Name: Paracoccus aestuarii B7
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 13727

Type strain:

Species: Paracoccus aestuarii

Strain Designation: B7

Culture col. no.: DSM 19484, JCM 15119, KCTC 22049, BCRC 80158

Strain history: <- SW Roh, KRIBB

NCBI tax ID(s): 453842 (species)

SI-ID 406104

DSM 19484

Special Collections

Section

Paracoccus aestuarii B7 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from tidal flat sediment.

Gram-negative
rod-shaped
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 aestuarii**
	Full Scientific Name (LPSN)	Paracoccus aestuarii Roh et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #32603]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %97.5

[Ref.: #32603]	Cell length	1.75 µm

[Ref.: #32603]	Cell width	0.9 µm

[Ref.: #32603]	Cell shape	rod-shaped

[Ref.: #32603]	Motility	no

[Ref.: #32603]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #8046]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #8046]

Culture medium growth

[Ref.: #8046]

Culture medium link

Medium recipe at MediaDive

[Ref.: #8046]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #8046]	growth	30 °C
[Ref.: #32603]	growth	15-37 °C
[Ref.: #32603]	optimum	26 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	37 °C

	pH	Kind of pH		pH
[Ref.: #32603]			optimum	9
[Ref.: #32603]			growth	7.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32603]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %92.883
[Ref.: #69481]	Ability of spore formation	no Confidence in %99

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32603]		NaCl		growth	<5	%

[Ref.: #32603]	Observation	aggregates in clumps
[Ref.: #67770]	Observation	quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32603]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #32603]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #32603]	esculin ChEBI	+	hydrolysis
[Ref.: #32603]	glucose ChEBI	+	carbon source
[Ref.: #32603]	L-arabitol ChEBI	+	carbon source
[Ref.: #32603]	malate ChEBI	+	carbon source
[Ref.: #32603]	maltose ChEBI	+	carbon source
[Ref.: #32603]	mannitol ChEBI	+	carbon source
[Ref.: #32603]	mannose ChEBI	+	carbon source
[Ref.: #32603]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32603]	ribitol ChEBI	+	carbon source
[Ref.: #32603]	ribose ChEBI	+	carbon source
[Ref.: #32603]	sodium citrate ChEBI	+	carbon source
[Ref.: #32603]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32603]	acid phosphatase	+	3.1.3.2
[Ref.: #32603]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32603]	alpha-galactosidase	+	3.2.1.22
[Ref.: #32603]	catalase	+	1.11.1.6
[Ref.: #32603]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #8046]	Sample type/isolated from	tidal flat sediment
[Ref.: #8046]	Geographic location (country and/or sea, region)	Yeosu (34° 47' 26'' N 127° 34' 01'' E)
[Ref.: #8046]	Country	Republic of Korea
[Ref.: #8046]	Country ISO 3 Code	KOR
[Ref.: #8046]	Continent	Asia
[Ref.: #8046]	Geographic location	34.7906°/127.5670°

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment in Yeosu (34° 47' 26" N 127° 34' 01" E)
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
[Ref.: #67770]	Geographic location	34.7906°/127.5670°

[Ref.: #67771]	Sample type/isolated from	From flat tidal
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Tidal flat
#Environmental	#Terrestrial	#Sediment

What are isolation sources categories?

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

[Ref.: #8046]

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.: #8046]	Paracoccus aestuarii strain B7 16S ribosomal RNA gene, partial sequence	EF660757	1300	GenBank ENA	453842 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Paracoccus aestuarii DSM 19484	GCA_003594815	contig	GenBank ENA	453842 tax ID
[Ref.: #66792]	Paracoccus aestuarii DSM 19484	GCA_028553885	complete	GenBank ENA	453842 tax ID	*
[Ref.: #66792]	Paracoccus aestuarii strain DSM 19484	453842.3	plasmid	PATRIC	453842 tax ID	*
[Ref.: #66792]	Paracoccus aestuarii strain DSM 19484	453842.4	plasmid	PATRIC	453842 tax ID	*
[Ref.: #66792]	Paracoccus aestuarii strain DSM 19484	453842.6	plasmid	PATRIC	453842 tax ID	*
[Ref.: #66792]	Paracoccus aestuarii strain DSM 19484	453842.5	plasmid	PATRIC	453842 tax ID	*

[Ref.: #8046]	GC-content	62.0 mol%	high performance liquid chromatography (HPLC)
[Ref.: #32603]	GC-content	62 mol%
[Ref.: #67770]	GC-content	62 mol%	high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Paracoccus aestuarii strain DSM 19484 PATRIC: 453842.8
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	99	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Paracoccus aestuarii DSM 19484 NCBI: GCA_028553885.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.5	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	94.79	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.675	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	92.883	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.204	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	67.778	no

Availability in culture collections External links

[Ref.: #8046]

Culture collection no.

DSM 19484, JCM 15119, KCTC 22049, BCRC 80158

[Ref.: #82910]

SI-ID 406104

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paracoccus amoyensis sp. nov., isolated from the surface seawater along the coast of Xiamen Island, China.	Lyu L, Lai Q, Li J, Yu Z, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.004685	2021	*
Phylogeny	Paracoccus pueri sp. nov., isolated from Pu'er tea.	Wang YS, Yan ZF, Lin P, Gao W, Yi TH	Antonie Van Leeuwenhoek	10.1007/s10482-018-1041-9	2018	*
Phylogeny	Paracoccus rhizosphaerae sp. nov., isolated from the rhizosphere of the plant Crossostephium chinense (L.) Makino (Seremban).	Kampfer P, Lai WA, Arun AB, Young CC, Rekha PD, Martin K, Busse HJ, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.039057-0	2012	*
Phylogeny	Paracoccus aestuarii sp. nov., isolated from tidal flat sediment.	Roh SW, Nam YD, Chang HW, Kim KH, Kim MS, Shin KS, Yoon JH, Oh HM, Bae JW	Int J Syst Evol Microbiol	10.1099/ijs.0.65759-0	2009	*

References

#8046

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19484

#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 )

#32603

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 #28816 (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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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 )

#82910

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-ID406104.1 )

#28816

IJSEM 790 2009 ( DOI 10.1099/ijs.0.65759-0 , PubMed 19329608 )

* These data were automatically processed and therefore are not curated

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Paracoccus aestuarii strain DSM 19484

Paracoccus aestuarii DSM 19484

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