Name: Paracoccus saliphilus DSM 18447
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13728

Type strain:

Species: Paracoccus saliphilus

Culture col. no.: DSM 18447, CCTCC AB 206074, KCTC 22163, YIM 90738

Strain history: <- S.-K. Tang and Y. Wang, YIM; YIM 90738 <- S.-K. Tang, Y. Wang et al.

NCBI tax ID(s): 405559 (species)

SI-ID 402335

DSM 18447

Special Collections

Section

Paracoccus saliphilus DSM 18447 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from saline-alkali soil.

coccus-shaped
Gram-negative
aerobe
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	*Alphaproteobacteria*
	Order	*Rhodobacterales*
	Family	*Paracoccaceae*
	Genus	*Paracoccus*
	Species	**Paracoccus saliphilus**
	Full Scientific Name (LPSN)	Paracoccus saliphilus Wang et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29088]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97

[Ref.: #29088]	Cell length	4 µm

[Ref.: #29088]	Cell width	1.8 µm

[Ref.: #29088]	Cell shape	coccus-shaped

[Ref.: #29088]	Motility	no

[Ref.: #29088]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #7476]

Culture medium

ISP MEDIUM 2 WITH 5% NaCl (DSMZ Medium 636)

[Ref.: #7476]

Culture medium growth

[Ref.: #7476]

Culture medium link

Medium recipe at MediaDive

[Ref.: #7476]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #7476]	growth	37 °C
[Ref.: #29088]	growth	10-55 °C
[Ref.: #29088]	optimum	37 °C

	pH	Kind of pH		pH
[Ref.: #29088]			optimum	7
[Ref.: #29088]			growth	6.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29088]

Oxygen tolerance

aerobe

[Ref.: #29088]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %90.969

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29088]		NaCl		growth	1.0-15	%
[Ref.: #29088]		NaCl		optimum	8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29088]	4-hydroxy-L-proline ChEBI	+	carbon source
[Ref.: #29088]	acetate ChEBI	+	carbon source
[Ref.: #29088]	alanine ChEBI	+	carbon source
[Ref.: #29088]	alpha-cyclodextrin ChEBI	+	carbon source
[Ref.: #29088]	arabinose ChEBI	+	carbon source
[Ref.: #29088]	asparagine ChEBI	+	carbon source
[Ref.: #29088]	aspartate ChEBI	+	carbon source
[Ref.: #29088]	citrate ChEBI	+	carbon source
[Ref.: #29088]	DL-carnitine ChEBI	+	carbon source
[Ref.: #29088]	esculin ChEBI	+	hydrolysis
[Ref.: #29088]	formate ChEBI	+	carbon source
[Ref.: #29088]	fructose ChEBI	+	carbon source
[Ref.: #29088]	fucose ChEBI	+	carbon source
[Ref.: #29088]	galactose ChEBI	+	carbon source
[Ref.: #29088]	galacturonate ChEBI	+	carbon source
[Ref.: #29088]	gluconate ChEBI	+	carbon source
[Ref.: #29088]	glucose ChEBI	+	carbon source
[Ref.: #29088]	glutamate ChEBI	+	carbon source
[Ref.: #29088]	glycerol ChEBI	+	carbon source
[Ref.: #29088]	glycogen ChEBI	+	carbon source
[Ref.: #29088]	histidine ChEBI	+	carbon source
[Ref.: #29088]	inosine ChEBI	+	carbon source
[Ref.: #29088]	L-alaninamide ChEBI	+	carbon source
[Ref.: #29088]	L-arabitol ChEBI	+	carbon source
[Ref.: #29088]	lactate ChEBI	+	carbon source
[Ref.: #29088]	lactose ChEBI	+	carbon source
[Ref.: #29088]	leucine ChEBI	+	carbon source
[Ref.: #29088]	mannose ChEBI	+	carbon source
[Ref.: #29088]	melibiose ChEBI	+	carbon source
[Ref.: #29088]	methyl pyruvate ChEBI	+	carbon source
[Ref.: #29088]	ornithine ChEBI	+	carbon source
[Ref.: #29088]	phenylethylamine ChEBI	+	carbon source
[Ref.: #29088]	proline ChEBI	+	carbon source
[Ref.: #29088]	putrescine ChEBI	+	carbon source
[Ref.: #29088]	quinate ChEBI	+	carbon source
[Ref.: #29088]	ribitol ChEBI	+	carbon source
[Ref.: #29088]	serine ChEBI	+	carbon source
[Ref.: #29088]	sorbitol ChEBI	+	carbon source
[Ref.: #29088]	succinate ChEBI	+	carbon source
[Ref.: #29088]	sucrose ChEBI	+	carbon source
[Ref.: #29088]	threonine ChEBI	+	carbon source
[Ref.: #29088]	thymidine ChEBI	+	carbon source
[Ref.: #29088]	uridine ChEBI	+	carbon source
[Ref.: #29088]	urocanic acid ChEBI	+	carbon source
[Ref.: #29088]	xylitol ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #29088]	acid phosphatase	+	3.1.3.2
[Ref.: #29088]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29088]	catalase	+	1.11.1.6
[Ref.: #29088]	cytochrome oxidase	+	1.9.3.1
[Ref.: #29088]	gelatinase	+
[Ref.: #29088]	urease	+	3.5.1.5

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	resorcinol degradation	100	2 of 2
[Ref.: #66794]	valine metabolism	100	9 of 9
[Ref.: #66794]	aminopropanol phosphate biosynthesis	100	2 of 2
[Ref.: #66794]	glycine betaine biosynthesis	100	5 of 5
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	L-lactaldehyde degradation	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	C4 and CAM-carbon fixation	100	8 of 8
[Ref.: #66794]	gluconeogenesis	100	8 of 8
[Ref.: #66794]	photosynthesis	100	14 of 14
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	glycogen biosynthesis	100	4 of 4
[Ref.: #66794]	ethanol fermentation	100	2 of 2
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	4-hydroxymandelate degradation	100	9 of 9
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	tetrahydrofolate metabolism	92.86	13 of 14
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	leucine metabolism	92.31	12 of 13
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	91.67	11 of 12
[Ref.: #66794]	pentose phosphate pathway	90.91	10 of 11
[Ref.: #66794]	threonine metabolism	90	9 of 10
[Ref.: #66794]	lipid A biosynthesis	88.89	8 of 9
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	allantoin degradation	88.89	8 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	NAD metabolism	88.89	16 of 18
[Ref.: #66794]	ketogluconate metabolism	87.5	7 of 8
[Ref.: #66794]	citric acid cycle	85.71	12 of 14
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	propanol degradation	85.71	6 of 7
[Ref.: #66794]	degradation of sugar acids	84	21 of 25
[Ref.: #66794]	proline metabolism	81.82	9 of 11
[Ref.: #66794]	myo-inositol biosynthesis	80	8 of 10
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	glycogen metabolism	80	4 of 5
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	phenylacetate degradation (aerobic)	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	vitamin B12 metabolism	79.41	27 of 34
[Ref.: #66794]	purine metabolism	78.72	74 of 94
[Ref.: #66794]	glutamate and glutamine metabolism	78.57	22 of 28
[Ref.: #66794]	aspartate and asparagine metabolism	77.78	7 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	77.78	7 of 9
[Ref.: #66794]	vitamin B1 metabolism	76.92	10 of 13
[Ref.: #66794]	pyrimidine metabolism	75.56	34 of 45
[Ref.: #66794]	biotin biosynthesis	75	3 of 4
[Ref.: #66794]	butanoate fermentation	75	3 of 4
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
[Ref.: #66794]	CMP-KDO biosynthesis	75	3 of 4
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	isoleucine metabolism	75	6 of 8
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	tryptophan metabolism	73.68	28 of 38
[Ref.: #66794]	flavin biosynthesis	73.33	11 of 15
[Ref.: #66794]	vitamin B6 metabolism	72.73	8 of 11
[Ref.: #66794]	histidine metabolism	72.41	21 of 29
[Ref.: #66794]	alanine metabolism	72.41	21 of 29
[Ref.: #66794]	tyrosine metabolism	71.43	10 of 14
[Ref.: #66794]	degradation of pentoses	71.43	20 of 28
[Ref.: #66794]	glutathione metabolism	71.43	10 of 14
[Ref.: #66794]	cardiolipin biosynthesis	71.43	5 of 7
[Ref.: #66794]	ubiquinone biosynthesis	71.43	5 of 7
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	arginine metabolism	70.83	17 of 24
[Ref.: #66794]	oxidative phosphorylation	69.23	63 of 91
[Ref.: #66794]	selenocysteine biosynthesis	66.67	4 of 6
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	methane metabolism	66.67	2 of 3
[Ref.: #66794]	IAA biosynthesis	66.67	2 of 3
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	methionine metabolism	65.38	17 of 26
[Ref.: #66794]	glycolysis	64.71	11 of 17
[Ref.: #66794]	lipid metabolism	64.52	20 of 31
[Ref.: #66794]	heme metabolism	64.29	9 of 14
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	degradation of sugar alcohols	62.5	10 of 16
[Ref.: #66794]	urea cycle	61.54	8 of 13
[Ref.: #66794]	sulfate reduction	61.54	8 of 13
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	isoprenoid biosynthesis	57.69	15 of 26
[Ref.: #66794]	d-mannose degradation	55.56	5 of 9
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	53.85	7 of 13
[Ref.: #66794]	3-phenylpropionate degradation	53.33	8 of 15
[Ref.: #66794]	lysine metabolism	52.38	22 of 42
[Ref.: #66794]	polyamine pathway	52.17	12 of 23
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	lactate fermentation	50	2 of 4
[Ref.: #66794]	degradation of hexoses	50	9 of 18
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	toluene degradation	50	2 of 4
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	phenylmercury acetate degradation	50	1 of 2
[Ref.: #66794]	phenol degradation	50	10 of 20
[Ref.: #66794]	quinate degradation	50	1 of 2
[Ref.: #66794]	ribulose monophosphate pathway	50	1 of 2
[Ref.: #66794]	cysteine metabolism	50	9 of 18
[Ref.: #66794]	ascorbate metabolism	50	11 of 22
[Ref.: #66794]	metabolism of disaccharids	45.45	5 of 11
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	androgen and estrogen metabolism	43.75	7 of 16
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	starch degradation	40	4 of 10
[Ref.: #66794]	vitamin K metabolism	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	factor 420 biosynthesis	40	2 of 5
[Ref.: #66794]	lipoate biosynthesis	40	2 of 5
[Ref.: #66794]	creatinine degradation	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	hydrogen production	40	2 of 5
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	gallate degradation	40	2 of 5
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	carnitine metabolism	37.5	3 of 8
[Ref.: #66794]	d-xylose degradation	36.36	4 of 11
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	methanogenesis from CO2	33.33	4 of 12
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	29.41	5 of 17
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
[Ref.: #66794]	carotenoid biosynthesis	22.73	5 of 22
		Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #7476]	Sample type/isolated from	saline-alkali soil
[Ref.: #7476]	Geographic location (country and/or sea, region)	Xinjiang province, edge of Ebinur Lake wetland natural reserve
[Ref.: #7476]	Country	China
[Ref.: #7476]	Country ISO 3 Code	CHN
[Ref.: #7476]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Alkaline	-
#Condition	#Saline	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ923133 (>99% sequence identity) for Paracoccus from Microbeatlas

Aquatic Samples	124
Soil Samples	31
Animal Samples	19
Plant Samples	2
Total Samples	176

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

[Ref.: #7476]

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.: #7476]	Paracoccus saliphilus strain YIM 90738 16S ribosomal RNA gene, partial sequence	DQ923133	1389	GenBank ENA	405559 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Paracoccus saliphilus strain DSM 18447	405559.3	wgs	PATRIC	405559 tax ID	*
[Ref.: #66792]	Paracoccus saliphilus DSM 18447	2681813562	draft	JGI IMG/M	405559 tax ID	*
[Ref.: #66792]	Paracoccus saliphilus DSM 18447	GCA_028553805	complete	GenBank ENA	405559 tax ID	*

[Ref.: #7476]	GC-content	60.3 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29088]	GC-content	60.3 mol%

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: Paracoccus saliphilus DSM 18447 NCBI: GCA_028553805.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.81	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	81.371	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.969	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99.279	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	56.739	no

Availability in culture collections External links

[Ref.: #7476]

Culture collection no.

DSM 18447, CCTCC AB 206074, KCTC 22163, YIM 90738

[Ref.: #82911]

SI-ID 402335

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paracoccus onubensis sp. nov., a novel alphaproteobacterium isolated from the wall of a show cave.	Gutierrez-Patricio S, Gonzalez-Pimentel JL, Miller AZ, Hermosin B, Saiz-Jimenez C, Jurado V	Int J Syst Evol Microbiol	10.1099/ijsem.0.004942	2021	*
Phylogeny	Paracoccus alkanivorans sp. nov., isolated from a deep well with oil reservoir water.	Zhang YX, Li X, Li FL, Ma SC, Zheng GD, Chen WF, Li WJ, Wang L	Int J Syst Evol Microbiol	10.1099/ijsem.0.004036	2020	*
Phylogeny	Paracoccus saliphilus sp. nov., a halophilic bacterium isolated from a saline soil.	Wang Y, Tang SK, Lou K, Mao PH, Jin X, Jiang CL, Xu LH, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.005918-0	2009	*

References

#7476

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18447

#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 )

#29088

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 #25517 (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) .

#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 .

#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) .

#82911

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-ID402335.1 )

#25517

IJSEM 1924 2009 ( DOI 10.1099/ijs.0.005918-0 , PubMed 19567556 )

* These data were automatically processed and therefore are not curated

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