Pseudoclavibacter terrae (KCTC 39562, CCTCC AB 2015124, JCM 30298)

Name: Pseudoclavibacter terrae (KCTC 39562, CCTCC AB 2015124, JCM 30298)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 163757

Type strain

Culture col. no. KCTC 39562 CCTCC AB 2015124 JCM 30298

NCBI tax ID(s) 1530195

Special Collections JCM KCTC

History T.-H. Yi; Kyung Hee Univ., South Korea; THG-MD12.

Links

Pseudoclavibacter terrae JCM 30298 is a bacterium that was isolated from Rhizosphere soil of Ophiopogon japonicus.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 25535

KCTC 39562

@ref 20215

Last LPSN update 2026-02-09 11:39:41

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Microbacteriaceae

Genus Pseudoclavibacter

Species Pseudoclavibacter terrae

Full scientific name Pseudoclavibacter terrae Du et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.7
125438		91.5
125438	positive	90.124

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.6

Observation

67770

Observationquinones: MK-9

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Host species	Country	Country ISO 3 Code	Continent
67770	Rhizosphere soil of Ophiopogon japonicus	Ophiopogon japonicus	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence KJ769174 (>99% sequence identity) for Pseudoclavibacter from Microbeatlas

Aquatic Samples	4455
Soil Samples	3618
Animal Samples	6248
Plant Samples	2821
Total Samples	17142

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM883107v1 assembly for Pseudoclavibacter terrae THG-MD12	scaffold	GCA_008831075	1530195.3	2894494502	1530195	60.27

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Pseudoclavibacter terrae strain THG-MD12 16S ribosomal RNA gene, partial sequence	KJ769174	1413		1530195

GC content

@ref	GC-content (mol%)	Method
67770	66.8	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudoclavibacter terrae THG-MD12
NCBI: GCA_008831075

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	51.60	no
125439	motility	BacteriaNetⓘ	no	82.90	no
125439	gram_stain	BacteriaNetⓘ	positive	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudoclavibacter terrae THG-MD12
NCBI: GCA_008831075.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.12	no
125438	anaerobic	anaerobicⓘ	no	97.62	no
125438	aerobic	aerobicⓘ	yes	78.21	no
125438	spore-forming	spore-formingⓘ	no	77.71	no
125438	thermophilic	thermophileⓘ	no	97.50	no
125438	flagellated	motile2+ⓘ	no	91.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudoclavibacter terrae sp. nov. isolated from rhizosphere soil of Ophiopogon japonicus.	Du J, Singh H, Yang JE, Shik Yin C, Kook M, Yu H, Yi TH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000560	2015

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;
#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 .
#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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Pseudoclavibacter terrae (KCTC 39562, CCTCC AB 2015124, JCM 30298)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_008831075

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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