst. Pasteur, Paris, France: strain 14 034 0001 <- ATCC <- L.G. Wayne: strain W-417

Links

Mycobacterium gastri W-417 is an obligate aerobe, mesophilic, rod-shaped prokaryote that was isolated from gastric lavage.

rod-shaped obligate aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 36475

ATCC 15754,ATCC 15980,CCUG 20995,CIP 104530,DSM 43505,IMET 10662,CCUG 29062,ATCC 25027,CCUG 47488,JCM 12407,CNCTC 7273

@ref 20215

Last LPSN update 2025-12-16 09:48:49

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium gastri

Full scientific name Mycobacterium gastri Wayne 1966 (Approved Lists 1980)

BacDive ID	Other strains from **Mycobacterium gastri** (5)	Type strain
8408	M. gastri DSM 43506, SN 587
104253	M. gastri STI07420(IMET), 50006, IMET 07484, IMET 7484, ...
104254	M. gastri STI07422(IMET), 3926, 50019, GdfN887, IMET ...
104255	M. gastri STI07421(IMET), 50017, IMET 07485, IMET 7485, ...
145187	M. gastri CCUG 27846

Morphology

Cell morphology

@ref	Cell shape	Gram stain	Confidence
119556	rod-shaped
125439		positive	94.4
125438			92.5

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
39727	MEDIUM 55 - for Mycobacterium
119556	CIP Medium 55	Medium recipe at CIP
11094	MIDDLEBROOK MEDIUM (DSMZ Medium 645)	Medium recipe at MediaDive	Name: MIDDLEBROOK MEDIUM (DSMZ Medium 645) Composition: Bacto Middlebrook 7H10 agar 20.9945 g/l Glycerol Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
11094	positive	growth	37	mesophilic
39727	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic
119556	positive	growth	37	mesophilic
119556	negative	growth	10
119556	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
119556	obligate aerobe
125439	obligate aerobe	98.6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
119556	4853 ChEBI	esculin	-	hydrolysis
119556	17632 ChEBI	nitrate	+	reduction
119556	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119556	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
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
119556	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119556	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
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
119556	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
119556	urease	+	3.5.1.5
68382	valine arylamidase	-		from API zym

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
119556	-	+	+	+	-	+	-	+	-	-	+	-	-	-	-	-	-	-	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body-Site	#Gastrointestinal tract	#Stomach

Isolation

@ref	Sample type
11094	gastric lavage
67770	Gastric lavage
119556	Human, Gastric lavage

Taxonmaps

69479

Global distribution of 16S sequence X52919 (>99% sequence identity) for Mycobacterium from Microbeatlas

Aquatic Samples	382
Soil Samples	881
Animal Samples	203
Plant Samples	54
Total Samples	1520

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11094	2	Risk group (German classification) According to TRBA 466
119556	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
67770	ASM210217v1 assembly for Mycobacterium gastri DSM 43505	contig	GCA_002102175	1777.3	8111172215	1777	46.83
67770	MgastriV1 assembly for Mycobacterium gastri 'Wayne'	contig	GCA_000521195	1436723.3	2609459842	1436723

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Mycobacterium gastri 16S ribosomal RNA gene, partial sequence	AF480602	1469	1777
20218	M.gastri 16S ribosomal RNA gene	M59266	145	1777
20218	Mycobacterium gastri 16S rRNA gene	X52919	1460	1777
20218	M.gastri DNA for internal transcribed spacer between 16S rRNA and 23S rRNA genes	X97633	285	1777
20218	Mycobacterium gastri strain CIP 104530 16S ribosomal RNA gene, partial sequence	AF547927	554	1777
20218	Mycobacterium gastri DNA for 16S rRNA, internal transcribed spacer, 23S rRNA	AB026697	443	1777

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Mycobacterium gastri 'Wayne'
NCBI: GCA_000521195

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	77.40	no
125439	motility	BacteriaNetⓘ	no	89.50	no
125439	gram_stain	BacteriaNetⓘ	positive	94.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium gastri strain DSM 43505
PATRIC: 1777.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.99	no
125438	anaerobic	anaerobicⓘ	no	97.51	no
125438	spore-forming	spore-formingⓘ	no	59.89	no
125438	aerobic	aerobicⓘ	yes	76.26	yes
125438	thermophilic	thermophileⓘ	no	93.00	yes
125438	flagellated	motile2+ⓘ	no	92.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Cold Cas: reevaluating the occurrence of CRISPR/Cas systems in Mycobacteriaceae.	Brenner E, Sreevatsan S.	Front Microbiol	10.3389/fmicb.2023.1204838	2023
	In Vitro Activity of the Sudapyridine (WX-081) against Non-Tuberculous Mycobacteria Isolated in Beijing, China.	Zhu R, Shang Y, Chen S, Xiao H, Ren R, Wang F, Xue Y, Li L, Li Y, Chu N, Huang H.	Microbiol Spectr	10.1128/spectrum.01372-22	2022
	Nosiheptide Harbors Potent In Vitro and Intracellular Inhbitory Activities against Mycobacterium tuberculosis.	Yu X, Zhu R, Geng Z, Kong Y, Wang F, Dong L, Zhao L, Xue Y, Ma X, Huang H.	Microbiol Spectr	10.1128/spectrum.01444-22	2022
Phylogeny	Identification of Mycobacterium species by comparative analysis of the dnaA gene.	Mukai T, Miyamoto Y, Yamazaki T, Makino M.	FEMS Microbiol Lett	10.1111/j.1574-6968.2005.00031.x	2006
Pathogenicity	In Vitro Activities of Bedaquiline and Delamanid against Nontuberculous Mycobacteria Isolated in Beijing, China.	Yu X, Gao X, Li C, Luo J, Wen S, Zhang T, Ma Y, Dong L, Wang F, Huang H.	Antimicrob Agents Chemother	10.1128/aac.00031-19	2019
Metabolism	Growth of mycobacteria on carbon monoxide and methanol.	Park SW, Hwang EH, Park H, Kim JA, Heo J, Lee KH, Song T, Kim E, Ro YT, Kim SW, Kim YM.	J Bacteriol	10.1128/jb.185.1.142-147.2003	2003
Phylogeny	Differentiation of mycobacterial species by PCR-restriction analysis of DNA (342 base pairs) of the RNA polymerase gene (rpoB).	Kim BJ, Lee KH, Park BN, Kim SJ, Bai GH, Kim SJ, Kook YH.	J Clin Microbiol	10.1128/jcm.39.6.2102-2109.2001	2001
Phylogeny	Biochip system for rapid and accurate identification of mycobacterial species from isolates and sputum.	Zhu L, Jiang G, Wang S, Wang C, Li Q, Yu H, Zhou Y, Zhao B, Huang H, Xing W, Mitchelson K, Cheng J, Zhao Y, Guo Y.	J Clin Microbiol	10.1128/jcm.00158-10	2010
Phylogeny	Characterization of a trinucleotide repeat sequence (CGG)5 and potential use in restriction fragment length polymorphism typing of Mycobacterium tuberculosis.	Otsuka Y, Parniewski P, Zwolska Z, Kai M, Fujino T, Kirikae F, Toyota E, Kudo K, Kuratsuji T, Kirikae T.	J Clin Microbiol	10.1128/jcm.42.8.3538-3548.2004	2004
Enzymology	Detection and identification of mycobacteria in formalin-fixed, paraffin-embedded tissues by nested PCR and restriction enzyme analysis.	Bascunana CR, Belak K.	J Clin Microbiol	10.1128/jcm.34.10.2351-2355.1996	1996
	Genus-specific epitope on the 60-kilodalton Legionella heat shock protein recognized by a monoclonal antibody.	Steinmetz I, Rheinheimer C, Hubner I, Bitter-Suermann D.	J Clin Microbiol	10.1128/jcm.29.2.346-354.1991	1991
	Compilation of small ribosomal subunit RNA structures.	Neefs JM, Van de Peer Y, De Rijk P, Chapelle S, De Wachter R.	Nucleic Acids Res	10.1093/nar/21.13.3025	1993
Phylogeny	Multiprimer PCR system for differential identification of mycobacteria in clinical samples.	Del Portillo P, Thomas MC, Martinez E, Maranon C, Valladares B, Patarroyo ME, Carlos Lopez M.	J Clin Microbiol	10.1128/jcm.34.2.324-328.1996	1996

References

#11094	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 43505
#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 )
#39727	; Curators of the CIP;
#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 .
#119556	Collection of Institut Pasteur ; Curators of the CIP; CIP 104530
#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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Mycobacterium gastri (DSM 43505, ATCC 15754, ATCC 15980)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Metabolite production

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_002102175

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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