Mycobacterium noviomagense (DSM 45145, CIP 109766, NLA000500338)

Name: Mycobacterium noviomagense (DSM 45145, CIP 109766, NLA000500338)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8578

Type strain

Strain Designation NLA000500338

Culture col. no. DSM 45145 CIP 109766 NLA000500338 JCM 16367

NCBI tax ID(s) 459858

Special Collections DSMZ JCM CIP Literature strains

History DSMZ <- J. van Ingen; NLA000500338 <- Laurentius Hospital Roermond JCM <-- CIP 109766 <-- J. van Ingen NLA000500338 <-- Laurentius Hosp., Roermond, Netherlands. CIP <- 2007, J. van Ingen, RIVM, Bilthoven, The Netherlands: strain NLA000500338 <- Laurentius Hosp., Roermond, The Netherlands

Links

Mycobacterium noviomagense NLA000500338 is a Gram-positive, rod-shaped bacterium that was isolated from sputum.

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

Name and taxonomic classification

SI-ID 362318

CIP 109766,DSM 45145,JCM 16367

@ref 20215

Last LPSN update 2026-05-29 08:26:54

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium noviomagense

Full scientific name Mycobacterium noviomagense van Ingen et al. 2009

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
28917	positive	rod-shaped
121365

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
15422	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
36086	MEDIUM 55 - for Mycobacterium
121365	CIP Medium 55	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
15422	positive	growth	37
36086	positive	growth	30
67770	positive	growth	37

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.517

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
121365	17632 ChEBI	nitrate	-	reduction
121365	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
121365	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
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
121365	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
121365	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
121365	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
121365	-	-	+	+	-	+	-	-	-	-	+	+	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host Body Product	#Fluids	#Sputum

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
15422	sputum		Weert	Netherlands	NLD	Europe
67770	Sputum			Netherlands	NLD	Europe
121365	Human, Sputum	Homo sapiens	Weert, Limburg	Netherlands	NLD	Europe	2005

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
15422	yes, in single cases	1	Risk group (German classification) According to TRBA 466
121365		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	ASM1073163v1 assembly for Mycobacterium noviomagense JCM 16367	complete	GCA_010731635	459858.9	8110652120	459858	98.97
66792	ASM2582130v1 assembly for Mycobacterium noviomagense DSM 45145	contig	GCA_025821305	459858.12	8114834372	459858	68.56
67770	ASM208641v1 assembly for Mycobacterium noviomagense DSM 45145	contig	GCA_002086415	459858.3	2865568667	459858	31.5

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15422	Mycobacterium noviomagense strain NLA000500338 16S ribosomal RNA gene, partial sequence	EU239955	1478		459858

GC content

@ref	GC-content (mol%)	Method
67770	65.8	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1073163v1 assembly for Mycobacterium noviomagense JCM 16367
BV-BRC: 459858.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.52	no
125439	gram_stain	BacteriaNetⓘ	positive	81.79	no
125439	motility	BacteriaNetⓘ	no	86.29	no
125439	spore_formation	BacteriaNetⓘ	no	71.28	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium noviomagense JCM 16367
NCBI: GCA_010731635.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.03	no
125438	anaerobic	anaerobicⓘ	no	95.04	no
125438	aerobic	aerobicⓘ	yes	74.54	no
125438	spore-forming	spore-formingⓘ	no	64.42	no
125438	thermophilic	thermophileⓘ	no	96.29	no
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Microbiological features and clinical relevance of new species of the genus Mycobacterium.	Tortoli E.	Clin Microbiol Rev	10.1128/cmr.00035-14	2014
Phylogeny	Mycobacterium noviomagense sp. nov.; clinical relevance evaluated in 17 patients.	van Ingen J, Boeree MJ, de Lange WC, de Haas PE, van der Zanden AG, Mijs W, Rigouts L, Dekhuijzen PN, van Soolingen D	Int J Syst Evol Microbiol	10.1099/ijs.0.001511-0	2009

References

#15422	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45145
#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 )
#25356	IJSEM 845 2009 ( DOI 10.1099/ijs.0.001511-0 , PubMed 19329618 )
#28917	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 #25356
#36086	; Curators of the CIP;
#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 .
#121365	Collection of Institut Pasteur ; Curators of the CIP; CIP 109766
#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 noviomagense (DSM 45145, CIP 109766, NLA000500338)

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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_010731635

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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