Cite this strain

Christiangramia gaetbulicola (DSM 23082, JCM 16528, KCTC 23022)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5719

Type strain

Strain Designation RA5-111

Culture col. no. DSM 23082 JCM 16528 KCTC 23022 NBRC 106272 RA5-111

Special Collections DSMZ JCM KCTC

Links

Name and taxonomic classification

Christiangramia gaetbulicola RA5-111 is an aerobe, mesophilic, motile bacterium that was isolated from foreshore soil.

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

Culture Collection Numbers

DSM 23082 JCM 16528 KCTC 23022 NBRC 106272 RA5-111

Last LPSN update 2024-12-09 10:43:45

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Christiangramia

Species Christiangramia gaetbulicola

Full scientific name Christiangramia gaetbulicola (Cho et al. 2011) Deshmukh and Oren 2023

Synonyms (1)

Gramella gaetbulicola

Morphology

Cell morphology

@ref	Cell shape	Flagellum arrangement
67771	rod-shaped	gliding
67771
125439
125438
125438

Multimedia

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_1.jpg
multimedia.multimedia content:	EM_DSM_23082_1.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_2.jpg
multimedia.multimedia content:	EM_DSM_23082_2.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_3.jpg
multimedia.multimedia content:	EM_DSM_23082_3.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_4.jpg
multimedia.multimedia content:	EM_DSM_23082_4.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_5.jpg
multimedia.multimedia content:	EM_DSM_23082_5.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

@ref:	66793
manual_annotation:	1
multimedia content:	EM_DSM_23082_6.jpg
multimedia.multimedia content:	EM_DSM_23082_6.jpg
caption:	electron microscopic image
intellectual property rights:	© HZI/Manfred Rohde

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
16698	BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)		Medium recipe at MediaDive	Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 80.0 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)	Range
16698	positive	growth	28	mesophilic
67770	positive	growth	30	mesophilic
67771	positive	growth	30	mesophilic

Physiology and metabolism

Observation

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

Spore formation

@ref	Spore formation	Confidence
125439		98.9
125438		91

Oxygen tolerance

67771

Oxygen toleranceaerobe

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil
#Environmental	#Terrestrial	#Coast

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
16698	foreshore soil	Chungnam, Boryeong, Daechon-Dong	Republic of Korea	KOR	Asia
67770	Foreshore soil in the Buan area	Jeonbuk	Republic of Korea	KOR	Asia
67771	From foreshore soil	Buan area, Jeonbuk	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence GQ857650 (>99% sequence identity) for Gramella gaetbulicola from Microbeatlas

Aquatic Samples	28
Soil Samples	2
Animal Samples	4
Plant Samples
Total Samples	34

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
16698	1	Risk group (German classification) According to TRBA 466

Sequence information

GC content

@ref	GC-content (mol%)	Method
16698	39.1	high performance liquid chromatography (HPLC)
67771	39.1

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
16698	Gramella gaetbulicola strain RA5-111 16S ribosomal RNA gene, partial sequence	GQ857650	1402		703340

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Gramella gaetbulicola strain DSM 23082	703340.3	wgs	PATRIC	703340
66792	Gramella gaetbulicola DSM 23082	2734482285	draft	JGI IMG/M	703340
67770	Christiangramia gaetbulicola DSM 23082	GCA_003054225	contig		703340

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Christiangramia gaetbulicola DSM 23082
NCBI: GCA_003054225

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.90	no
125439	motility	BacteriaNetⓘ	no	65.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	79.60	no

Predictions from Diaspora project based on:
Gramella gaetbulicola strain DSM 23082
PATRIC: 703340.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	95.50	yes
125438	anaerobic	anaerobicⓘ	no	95.52	yes
125438	spore-forming	spore-formingⓘ	no	91.00	no
125438	aerobic	aerobicⓘ	yes	86.73	no
125438	thermophilic	thermophileⓘ	no	99.40	yes
125438	flagellated	motile2+ⓘ	no	92.75	yes

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Gramella bathymodioli sp. nov., isolated from a mussel inhabiting a hydrothermal field in the Okinawa Trough.	Liu L, Wang S, Zhou S, Sun W, Fu T, Zhang Y, Zhang XH, Yu M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004488	2020
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 lutea sp. nov., a Novel Species of the Family Flavobacteriaceae Isolated from Marine Sediment.	Yoon J, Jo Y, Kim GJ, Choi H	Curr Microbiol	10.1007/s00284-015-0849-z	2015
Phylogeny	Gramella gaetbulicola sp. nov., a member of the family Flavobacteriaceae isolated from foreshore soil.	Cho SH, Chae SH, Cho M, Kim TU, Choi S, Han JH, Kim YT, Joung Y, Joh K, Nedashkovskaya OI, Kim SB	Int J Syst Evol Microbiol	10.1099/ijs.0.027599-0	2010

Culture collection no.

Culture collection no.
DSM 23082
JCM 16528
KCTC 23022
NBRC 106272
RA5-111

References

#16698	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23082
#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) .
#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 .
#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 .

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