Mycobacterium boenickei (DSM 44677, ATCC 49935, CCUG 47580)

Name: Mycobacterium boenickei (DSM 44677, ATCC 49935, CCUG 47580)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8519

Type strain

Strain Designation MF-657, W5998

Culture col. no. DSM 44677 ATCC 49935 CCUG 47580 CIP 107829 MF-657 2 more

NCBI tax ID(s) 146017

Special Collections DSMZ CCUG JCM CIP Literature strains

History <- J. M. Brown, CDC; W5998 <- R. J. Wallace <- Roche Biochemical Labs. CIP 107829 <-- G. Goolsby W5998 <-- R. J. Wallace Mf-657 <-- J. R. Roche. CIP <- 2003, G. Goolsby, CDC, Atlanta, USA: strain W5998 <- R.J. Wallace <- J.R. Roche, Biomedical, Labs

Links

Mycobacterium boenickei MF-657 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from leg wound.

Gram-positive aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 45257

ATCC 49935,DSM 44677,CIP 107829,JCM 15653,CCUG 47580T

@ref 20215

Last LPSN update 2025-12-16 09:48:51

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium boenickei

Full scientific name Mycobacterium boenickei Schinsky et al. 2004

Synonyms (1)

Mycolicibacterium boenickei

Morphology

Cell morphology

@ref	Cell shape	Gram stain	Confidence
29958		positive
116828	rod-shaped
125439		positive	91.6
125438		positive	93.068

Colony morphology

57763

Incubation period2 days

Multimedia

@ref:	11974
multimedia content:	DSM_44677.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_44677.jpg
caption:	Medium 645 37°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11974	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
36377	MEDIUM 55 - for Mycobacterium
116828	CIP Medium 72	Medium recipe at CIP
116828	CIP Medium 55	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
11974	positive	growth	37	mesophilic
29958	positive	growth	28-35	mesophilic
29958	positive	optimum	31.5	mesophilic
36377	positive	growth	37	mesophilic
57763	positive	growth	37	mesophilic
67770	positive	growth	37	mesophilic
116828	positive	growth	22-41
116828	negative	growth	10
116828	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
57763	aerobe
116828	obligate aerobe
125439	obligate aerobe	98.6

Spore formation

29958

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
29958	NaCl	positive	optimum	5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29958	28757 ChEBI	fructose	+	carbon source
29958	17234 ChEBI	glucose	+	carbon source
116828	606565 ChEBI	hippurate	-	hydrolysis
29958	29864 ChEBI	mannitol	+	carbon source
29958	37684 ChEBI	mannose	+	carbon source
29958	17268 ChEBI	myo-inositol	+	carbon source
29958	17632 ChEBI	nitrate	+	reduction
116828	17632 ChEBI	nitrate	+	reduction
116828	17632 ChEBI	nitrate	-	respiration
116828	16301 ChEBI	nitrite	-	reduction
29958	17814 ChEBI	salicin	+	carbon source
29958	27082 ChEBI	trehalose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116828	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
116828	amylase	-
29958	arylsulfatase	+	3.1.6.1
68382	beta-galactosidase	-	3.2.1.23	from API zym
116828	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
116828	caseinase	-	3.4.21.50
29958	catalase	+	1.11.1.6
116828	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
116828	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
116828	gamma-glutamyltransferase	+	2.3.2.2
116828	gelatinase	-
116828	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
116828	lipase	-
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
116828	oxidase	-
116828	protease	-
68382	trypsin	-	3.4.21.4	from API zym
116828	tween esterase	+
29958	urease	+	3.5.1.5
116828	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
116828	-	-	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
116828	not determinedn.d.	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	+	-	+	+	+	-	+	-	+	-	-	-	+	+	+	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body-Site	#Limb	#Leg
#Host Body-Site	#Other	#Wound

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
11974	leg wound	USA	USA	North America
57763	Human wound,leg	USA	USA	North America
67770	Leg wound	USA	USA	North America
116828	Leg wound	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AY012573 (>99% sequence identity) for Mycolicibacterium from Microbeatlas

Aquatic Samples	64
Soil Samples	45
Animal Samples	50
Plant Samples	337
Total Samples	496

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11974	2	Risk group (German classification) According to TRBA 466
116828	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	ASM2255852v1 assembly for Mycolicibacterium boenickei DSM 44677	complete	GCA_022558525	146017.18	8081815633	146017	99.41
66792	ASM1073129v1 assembly for Mycolicibacterium boenickei JCM 15653	complete	GCA_010731295	146017.12	8112709032	146017	98.84
67770	PRJEB19486 assembly for Mycolicibacterium boenickei CIP107829	contig	GCA_900166915	146017.5	2856275449	146017	75.02
66792	ASM255353v1 assembly for Mycolicibacterium boenickei CCUG47580	contig	GCA_002553535	146017.6	2865743993	146017	62.04

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
11974	Mycobacterium bonickei strain W5998 16S ribosomal RNA gene, partial sequence	AY012573	1498		146017
124043	Mycobacterium boenickei strain CIP 107829 16S ribosomal RNA gene, partial sequence.	AY943205	512		146017

GC content

@ref	GC-content (mol%)	Method
29958	64
67770	64	thermal denaturation, midpoint method (Tm)
67770	66.8	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Mycolicibacterium boenickei DSM 44677
NCBI: GCA_022558525

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	64.70	no
125439	motility	BacteriaNetⓘ	no	60.90	no
125439	gram_stain	BacteriaNetⓘ	positive	91.60	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: Mycolicibacterium boenickei JCM 15653
NCBI: GCA_010731295.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	93.07	yes
125438	anaerobic	anaerobicⓘ	no	98.20	yes
125438	aerobic	aerobicⓘ	yes	88.42	yes
125438	spore-forming	spore-formingⓘ	no	65.23	yes
125438	thermophilic	thermophileⓘ	no	97.50	yes
125438	flagellated	motile2+ⓘ	no	89.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phylogenomics and Comparative Genomic Studies Robustly Support Division of the Genus Mycobacterium into an Emended Genus Mycobacterium and Four Novel Genera.	Gupta RS, Lo B, Son J.	Front Microbiol	10.3389/fmicb.2018.00067	2018
Phylogeny	Nontuberculous mycobacteria in respiratory samples from patients with pulmonary tuberculosis in the state of Rondônia, Brazil.	Lima CA, Gomes HM, Oelemann MA, Ramos JP, Caldas PC, Campos CE, Pereira MA, Montes FF, Oliveira Mdo S, Suffys PN, Moura MM.	Mem Inst Oswaldo Cruz	10.1590/s0074-0276108042013010	2013
Genetics	Draft Genome Sequence of Mycobacterium boenickei CIP 107829.	Bouam A, Robert C, Croce O, Levasseur A, Drancourt M	Genome Announc	10.1128/genomeA.00292-17	2017
Phylogeny	Taxonomic variation in the Mycobacterium fortuitum third biovariant complex: description of Mycobacterium boenickei sp. nov., Mycobacterium houstonense sp. nov., Mycobacterium neworleansense sp. nov. and Mycobacterium brisbanense sp. nov. and recognition of Mycobacterium porcinum from human clinical isolates.	Schinsky MF, Morey RE, Steigerwalt AG, Douglas MP, Wilson RW, Floyd MM, Butler WR, Daneshvar MI, Brown-Elliott BA, Wallace RJ, McNeil MM, Brenner DJ, Brown JM	Int J Syst Evol Microbiol	10.1099/ijs.0.02743-0	2004

References

#11974	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44677
#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 )
#26327	IJSEM 1653 2004 ( DOI 10.1099/ijs.0.02743-0 , PubMed 15388725 )
#29958	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 #26327
#36377	; Curators of the CIP;
#57763	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47580
#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) .
#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 .
#116828	Collection of Institut Pasteur ; Curators of the CIP; CIP 107829
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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 boenickei (DSM 44677, ATCC 49935, CCUG 47580)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_022558525

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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