Name: Neptunomonas concharum LHW37
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133788

Type strain:

Species: Neptunomonas concharum

Strain Designation: LHW37

Culture col. no.: KACC 15543, JCM 17730, BCRC 81037

Strain history: J.-W. Bae LHW37.

NCBI tax ID(s): 1031538 (species)

Section

Neptunomonas concharum LHW37 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from Dead ark clam.

Gram-negative
motile
rod-shaped
facultative anaerobe
mesophilic
16S sequence
Bacteria
genome sequence

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

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Oceanospirillales*
	Family	*Oceanospirillaceae*
	Genus	*Neptunomonas*
	Species	**Neptunomonas concharum**
	Full Scientific Name (LPSN)	Neptunomonas concharum Lee et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30500]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #30500]	Cell length	1.1 µm

[Ref.: #30500]	Cell width	0.55 µm

[Ref.: #30500]	Cell shape	rod-shaped

[Ref.: #30500]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %97.236

[Ref.: #30500]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #30500]			optimum	37 °C
[Ref.: #67770]			growth	37 °C

[Ref.: #30500]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30500]			optimum	7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30500]

Oxygen tolerance

facultative anaerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30500]		NaCl		optimum	2	%

[Ref.: #67770]

Observation

quinones: Q-8

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30500]		methyl D-glucoside ChEBI	+	carbon source
[Ref.: #30500]		nitrate ChEBI	+	reduction

	Enzyme	Enzyme activity	EC number
[Ref.: #30500]	acid phosphatase	+	3.1.3.2
[Ref.: #30500]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30500]	catalase	+	1.11.1.6
[Ref.: #30500]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30500]	gelatinase	+

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

[Ref.: #30500]	Sample type/isolated from	Dead ark clam

[Ref.: #67770]	Sample type/isolated from	Dead ark clam collected on the southern coast of Korea
* marker position based on {}

Isolation sources categories

#Host	#Other	#Decomposing animal
#Host	#Invertebrates (Other)	#Mollusca

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JF748732 (>99% sequence identity) for Neptunomonas concharum subclade from Microbeatlas

Aquatic Samples	411
Soil Samples	28
Animal Samples	75
Plant Samples	3
Total Samples	517

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.: #30500]	Neptunomonas concharum strain LHW37 16S ribosomal RNA gene, partial sequence	JF748732	1472	GenBank	1031538 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Neptunomonas concharum JCM 17730	GCA_006148955	scaffold	GenBank	1031538 tax ID
[Ref.: #66792]	Neptunomonas concharum JCM17730	GCA_008630635	complete	GenBank	1031538 tax ID	*
[Ref.: #66792]	Neptunomonas concharum strain JCM 17730	1031538.3	wgs	PATRIC	1031538 tax ID	*
[Ref.: #66792]	Neptunomonas concharum strain JCM17730	1031538.4	complete	PATRIC	1031538 tax ID	*

[Ref.: #30500]	GC-content	48.2 mol%
[Ref.: #67770]	GC-content	48.2 mol%	thermal denaturation, midpoint method (Tm)

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Neptunomonas concharum strain JCM17730 PATRIC: 1031538.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Neptunomonas concharum JCM17730 NCBI: GCA_008630635.1
[Ref.: #69480]	motile	yes	90.069	yes
[Ref.: #69480]	flagellated	yes	92.434	no
[Ref.: #69480]	gram-positive	no	98.947	yes
[Ref.: #69480]	anaerobic	no	98.32	yes
[Ref.: #69480]	aerobic	no	52.108	yes
[Ref.: #69480]	halophile	yes	79.67	no
[Ref.: #69480]	spore-forming	no	96.38	no
[Ref.: #69480]	glucose-util	yes	51.523	no
[Ref.: #69480]	thermophile	no	98.775	yes
[Ref.: #69480]	glucose-ferment	no	84.169	no

Availability in culture collections External links

[Ref.: #30500]

Culture collection no.

KACC 15543, JCM 17730, BCRC 81037

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Neptunomonas concharum sp. nov., isolated from a dead ark clam, and emended description of the genus Neptunomonas.	Lee HW, Shin NR, Lee J, Roh SW, Whon TW, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.037473-0	2011	*
Genetics	Complete genome sequence of Neptunomonas concharum JCM17730(T): An acetate assimilating bacterium isolated from a dead ark clam.	Pu N, Li W, Li ZJ	Mar Genomics	10.1016/j.margen.2020.100754	2020	*
Metabolism	Characterization of polyhydroxyalkanoate synthases from the marine bacterium Neptunomonas concharum JCM17730.	Pu N, Wang MR, Li ZJ	J Biotechnol	10.1016/j.jbiotec.2020.06.002	2020	*
Phylogeny	Neptunomonas marina sp. nov., isolated from seawater.	Chen WM, Hsieh TY, Sheu SY	Arch Microbiol	10.1007/s00203-019-01671-7	2019	*

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 )

#30500

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 #26833 (see below)

#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;

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#26833

IJSEM 2657 2012 ( DOI 10.1099/ijs.0.037473-0 , PubMed 22199221 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Neptunomonas concharum in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Neptunomonas concharum strain JCM17730

Neptunomonas concharum JCM17730

Change proposal

Change proposal