Christiangramia echinicola (DSM 19838, JCM 13510, KCTC 12278)

Name: Christiangramia echinicola (DSM 19838, JCM 13510, KCTC 12278)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5717

Type strain

Culture col. no. DSM 19838 JCM 13510 KCTC 12278 KMM 6050 LMG 22585 2 more

NCBI tax ID(s) 279359

Special Collections DSMZ JCM KCTC

History <- O. I. Nedashkovskaya, Pacific Inst. Bioorg. Chem., RAS, Vladivostok; KMM 6050 KMM 6050 <-- O. I. Nedashkovskaya. <- SB Kim <- OI Nedashkovskaya, KMM, Russia

Links

Christiangramia echinicola DSM 19838 is an aerobe, motile, rod-shaped bacterium that was isolated from sea urchin Strongylocentrotus intermedius.

motile rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 277605

LMG 22585,KCTC 12278,NBRC 100593,JCM 13510,IAM 15331,DSM 19838

@ref 20215

Last LPSN update 2026-02-09 11:19:02

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Christiangramia

Species Christiangramia echinicola

Full scientific name Christiangramia echinicola (Nedashkovskaya et al. 2005) Deshmukh and Oren 2023

Synonyms (1)

Gramella echinicola

Morphology

Cell morphology

@ref	Cell shape	Flagellum arrangement	Gram stain	Confidence
67771	rod-shaped	gliding
67771			negative
125438				94
125438			negative	98
125439			negative	93.1

Multimedia

@ref:	66793
multimedia content:	EM_DSM_19838_1.jpg
multimedia.multimedia content:	EM_DSM_19838_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_19838_2.jpg
multimedia.multimedia content:	EM_DSM_19838_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_19838_3.jpg
multimedia.multimedia content:	EM_DSM_19838_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_19838_4.jpg
multimedia.multimedia content:	EM_DSM_19838_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_19838_5.jpg
multimedia.multimedia content:	EM_DSM_19838_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

@ref:	66793
multimedia content:	EM_DSM_19838_6.jpg
multimedia.multimedia content:	EM_DSM_19838_6.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
8271	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
8271	positive	growth	25
67770	positive	growth	25
67771	positive	growth	25

Physiology and metabolism

Oxygen tolerance

67771

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
125438		91.333

Observation

@ref	Observation
67770	quinones: MK-6
67771	quinones: MK-6

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Invertebrates (Other)	#Echinodermata
#Environmental	#Aquatic	#Marine

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
8271	sea urchin Strongylocentrotus intermedius	Strongylocentrotus intermedius	Sea of Japan, Gulf of Peter the Great, Troitsa Bay	Russia	RUS	Asia
67770	Sea urchin Strongylocentrotus intermedius	Strongylocentrotus intermedius	Troitsa Bay, Gulf of Peter the Great
67771	From sea urchin `Strongylocentrotus intermedius`		Troitsa Bay, Gulf of Peter the Great, Sea of Japan, Pacific Ocean	Russia	RUS	Asia

Taxonmaps

69479

Global distribution of 16S sequence AY608409 (>99% sequence identity) for Gramella from Microbeatlas

Aquatic Samples	117
Soil Samples	7
Animal Samples	15
Plant Samples
Total Samples	139

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
8271	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM42306v1 assembly for Christiangramia echinicola DSM 19838	scaffold	GCA_000423065	1121931.6	2524614734	1121931	74.22

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Gramella echinicola gene for 16S rRNA, partial sequence, strain: NBRC 100593	AB681204	1455	279359
8271	Gramella echinicola strain KMM 6050 16S ribosomal RNA gene, partial sequence	AY608409	1438	1121931
124043	Gramella echinicola DSM 19838 strain F315 16S ribosomal RNA gene, partial sequence.	OP343130	1361	1121931
124043	Gramella echinicola DSM 19838 strain F378 16S ribosomal RNA gene, partial sequence.	OP343180	1346	1121931
124043	Gramella echinicola DSM 19838 strain S187 16S ribosomal RNA gene, partial sequence.	OP343742	1346	1121931
124043	Gramella echinicola DSM 19838 strain S288 16S ribosomal RNA gene, partial sequence.	OP343838	1387	1121931
124043	Gramella echinicola DSM 19838 strain S378 16S ribosomal RNA gene, partial sequence.	OP343926	1389	1121931

GC content

@ref	GC-content (mol%)	Method
8271	39.6
67770	39.6	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: Christiangramia echinicola DSM 19838
NCBI: GCA_000423065

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	76.60	no
125439	motility	BacteriaNetⓘ	no	62.70	no
125439	gram_stain	BacteriaNetⓘ	negative	93.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	89.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Gramella echinicola DSM 19838
PATRIC: 1121931.6

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	yes
125438	anaerobic	anaerobicⓘ	no	95.60	no
125438	spore-forming	spore-formingⓘ	no	91.33	no
125438	aerobic	aerobicⓘ	yes	85.54	yes
125438	thermophilic	thermophileⓘ	no	97.88	yes
125438	flagellated	motile2+ⓘ	no	94.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Proposal of Christiangramia gen. nov., Neomelitea gen. nov. and Nicoliella gen. nov. as replacement names for the illegitimate prokaryotic generic names Gramella Nedashkovskaya et al. 2005, Melitea Urios et al. 2008 and Nicolia Oliphant et al. 2022, respectively.	Deshmukh UB, Oren A.	Int J Syst Evol Microbiol	10.1099/ijsem.0.005806	2023
	An update on novel taxa and revised taxonomic status of bacteria isolated from aquatic host species described in 2022-2023.	Burbick CR, Lawhon SD, Bukouras B, Lazzerini G, Munson E.	J Clin Microbiol	10.1128/jcm.01043-24	2024
	Comparing polysaccharide decomposition between the type strains Gramella echinicola KMM 6050(T) (DSM 19838(T)) and Gramella portivictoriae UST040801-001(T) (DSM 23547(T)), and emended description of Gramella echinicola Nedashkovskaya et al. 2005 emend. Shahina et al. 2014 and Gramella portivictoriae Lau et al. 2005.	Panschin I, Huang S, Meier-Kolthoff JP, Tindall BJ, Rohde M, Verbarg S, Lapidus A, Han J, Trong S, Haynes M, Reddy TB, Huntemann M, Pati A, Ivanova NN, Mavromatis K, Markowitz V, Woyke T, Goker M, Klenk HP, Kyrpides NC, Hahnke RL	Stand Genomic Sci	10.1186/s40793-016-0163-9	2016
Phylogeny	Christiangramia sediminicola sp. nov., a DNA-hydrolysing bacterium isolated from intertidal sediment.	Wang JX, Wang J, Liu NH, Qin QL, Li PY, Song XY, Chen XL, Zhang YZ, Zhang XY.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006703	2025
Phylogeny	Description of Gramella forsetii sp. nov., a marine Flavobacteriaceae isolated from North Sea water, and emended description of Gramella gaetbulicola Cho et al. 2011.	Panschin I, Becher M, Verbarg S, Sproer C, Rohde M, Schuler M, Amann RI, Harder J, Tindall BJ, Hahnke RL	Int J Syst Evol Microbiol	10.1099/ijsem.0.001700	2017
Phylogeny	Gramella oceani sp. nov., a zeaxanthin-producing bacterium of the family Flavobacteriaceae isolated from marine sediment.	Hameed A, Shahina M, Lin SY, Liu YC, Lai WA, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.059881-0	2014
Phylogeny	Gramella planctonica sp. nov., a zeaxanthin-producing bacterium isolated from surface seawater, and emended descriptions of Gramella aestuarii and Gramella echinicola.	Shahina M, Hameed A, Lin SY, Lee RJ, Lee MR, Young CC	Antonie Van Leeuwenhoek	10.1007/s10482-014-0133-4	2014
Phylogeny	Gramella portivictoriae sp. nov., a novel member of the family Flavobacteriaceae isolated from marine sediment.	Lau SCK, Tsoi MMY, Li X, Plakhotnikova I, Dobretsov S, Wong PK, Qian PY	Int J Syst Evol Microbiol	10.1099/ijs.0.63824-0	2005
Phylogeny	Gramella echinicola gen. nov., sp. nov., a novel halophilic bacterium of the family Flavobacteriaceae isolated from the sea urchin Strongylocentrotus intermedius.	Nedashkovskaya OI, Kim SB, Lysenko AM, Frolova GM, Mikhailov VV, Bae KS, Lee DH, Kim IS	Int J Syst Evol Microbiol	10.1099/ijs.0.63314-0	2005

References

#8271	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19838
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#66793	Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771	Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;
#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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Christiangramia echinicola (DSM 19838, JCM 13510, KCTC 12278)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000423065

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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