Cite this strain

Geomicrobium sp. (JCM 19038)

Name: Geomicrobium sp. (JCM 19038)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 162373

Type strain

Culture col. no. JCM 19038

NCBI tax ID(s) 1460635

Special Collections JCM

History JCM <-- T. Kudo F386.

Links

JCM 19038 is a bacterium that was isolated from Sword-tail newt .

genome sequence Bacteria

Name and taxonomic classification

SI-ID 131193

JCM 19038

@ref 20215

Last LPSN update 2026-05-29 08:44:55

Domain Bacteria

Phylum Bacillota

Class Bacilli

Order Caryophanales

Family Bacillaceae

Genus Geomicrobium

Full scientific name Geomicrobium Echigo et al. 2010

Morphology

Culture and growth conditions

Culture temp

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

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.063

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
67770	Sword-tail newt (Cynops ensicauda popei)	Cynops ensicauda popei	main island of Okinawa	Japan	JPN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM69812v1 assembly for Geomicrobium sp. JCM 19038	contig	GCA_000698125	1460635.3	2617271034	1460635	57.88

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM69812v1 assembly for Geomicrobium sp. JCM 19038
BV-BRC: 1460635.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.06	no
125439	gram_stain	BacteriaNetⓘ	positive	50.23	no
125439	motility	BacteriaNetⓘ	yes	79.10	no
125439	spore_formation	BacteriaNetⓘ	yes	88.27	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Geomicrobium sp. JCM 19038
PATRIC: 1460635.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	74.92	no
125438	anaerobic	anaerobicⓘ	no	98.44	no
125438	spore-forming	spore-formingⓘ	yes	79.09	no
125438	aerobic	aerobicⓘ	yes	81.15	no
125438	thermophilic	thermophileⓘ	no	88.30	no
125438	flagellated	motile2+ⓘ	yes	76.97	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft Genome Sequences of Geomicrobium sp. Strains JCM 19037, JCM 19038, JCM 19039, and JCM 19055, Isolated from Aquatic Samples.	Kudo T, Nakahara T, Zhang X, Taniyama S, Arakawa O, Murase S, Nakata H, Oshima K, Suda W, Kitamura K, Iida T, Oshida Y, Inoue T, Hongoh Y, Hattori M, Ohkuma M	Genome Announc	10.1128/genomeA.00622-14	2014

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 )
#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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Geomicrobium sp. (JCM 19038)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_000698125

Genome-based predictions

Predictions

Literature

Literature

References

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