Neptunomonas qingdaonensis (CGMCC 1.10971, KCTC 23686, P10-2-4)

Name: Neptunomonas qingdaonensis (CGMCC 1.10971, KCTC 23686, P10-2-4)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133855

Type strain

Strain Designation P10-2-4

Culture col. no. CGMCC 1.10971 KCTC 23686 P10-2-4

NCBI tax ID(s) 1045558

Special Collections KCTC Literature strains

Links

Neptunomonas qingdaonensis P10-2-4 is an aerobe, Gram-negative, motile bacterium that was isolated from marine sediment.

Gram-negative motile rod-shaped aerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 285928

KCTC 23686

@ref 20215

Last LPSN update 2026-02-09 11:32:03

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Oceanospirillaceae

Genus Neptunomonas

Species Neptunomonas qingdaonensis

Full scientific name Neptunomonas qingdaonensis Liu et al. 2013

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
30685	negative	1.5 µm	0.75 µm	rod-shaped
125439	negative				99.7
125438					90.217
125438	negative				98.5

Pigmentation

30685

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
30685	positive	growth	04-33
30685	positive	optimum	20

Culture pH

@ref	Ability	Type	PH
30685	positive	optimum	7
30685	positive	growth	6.5-8

Physiology and metabolism

Oxygen tolerance

30685

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.7
125438		92.813

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30685	NaCl	positive	optimum	3.5 %

Observation

30685

Observationaggregates in clumps

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
30685	16947 ChEBI	citrate	+	carbon source
30685	27689 ChEBI	decanoate	+	carbon source
30685	25115 ChEBI	malate	+	carbon source
30685	17632 ChEBI	nitrate	+	reduction
30685	18401 ChEBI	phenylacetate	+	carbon source

Enzymes

@ref	Value	Activity	Ec
30685	acid phosphatase	+	3.1.3.2
30685	alkaline phosphatase	+	3.1.3.1
30685	catalase	+	1.11.1.6
30685	cytochrome oxidase	+	1.9.3.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ubiquinone biosynthesis	100	7 of 7
66794	biotin biosynthesis	100	4 of 4
66794	cyanate degradation	100	3 of 3
66794	methylglyoxal degradation	100	5 of 5
66794	adipate degradation	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	L-lactaldehyde degradation	100	3 of 3
66794	CMP-KDO biosynthesis	100	4 of 4
66794	ppGpp biosynthesis	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	ethanol fermentation	100	2 of 2
66794	gluconeogenesis	100	8 of 8
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	palmitate biosynthesis	100	22 of 22
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	teichoic acid biosynthesis	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	valine metabolism	100	9 of 9
66794	glutamate and glutamine metabolism	96.43	27 of 28
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	leucine metabolism	92.31	12 of 13
66794	lipid A biosynthesis	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	proline metabolism	81.82	9 of 11
66794	vitamin B6 metabolism	81.82	9 of 11
66794	methionine metabolism	80.77	21 of 26
66794	glycine betaine biosynthesis	80	4 of 5
66794	hydrogen production	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	glutathione metabolism	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	glycolysis	76.47	13 of 17
66794	alanine metabolism	75.86	22 of 29
66794	isoleucine metabolism	75	6 of 8
66794	acetate fermentation	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	pentose phosphate pathway	72.73	8 of 11
66794	purine metabolism	72.34	68 of 94
66794	cysteine metabolism	72.22	13 of 18
66794	reductive acetyl coenzyme A pathway	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	lipid metabolism	70.97	22 of 31
66794	propionate fermentation	70	7 of 10
66794	sulfate reduction	69.23	9 of 13
66794	methane metabolism	66.67	2 of 3
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	histidine metabolism	65.52	19 of 29
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	arginine metabolism	62.5	15 of 24
66794	pyrimidine metabolism	62.22	28 of 45
66794	urea cycle	61.54	8 of 13
66794	tryptophan metabolism	60.53	23 of 38
66794	lipoate biosynthesis	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	lysine metabolism	59.52	25 of 42
66794	propanol degradation	57.14	4 of 7
66794	tyrosine metabolism	57.14	8 of 14
66794	oxidative phosphorylation	57.14	52 of 91
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	pantothenate biosynthesis	50	3 of 6
66794	phenol degradation	50	10 of 20
66794	coenzyme M biosynthesis	50	5 of 10
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	glycine metabolism	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	glycogen biosynthesis	50	2 of 4
66794	sulfopterin metabolism	50	2 of 4
66794	ribulose monophosphate pathway	50	1 of 2
66794	vitamin B12 metabolism	47.06	16 of 34
66794	nitrate assimilation	44.44	4 of 9
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	arachidonic acid metabolism	44.44	8 of 18
66794	mevalonate metabolism	42.86	3 of 7
66794	bile acid biosynthesis, neutral pathway	41.18	7 of 17
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	3-chlorocatechol degradation	40	2 of 5
66794	factor 420 biosynthesis	40	2 of 5
66794	ethylmalonyl-CoA pathway	40	2 of 5
66794	glycogen metabolism	40	2 of 5
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	isoprenoid biosynthesis	38.46	10 of 26
66794	carnitine metabolism	37.5	3 of 8
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	polyamine pathway	34.78	8 of 23
66794	selenocysteine biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	Entner Doudoroff pathway	30	3 of 10
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	toluene degradation	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	degradation of pentoses	25	7 of 28

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

30685

Sample typemarine sediment

Taxonmaps

69479

Global distribution of 16S sequence JF747202 (>99% sequence identity) for Neptunomonas qingdaonensis from Microbeatlas

Aquatic Samples	1060
Soil Samples	42
Animal Samples	35
Plant Samples	7
Total Samples	1144

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2663762747 annotated assembly for Neptunomonas qingdaonensis CGMCC 1.10971	scaffold	GCA_900113275	1045558.5	2663762747	1045558	71.63
66792	Nqin_v01 assembly for Neptunomonas qingdaonensis P10-2-4	contig	GCA_016082375	1045558.6		1045558	69.29

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
30685	Neptunomonas qingdaonensis strain P10-2-4 16S ribosomal RNA gene, partial sequence	JF747202	1506		1045558

GC content

30685

GC-content (mol%)45.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Neptunomonas qingdaonensis CGMCC 1.10971
NCBI: GCA_900113275

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.70	no
125439	motility	BacteriaNetⓘ	yes	80.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	89.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Neptunomonas qingdaonensis CGMCC 1.10971
NCBI: GCA_900113275.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	96.99	yes
125438	aerobic	aerobicⓘ	yes	73.13	yes
125438	spore-forming	spore-formingⓘ	no	92.81	no
125438	thermophilic	thermophileⓘ	no	98.00	no
125438	flagellated	motile2+ⓘ	yes	90.22	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Functional characterization of diverse type I-F CRISPR-associated transposons.	Roberts A, Nethery MA, Barrangou R.	Nucleic Acids Res	10.1093/nar/gkac985	2022
Phylogeny	Neptunomonas qingdaonensis sp. nov., isolated from intertidal sand.	Liu A, Zhang XY, Chen CX, Xie BB, Qin QL, Liu C, Li GW, Li H, Xu Z, Chen XL, Zhou BC, Zhang YZ	Int J Syst Evol Microbiol	10.1099/ijs.0.041970-0	2012
Phylogeny	Pelagitalea pacifica gen. nov., sp. nov., a new marine bacterium isolated from seawater.	Lee H, Yoshizawa S, Kogure K, Kim HS, Yoon J	Curr Microbiol	10.1007/s00284-014-0750-1	2014

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 )
#27016	IJSEM 1673 2013 ( DOI 10.1099/ijs.0.041970-0 , PubMed 22904225 )
#30685	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 #27016
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#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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Neptunomonas qingdaonensis (CGMCC 1.10971, KCTC 23686, P10-2-4)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_900113275

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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