Name: Pseudoclavibacter terrae JCM 30298
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 163757

Type strain:

Species: Pseudoclavibacter terrae

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

Strain history: T.-H. Yi; Kyung Hee Univ., South Korea; THG-MD12.

NCBI tax ID(s): 1530195 (species)

Section

Pseudoclavibacter terrae JCM 30298 is a mesophilic, Gram-positive bacterium that was isolated from Rhizosphere soil of Ophiopogon japonicus.

Gram-positive
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Micrococcales*
	Family	*Microbacteriaceae*
	Genus	*Pseudoclavibacter*
	Species	**Pseudoclavibacter terrae**
	Full Scientific Name (LPSN)	Pseudoclavibacter terrae Du et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	28 °C

[Ref.: #67770]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.996
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-9

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #67770]	Sample type/isolated from	Rhizosphere soil of Ophiopogon japonicus
[Ref.: #67770]	Host species	Ophiopogon japonicus
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #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

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pseudoclavibacter terrae strain THG-MD12 16S ribosomal RNA gene, partial sequence	KJ769174	1413	ENA	1530195 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Pseudoclavibacter terrae THG-MD12	GCA_008831075	scaffold	GenBank	1530195 tax ID

[Ref.: #67770]

GC-content

66.8 mol%

high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Pseudoclavibacter terrae THG-MD12 NCBI: GCA_008831075.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudoclavibacter terrae THG-MD12 NCBI: GCA_008831075.1
[Ref.: #69480]	motile	no	90.099	no
[Ref.: #69480]	flagellated	no	96.113	no
[Ref.: #69480]	gram-positive	yes	87.113	no
[Ref.: #69480]	anaerobic	no	99.465	no
[Ref.: #69480]	aerobic	yes	90.9	no
[Ref.: #69480]	halophile	no	82.53	no
[Ref.: #69480]	spore-forming	no	96.129	no
[Ref.: #69480]	thermophile	no	99.816	no
[Ref.: #69480]	glucose-util	yes	88.845	no
[Ref.: #69480]	glucose-ferment	no	85.452	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 30298, CCTCC AB 2015124, KCTC 39562

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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

* These data were automatically processed and therefore are not curated

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Pseudoclavibacter terrae THG-MD12

Pseudoclavibacter terrae THG-MD12

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