Christiangramia echinicola | Type strain | DSM 19838, JCM 13510, KCTC 12278, KMM 6050, LMG 22585, NBRC 100593, IAM 15331 | BacDiveID:5717

Strain identifier

BacDive ID: 5717

Type strain:

Species: Christiangramia echinicola

Culture col. no.: DSM 19838, JCM 13510, KCTC 12278, KMM 6050, LMG 22585, NBRC 100593, IAM 15331

Strain history: <- SB Kim <- OI Nedashkovskaya, KMM, Russia

NCBI tax ID(s): 279359 (species)

SI-ID 277605

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

Special Collections

Section

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

motile
rod-shaped
aerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Christiangramia*
	Species	**Christiangramia echinicola**
	Full Scientific Name (LPSN)	Christiangramia echinicola (Nedashkovskaya et al. 2005) Deshmukh and Oren 2023

Synonym

Gramella echinicola

Information on morphological and physiological properties Morphology

[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98

[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #67771]	Motility	yes
[Ref.: #69480]	Motility	no Confidence in %94

[Ref.: #67771]	Flagellum arrangement	gliding

Multimedia content

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #8271]			growth	25 °C
[Ref.: #67770]			growth	25 °C
[Ref.: #67771]			growth	25 °C

Information on physiology and metabolism Physiology and metabolism

Oxygen tolerance

aerobe

Ability of spore formation

no Confidence in %91.333

[Ref.: #67770]	Observation	quinones: MK-6
[Ref.: #67771]	Observation	quinones: MK-6

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

[Ref.: #8271]	Sample type/isolated from	sea urchin Strongylocentrotus intermedius
[Ref.: #8271]	Host species	Strongylocentrotus intermedius
[Ref.: #8271]	Geographic location (country and/or sea, region)	Sea of Japan, Gulf of Peter the Great, Troitsa Bay
[Ref.: #8271]	Country	Russia
[Ref.: #8271]	Country ISO 3 Code	RUS
[Ref.: #8271]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Sea urchin Strongylocentrotus intermedius
[Ref.: #67770]	Host species	Strongylocentrotus intermedius
[Ref.: #67770]	Geographic location (country and/or sea, region)	Troitsa Bay, Gulf of Peter the Great

[Ref.: #67771]	Sample type/isolated from	From sea urchin `Strongylocentrotus intermedius`
[Ref.: #67771]	Geographic location (country and/or sea, region)	Troitsa Bay, Gulf of Peter the Great, Sea of Japan, Pacific Ocean
[Ref.: #67771]	Country	Russia
[Ref.: #67771]	Country ISO 3 Code	RUS
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Invertebrates (Other)	#Echinodermata
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

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

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

Biosafety level

1

Risk group (German classification)
According to TRBA 466

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

16S Sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #8271]	Gramella echinicola strain KMM 6050 16S ribosomal RNA gene, partial sequence	AY608409	1438	GenBank ENA	1121931 tax ID
[Ref.: #124043]	Gramella echinicola DSM 19838 strain F315 16S ribosomal RNA gene, partial sequence.	OP343130	1361	GenBank ENA	1121931 tax ID	*
[Ref.: #124043]	Gramella echinicola DSM 19838 strain F378 16S ribosomal RNA gene, partial sequence.	OP343180	1346	GenBank ENA	1121931 tax ID	*
[Ref.: #124043]	Gramella echinicola DSM 19838 strain S187 16S ribosomal RNA gene, partial sequence.	OP343742	1346	GenBank ENA	1121931 tax ID	*
[Ref.: #124043]	Gramella echinicola DSM 19838 strain S288 16S ribosomal RNA gene, partial sequence.	OP343838	1387	GenBank ENA	1121931 tax ID	*
[Ref.: #124043]	Gramella echinicola DSM 19838 strain S378 16S ribosomal RNA gene, partial sequence.	OP343926	1389	GenBank ENA	1121931 tax ID	*
[Ref.: #20218]	Gramella echinicola gene for 16S rRNA, partial sequence, strain: NBRC 100593	AB681204	1455	GenBank ENA	279359 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Christiangramia echinicola DSM 19838	GCA_000423065	scaffold	GenBank ENA	1121931 tax ID
[Ref.: #66792]	Gramella echinicola DSM 19838	1121931.6	wgs	PATRIC	1121931 tax ID	*
[Ref.: #66792]	Gramella echinicola DSM 19838	2524614734	draft	JGI IMG/M	1121931 tax ID	*

[Ref.: #8271]	GC-content	39.6 mol%
[Ref.: #67770]	GC-content	39.6 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Gramella echinicola DSM 19838 PATRIC: 1121931.6
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.596	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	91.333	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	85.535	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.88	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	94	yes

Availability in culture collections External links

Culture collection no.

DSM 19838, JCM 13510, KCTC 12278, KMM 6050, LMG 22585, NBRC 100593, IAM 15331

SI-ID 277605

*

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
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	*
	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	*

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 )

#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) .

#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 .

#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) .

#75199

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID277605.1 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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