Dyadobacter sediminis (CGMCC 1.12895, JCM 30073)

Name: Dyadobacter sediminis (CGMCC 1.12895, JCM 30073)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 163701

Type strain

Culture col. no. CGMCC 1.12895 JCM 30073

NCBI tax ID(s) 1493691

Special Collections JCM

History JCM <-- J. Lv; Beijing Univ. of Chem. Technol., China; Z12.

Links

Dyadobacter sediminis JCM 30073 is a bacterium that was isolated from Subterrestrial sediment from a borehole.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 133040

JCM 30073

@ref 20215

Last LPSN update 2026-05-29 08:45:13

Domain Bacteria

Phylum Bacteroidota

Class Cytophagia

Order Cytophagales

Family Spirosomataceae

Genus Dyadobacter

Species Dyadobacter sediminis

Full scientific name Dyadobacter sediminis Tian et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99.626
125438	negative	98.329

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.122
125438	aerobe	91.072

Spore formation

@ref	Spore formation	Confidence
125439		99.103

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Subterrestrial sediment from a borehole	lying in the Mohe Basin, north-east China	China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence KJ473428 (>99% sequence identity) for Dyadobacter sediminis from Microbeatlas

Aquatic Samples	17
Soil Samples	13
Animal Samples	39
Plant Samples	30
Total Samples	99

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1464001v1 assembly for Dyadobacter sediminis CGMCC 1.12895	contig	GCA_014640015	1493691.4	8067057743	1493691	69.86

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Dyadobacter sediminis strain Z12 16S ribosomal RNA gene, partial sequence	KJ473428	1472		1493691

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1464001v1 assembly for Dyadobacter sediminis CGMCC 1.12895
BV-BRC: 1493691.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.12	no
125439	gram_stain	BacteriaNetⓘ	negative	99.63	no
125439	motility	BacteriaNetⓘ	no	84.79	no
125439	spore_formation	BacteriaNetⓘ	no	99.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Dyadobacter sediminis strain CGMCC 1.12895
PATRIC: 1493691.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.33	no
125438	anaerobic	anaerobicⓘ	no	98.31	no
125438	spore-forming	spore-formingⓘ	no	83.74	no
125438	aerobic	aerobicⓘ	yes	91.07	no
125438	thermophilic	thermophileⓘ	no	96.99	yes
125438	flagellated	motile2+ⓘ	no	89.25	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Effect of intra- and inter-specific plant interactions on the rhizosphere microbiome of a single target plant at different densities.	Newberger DR, Deel HL, Manter DK, Vivanco JM.	PLoS One	10.1371/journal.pone.0316676	2025
Phylogeny	Dyadobacter bucti sp. nov., isolated from subsurface sediment.	He XL, Zhou, Gao H, Huang FQ, Li H, Lv J.	Int J Syst Evol Microbiol	10.1099/ijsem.0.004030	2020
Phylogeny	Dyadobacter flavalbus sp. nov., isolated from lake sediment.	Qu JH, Yue YF, Zhou J, Qu LB, Wang LF	Int J Syst Evol Microbiol	10.1099/ijsem.0.003876	2020
Phylogeny	Dyadobacter sediminis sp. nov., isolated from a subterranean sediment sample.	Tian M, Zhang RG, Han L, Zhao XM, Lv J	Int J Syst Evol Microbiol	10.1099/ijs.0.000025	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 )
#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;
#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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Dyadobacter sediminis (CGMCC 1.12895, JCM 30073)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_014640015

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

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