Tsuneonella troitsensis (KCTC 12303, JCM 17037, KMM 6042)

Name: Tsuneonella troitsensis (KCTC 12303, JCM 17037, KMM 6042)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133807

Type strain

Culture col. no. KCTC 12303 JCM 17037 KMM 6042

NCBI tax ID(s) 292222

Special Collections JCM KCTC Literature strains

Links

Tsuneonella troitsensis KCTC 12303 is an aerobe, Gram-negative, motile prokaryote that was isolated from sea urchin.

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence

Name and taxonomic classification

SI-ID 27885

KCTC 12303,JCM 17037

@ref 20215

Last LPSN update 2025-12-16 10:01:53

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Sphingomonadales

Family Erythrobacteraceae

Genus Tsuneonella

Species Tsuneonella troitsensis

Full scientific name Tsuneonella troitsensis (Nedashkovskaya et al. 2013) Xu et al. 2020

Synonyms (1)

Altererythrobacter troitsensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30562	negative	0.9 µm	0.4 µm	rod-shaped
125438	negative				97.065
125439	negative				99.8

Pigmentation

30562

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
30562	positive	growth	04-39
30562	positive	optimum	25	mesophilic
67770	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
30562	positive	optimum	7.4
30562	positive	growth	5.8-10	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
30562	aerobe
125439	obligate aerobe	99.3

Spore formation

@ref	Spore formation	Confidence
125438		91.514
125439		97.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30562	NaCl	positive	growth	0-4 %

Observation

67770

Observationquinones: Q-10

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30562	16193 ChEBI	3-hydroxybenzoate	+	carbon source
30562	30089 ChEBI	acetate	+	carbon source
30562	22599 ChEBI	arabinose	+	carbon source
30562	4853 ChEBI	esculin	+	hydrolysis
30562	17234 ChEBI	glucose	+	carbon source
30562	24996 ChEBI	lactate	+	carbon source
30562	25017 ChEBI	leucine	+	carbon source
30562	17306 ChEBI	maltose	+	carbon source
30562	29864 ChEBI	mannitol	+	carbon source
30562	17632 ChEBI	nitrate	+	reduction
30562	17272 ChEBI	propionate	+	carbon source
30562	9300 ChEBI	suberic acid	+	carbon source
30562	17992 ChEBI	sucrose	+	carbon source
30562	53424 ChEBI	tween 20	+	carbon source
30562	53423 ChEBI	tween 40	+	carbon source
30562	53426 ChEBI	tween 80	+	carbon source
30562	31011 ChEBI	valerate	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30562	acid phosphatase	+	3.1.3.2
30562	alkaline phosphatase	+	3.1.3.1
30562	catalase	+	1.11.1.6
30562	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Invertebrates (Other)	#Echinodermata

Isolation

@ref	Sample type	Host species
30562	sea urchin
67770	Sea urchin Strongylocentrotus intermedius	Strongylocentrotus intermedius

Taxonmaps

69479

Global distribution of 16S sequence AY676115 (>99% sequence identity) for Tsuneonella troitsensis from Microbeatlas

Aquatic Samples	173
Soil Samples	29
Animal Samples	22
Plant Samples	2
Total Samples	226

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM144153v1 assembly for Tsuneonella troitsensis JCM 17037	contig	GCA_001441535	292222.4	2744054484	292222	74.85
67770	ASM373031v1 assembly for Tsuneonella troitsensis KMM 6042	contig	GCA_003730315	292222.6	2839207979	292222	74.72

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30562	Altererythrobacter troitsensis strain KMM 6042 16S ribosomal RNA gene, partial sequence	AY676115	1389		292222
124043	Tsuneonella troitsensis KMM 6042 gene for 16S rRNA, partial sequence.	LC752366	562		292222

GC content

@ref	GC-content (mol%)	Method
30562	65
67770	65	thermal denaturation, midpoint method (Tm)
67770	64.7	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Tsuneonella troitsensis JCM 17037
NCBI: GCA_001441535

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.90	no
125439	motility	BacteriaNetⓘ	yes	52.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Altererythrobacter troitsensis strain JCM17037
PATRIC: 292222.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.07	yes
125438	anaerobic	anaerobicⓘ	no	96.69	yes
125438	spore-forming	spore-formingⓘ	no	91.51	no
125438	aerobic	aerobicⓘ	yes	85.42	yes
125438	thermophilic	thermophileⓘ	no	94.73	no
125438	flagellated	motile2+ⓘ	no	60.53	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Draft Genome Sequence of Altererythrobacter troitsensis JCM 17037, Isolated from the Sea Urchin Strongylocentrotus intermedius.	Zhou P, Wu YH, Cheng H, Wang CS, Xu XW.	Genome Announc	10.1128/genomea.01556-15	2016
Phylogeny	Altererythrobacter deserti sp. nov., isolated from desert soil.	Yan ZF, Lin P, Won KH, Yang JE, Li CT, Kook M, Yi TH.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002197	2017
Phylogeny	Altererythrobacter troitsensis sp. nov., isolated from the sea urchin Strongylocentrotus intermedius.	Nedashkovskaya OI, Cho SH, Joung Y, Joh K, Kim MN, Shin KS, Oh HW, Bae KS, Mikhailov VV, Kim SB.	Int J Syst Evol Microbiol	10.1099/ijs.0.038836-0	2013
Genetics	Tsuneonella litorea sp. nov., a novel carotenoid-producing bacterium isolated from coastal sediment.	He Y, Liu Y, Pei T, Duan J, Du J, Deng X, Zhu H.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005785	2023
Phylogeny	Altererythrobacter fulvus sp. nov., a novel alkalitolerant alphaproteobacterium isolated from forest soil.	Dahal RH, Kim J.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002697	2018

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 )
#26893	IJSEM 93 2013 ( DOI 10.1099/ijs.0.038836-0 , PubMed 22345135 )
#30562	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 #26893
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Tsuneonella troitsensis (KCTC 12303, JCM 17037, KMM 6042)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_001441535

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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