Name: Oceanirhabdus sediminicola NH-JN4
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 23862

Type strain:

Species: Oceanirhabdus sediminicola

Strain Designation: NH-JN4

Culture col. no.: DSM 26274, CCTCC AB 2013103, JCM 18501, KCTC 15322

Strain history: <- Ruo-Xi Pi, Zhejiang Uni.

NCBI tax ID(s): 1176697 (species)

SI-ID 405826

DSM 26274

Special Collections

Section

Oceanirhabdus sediminicola NH-JN4 is an anaerobe, spore-forming, mesophilic bacterium that was isolated from sea sediment.

Gram-positive
rod-shaped
spore-forming
anaerobe
mesophilic
16S sequence
Bacteria

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Clostridiaceae*
	Genus	*Oceanirhabdus*
	Species	**Oceanirhabdus sediminicola**
	Full Scientific Name (LPSN)	Oceanirhabdus sediminicola Pi et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #31069]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive

[Ref.: #31069]	Cell length	4.6 µm

[Ref.: #31069]	Cell width	0.85 µm

[Ref.: #31069]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21287]

Culture medium

OCEANIRHABDUS MEDIUM (DSMZ Medium 1515)

[Ref.: #21287]

Culture medium growth

[Ref.: #21287]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21287]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #21287]	growth	35 °C
[Ref.: #31069]	growth	22-42 °C
[Ref.: #31069]	optimum	36 °C
[Ref.: #67770]	growth	35 °C
[Ref.: #67771]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #31069]			optimum	6.75
[Ref.: #31069]			growth	6.0-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #21287]	Oxygen tolerance	anaerobe
[Ref.: #31069]	Oxygen tolerance	anaerobe
[Ref.: #67771]	Oxygen tolerance	anaerobe

[Ref.: #67771]	Type of spore	spore
[Ref.: #67771]	Ability of spore formation	yes
[Ref.: #31069]	Ability of spore formation	yes

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31069]		NaCl		growth	0.5-6	%
[Ref.: #31069]		NaCl		optimum	2.5	%

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31069]		glycine ChEBI	+	carbon source

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

[Ref.: #21287]	Sample type/isolated from	sea sediment
[Ref.: #21287]	Geographic location (country and/or sea, region)	South China Sea
[Ref.: #21287]	Country	Taiwan, Province of China
[Ref.: #21287]	Country ISO 3 Code	TWN
[Ref.: #21287]	Continent	Asia
[Ref.: #21287]	Geographic location	22.5833°/119.1170°

[Ref.: #67770]	Sample type/isolated from	Sediment of South China Sea

[Ref.: #67771]	Sample type/isolated from	From sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	south China Sea
[Ref.: #67771]	Country	China
[Ref.: #67771]	Country ISO 3 Code	CHN
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JQ771468 (>99% sequence identity) for Oceanirhabdus sediminicola subclade from Microbeatlas

Aquatic Samples	4447
Soil Samples	295
Animal Samples	736
Plant Samples	52
Total Samples	5530

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

[Ref.: #21287]

Biosafety level

Risk group (German classification)
According to TRBA 466

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

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #21287]	Oceanirhabdus sediminicola strain NH-JN4 16S ribosomal RNA gene, partial sequence	JQ771468	1473	GenBank ENA	1176697 tax ID

[Ref.: #21287]	GC-content	35.8 mol%	high performance liquid chromatography (HPLC)
[Ref.: #31069]	GC-content	35.8 mol%

Availability in culture collections External links

[Ref.: #21287]

Culture collection no.

DSM 26274, CCTCC AB 2013103, JCM 18501, KCTC 15322

[Ref.: #87875]

SI-ID 405826

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Haloimpatiens lingqiaonensis gen. nov., sp. nov., an anaerobic bacterium isolated from paper-mill wastewater.	Wu D, Zhang NF, Sun C, Zhang WW, Han SB, Pan J, Wu M, Th D, Zhu XF	Int J Syst Evol Microbiol	10.1099/ijsem.0.000765	2015	*
Phylogeny	Oceanirhabdus sediminicola gen. nov., sp. nov., an anaerobic bacterium isolated from sea sediment.	Pi RX, Zhang WW, Fang MX, Zhang YZ, Li TT, Wu M, Zhu XF	Int J Syst Evol Microbiol	10.1099/ijs.0.051243-0	2013	*

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 )

#21287

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 26274

#31069

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 #27398 (see below)

#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 .

#87875

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-ID405826.1 )

#27398

IJSEM 4277 2013 ( DOI 10.1099/ijs.0.051243-0 , PubMed 23811141 )

* These data were automatically processed and therefore are not curated

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