Mycobacterium paragordonae (JCM 18565, 49061, KCTC 29126)

Name: Mycobacterium paragordonae (JCM 18565, 49061, KCTC 29126)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134025

Type strain

Strain Designation 49061

Culture col. no. JCM 18565 49061 KCTC 29126

NCBI tax ID(s) 1389713

Special Collections JCM KCTC Literature strains

Links

Mycobacterium paragordonae 49061 is a mesophilic, rod-shaped prokaryote that was isolated from human - mouth.

rod-shaped mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 132695

JCM 18565

@ref 20215

Last LPSN update 2025-12-16 10:01:57

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Mycobacteriaceae

Genus Mycobacterium

Species Mycobacterium paragordonae

Full scientific name Mycobacterium paragordonae Kim et al. 2014

Morphology

Cell morphology

@ref	Gram stain	Confidence	Cell shape
31080			rod-shaped
125439	positive	94.9
125438	positive	90.161

Pigmentation

31080

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
31080	positive	growth	25-30	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	94.5

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31080	53426 ChEBI	tween 80	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31080	arylsulfatase	+	3.1.6.1
31080	catalase	+	1.11.1.6
31080	urease	+	3.5.1.5

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body-Site	#Oral cavity and airways	#Mouth

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
31080	human - mouth
67770	Sputum of a patient with a symptomatic pulmonary infection	Seoul	Republic of Korea	KOR	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM361443v1 assembly for Mycobacterium paragordonae 49061	complete	GCA_003614435	1389713.6	2923207141	1389713	96.77
66792	ASM1072341v1 assembly for Mycobacterium paragordonae JCM 18565	scaffold	GCA_010723415	1389713.13	8112138519	1389713	76.82

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31080	Mycobacterium paragordonae strain 49061 16S ribosomal RNA gene, partial sequence	KC525204	1393		1389713

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Mycobacterium paragordonae 49061
IMG: 2923207141

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	54.80	no
125439	motility	BacteriaNetⓘ	no	84.20	no
125439	gram_stain	BacteriaNetⓘ	positive	94.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	94.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Mycobacterium paragordonae 49061
NCBI: GCA_003614435.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.16	no
125438	anaerobic	anaerobicⓘ	no	96.11	no
125438	aerobic	aerobicⓘ	yes	73.50	no
125438	spore-forming	spore-formingⓘ	no	60.03	no
125438	thermophilic	thermophileⓘ	no	95.50	yes
125438	flagellated	motile2+ⓘ	no	85.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Comprehensive subspecies identification of 175 nontuberculous mycobacteria species based on 7547 genomic profiles.	Matsumoto Y, Kinjo T, Motooka D, Nabeya D, Jung N, Uechi K, Horii T, Iida T, Fujita J, Nakamura S.	Emerg Microbes Infect	10.1080/22221751.2019.1637702	2019
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 camsae sp. nov. and Mycobacterium pumcae sp. nov., two species isolated from human skin infection.	Mei Y, Zhang W, Shi Y, Jiang H, Zhang Q, Gan T, Peng J, Mei H, Mo S, Wang H.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006960	2025
Phylogeny	Mycobacterium paragordonae sp. nov., a slowly growing, scotochromogenic species closely related to Mycobacterium gordonae.	Kim BJ, Hong SH, Kook YH, Kim BJ	Int J Syst Evol Microbiol	10.1099/ijs.0.051540-0	2013

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 )
#31080	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 #27409 (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;
#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 paragordonae (JCM 18565, 49061, KCTC 29126)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003614435

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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