Cite this strain

"Echinicola shivajiensis" (DSM 24933, JCM 17847, MTCC 11083)

BacDive ID 140406

Type strain

Strain Designation AK12

Culture col. no. DSM 24933 JCM 17847 MTCC 11083 AK12

NCBI tax ID(s) 1035916

Special Collections DSMZ JCM

History <- A.K. Pinnaka, MTCC; AK12 P. Anil Kumar AK12.

Links

"Echinicola shivajiensis" AK12 is a bacterium that was isolated from sediment from brakish water pond.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 377731

LMG 26481,JCM 17847

@ref 20215

Last LPSN update 2026-02-09 11:33:36

Domain Bacteria

Phylum Bacteroidota

Class Cytophagia

Order Cytophagales

Family Cyclobacteriaceae

Genus Echinicola

Species "Echinicola shivajiensis"

Full scientific name Echinicola shivajiensis Srinivas et al. 2012

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	90.1
125438		90
125438	negative	95.947

Culture and growth conditions

Culture temp

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

Physiology and metabolism

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Brackish
#Environmental	#Aquatic	#Pond (small)
#Environmental	#Aquatic	#Sediment

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
43013	sediment from brakish water pond	West Bengal, Rampur	India	IND	Asia
67770	Mud from brackish water pond at Rampur of West Bengal		India	IND	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score
66792	ASM1864216v1 assembly for Echinicola shivajiensis AK12	contig	GCA_018642165	1035916.4	1035916	63.86

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
43013	Echinicola shivajiensis partial 16S rRNA gene, type strain AK12	FR870465	1409		1035916

GC content

@ref	GC-content (mol%)	Method
43013	46.2	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Echinicola shivajiensis AK12
NCBI: GCA_018642165

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	73.60	no
125439	motility	BacteriaNetⓘ	no	50.10	no
125439	gram_stain	BacteriaNetⓘ	negative	90.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	62.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Echinicola shivajiensis AK12
NCBI: GCA_018642165.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.95	no
125438	anaerobic	anaerobicⓘ	no	94.71	no
125438	aerobic	aerobicⓘ	yes	84.72	no
125438	spore-forming	spore-formingⓘ	no	85.94	no
125438	thermophilic	thermophileⓘ	no	97.47	yes
125438	flagellated	motile2+ⓘ	no	90.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Echinicola arenosa sp. nov., isolated from marine sand.	Baek J, Weerawongwiwat V, Kim JH, Yoon JH, Lee JS, Sukhoom A, Kim W	Arch Microbiol	10.1007/s00203-021-02553-7	2021
Phylogeny	Echinicola shivajiensis sp. nov., a novel bacterium of the family "Cyclobacteriaceae" isolated from brackish water pond.	Srinivas TN, Kailash Tryambak B, Anil Kumar P	Antonie Van Leeuwenhoek	10.1007/s10482-011-9679-6	2011
Phylogeny	Echinicola sediminis sp. nov., a marine bacterium isolated from coastal sediment.	Lee DW, Lee AH, Lee H, Kim JJ, Khim JS, Yim UH, Kim BS	Int J Syst Evol Microbiol	10.1099/ijsem.0.002118	2017
Phylogeny	Echinicola strongylocentroti sp. nov., isolated from a sea urchin Strongylocentrotus intermedius.	Jung YJ, Yang SH, Kwon KK, Bae SS	Int J Syst Evol Microbiol	10.1099/ijsem.0.001691	2017

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 )
#43013	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 24933
#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;
#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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"Echinicola shivajiensis" (DSM 24933, JCM 17847, MTCC 11083)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_018642165

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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