Mycobacterium aromaticivorans (DSM 45407, ATCC BAA-1378, CIP 109274)

Name: Mycobacterium aromaticivorans (DSM 45407, ATCC BAA-1378, CIP 109274)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8573

Type strain

Strain Designation JS19b1

Culture col. no. DSM 45407 ATCC BAA-1378 CIP 109274 JCM 16368 JS19b1

NCBI tax ID(s) 1440774 318425

Special Collections DSMZ JCM CIP Literature strains

Links

Mycobacterium aromaticivorans JS19b1 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from soil.

Gram-positive rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 298325

ATCC BAA-1378,CIP 109274,JCM 16368,DSM 45407

@ref 20215

Last LPSN update 2025-12-16 09:48:52

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium aromaticivorans

Full scientific name Mycobacterium aromaticivorans Hennessee et al. 2009

Synonyms (1)

Mycolicibacterium aromaticivorans

Morphology

Cell morphology

@ref	Gram stain	Cell shape
32638	positive	rod-shaped
116500		rod-shaped
125438	positive
125439	positive

Multimedia

@ref:	16676
multimedia content:	DSM_45407.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45407.jpg
caption:	Medium 250 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16676	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
116500	CIP Medium 267		Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
16676	positive	growth	28	mesophilic
32638	positive	growth	28-37	mesophilic
32638	positive	optimum	32.5	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance
32638	aerobe
116500	obligate aerobe
125439	obligate aerobe

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32638	NaCl	positive	growth	2.5-5.0 %
32638	NaCl	positive	optimum	3.75 %

Observation

32638

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32638	28757 ChEBI	fructose	+	carbon source
32638	17234 ChEBI	glucose	+	carbon source
32638	29864 ChEBI	mannitol	+	carbon source
32638	37684 ChEBI	mannose	+	carbon source
116500	17632 ChEBI	nitrate	-	reduction
116500	16301 ChEBI	nitrite	-	reduction
32638	30031 ChEBI	succinate	+	carbon source
32638	27082 ChEBI	trehalose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116500	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
32638	alkaline phosphatase	+	3.1.3.1
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
32638	catalase	+	1.11.1.6
116500	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
116500	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
116500	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
116500	-	+	+	+	-	+	-	+	-	-	+	+	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16676	soil	Hawai, Hilo	USA	USA	North America
67770	Polycyclic aromatic hydrocarbon-contaminated soil of a former oil-gasification company site	Hilo, HI	USA	USA	North America
116500	Environment, Soil	Hilo, Hawaii	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence AY943386 (>99% sequence identity) for Mycolicibacterium from Microbeatlas

Aquatic Samples	31
Soil Samples	136
Animal Samples	53
Plant Samples	152
Total Samples	372

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
16676	1	Risk group (German classification) According to TRBA 466
116500	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	ASM55908v2 assembly for Mycolicibacterium aromaticivorans JS19b1 = JCM 16368	contig	GCA_000559085	1440774.8	2558309009	1440774	74.42
66792	ASM131412v1 assembly for Mycolicibacterium aromaticivorans JS19b1 = JCM 16368	contig	GCA_001314125	1440774.6	2734481972	1440774
66792	Mycobacterium aromaticivorans JS19b1	contig		1440774.4		1440774

Genome browser: GCA_000559085

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16676	Mycobacterium aromaticivorans strain JS19b1 16S ribosomal RNA gene, partial sequence	AY943386	1331		318425

GC content

@ref	GC-content (mol%)	Method
67770	66.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Mycolicibacterium aromaticivorans JS19b1 = JCM 16368
NCBI: GCA_001314125

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	62.10	no
125439	motility	BacteriaNetⓘ	no	86.90	no
125439	gram_stain	BacteriaNetⓘ	positive	97.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium aromaticivorans JS19b1
PATRIC: 1440774.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.56	no
125438	anaerobic	anaerobicⓘ	no	97.64	no
125438	spore-forming	spore-formingⓘ	no	57.52	no
125438	aerobic	aerobicⓘ	yes	87.50	yes
125438	thermophilic	thermophileⓘ	no	97.50	no
125438	flagellated	motile2+ⓘ	no	87.37	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	Microbiological features and clinical relevance of new species of the genus Mycobacterium.	Tortoli E.	Clin Microbiol Rev	10.1128/cmr.00035-14	2014
Genetics	Genome sequence of Mycobacterium aromaticivorans JS19b1(T), a novel isolate from Hawaiian soil.	Kwak Y, Park GS, Lee SE, Li QX, Shin JH	J Biotechnol	10.1016/j.jbiotec.2014.06.034	2014
Phylogeny	Polycyclic aromatic hydrocarbon-degrading species isolated from Hawaiian soils: Mycobacterium crocinum sp. nov., Mycobacterium pallens sp. nov., Mycobacterium rutilum sp. nov., Mycobacterium rufum sp. nov. and Mycobacterium aromaticivorans sp. nov.	Hennessee CT, Seo JS, Alvarez AM, Li QX	Int J Syst Evol Microbiol	10.1099/ijs.0.65827-0	2009

References

#16676	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45407
#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 )
#32638	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 #28849 (see below)
#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 .
#116500	Collection of Institut Pasteur ; Curators of the CIP; CIP 109274
#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 aromaticivorans (DSM 45407, ATCC BAA-1378, CIP 109274)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

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_000559085

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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