Name: Pseudorhodobacter wandonensis WT-MW11
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133867

Type strain:

Species: Pseudorhodobacter wandonensis

Strain Designation: WT-MW11

Culture col. no.: KCTC 23672, CCUG 61506

NCBI tax ID(s): 1120568 (species)

SI-ID 410717

CCUG 61506

Section

Pseudorhodobacter wandonensis WT-MW11 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from plant associated.

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	*Pseudorhodobacter*
	Species	**Pseudorhodobacter wandonensis**
	Full Scientific Name (LPSN)	Pseudorhodobacter wandonensis Lee et al. 2013

Information on morphological and physiological properties Morphology

[Ref.: #30715]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #30715]	Cell length	1.5 µm

[Ref.: #30715]	Cell width	0.55 µm

[Ref.: #30715]	Cell shape	rod-shaped

[Ref.: #30715]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %91.947

[Ref.: #62643]

Incubation period

2 days

[Ref.: #30715]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #30715]	growth	04-30 °C
[Ref.: #30715]	optimum	25 °C
[Ref.: #62643]	growth	30 °C

[Ref.: #30715]	Temperature range	mesophilic
[Ref.: #62643]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30715]			optimum	7.5
[Ref.: #30715]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30715]	Oxygen tolerance	aerobe
[Ref.: #62643]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %98
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.983

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30715]		NaCl		growth	0-4	%
[Ref.: #30715]		NaCl		optimum	2.5	%

[Ref.: #30715]

Observation

aggregates in clumps

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30715]		esculin ChEBI	+	hydrolysis
[Ref.: #30715]		pyruvate ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #30715]	acid phosphatase	+	3.1.3.2
[Ref.: #30715]	alkaline phosphatase	+	3.1.3.1
[Ref.: #30715]	alpha-galactosidase	+	3.2.1.22
[Ref.: #30715]	catalase	+	1.11.1.6
[Ref.: #30715]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #30715]	Sample type/isolated from	plant associated

[Ref.: #62643]	Sample type/isolated from	Wood fall in seawater
[Ref.: #62643]	Sampling date	2011
[Ref.: #62643]	Geographic location (country and/or sea, region)	Wando Island,South Sea
[Ref.: #62643]	Country	Republic of Korea
[Ref.: #62643]	Country ISO 3 Code	KOR
[Ref.: #62643]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host

#Plants

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JN247434 (>99% sequence identity) for Pseudorhodobacter wandonensis subclade from Microbeatlas

Aquatic Samples	1925
Soil Samples	112
Animal Samples	192
Plant Samples	74
Total Samples	2303

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.: #30715]	Pseudorhodobacter wandonensis strain WT-MW11 16S ribosomal RNA gene, partial sequence	JN247434	1390	GenBank	1120568 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudorhodobacter wandonensis KCTC 23672	GCA_001202035	contig	GenBank	1120568 tax ID	*
[Ref.: #66792]	Pseudorhodobacter wandonensis strain KCTC 23672	1120568.4	wgs	PATRIC	1120568 tax ID	*
[Ref.: #66792]	Pseudorhodobacter wandonensis KCTC 23672	2751185710	draft	JGI IMG/M	1120568 tax ID	*

[Ref.: #30715]

GC-content

61.6 mol%

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: Pseudorhodobacter wandonensis strain KCTC 23672 PATRIC: 1120568.4
[Ref.: #69481]	spore-forming	no	98	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudorhodobacter wandonensis strain KCTC 23672 PATRIC: 1120568.4
[Ref.: #69480]	motile	no	67.779	yes
[Ref.: #69480]	flagellated	no	90.474	yes
[Ref.: #69480]	gram-positive	no	98.8	yes
[Ref.: #69480]	anaerobic	no	98.308	no
[Ref.: #69480]	aerobic	yes	82.837	yes
[Ref.: #69480]	halophile	no	70.039	no
[Ref.: #69480]	spore-forming	no	97.615	no
[Ref.: #69480]	thermophile	no	95.288	yes
[Ref.: #69480]	glucose-util	yes	80.101	no
[Ref.: #69480]	glucose-ferment	no	89.06	no

Availability in culture collections External links

[Ref.: #30715]

Culture collection no.

KCTC 23672, CCUG 61506

[Ref.: #91621]

SI-ID 410717

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudorhodobacter sinensis sp. nov. and Pseudorhodobacter aquaticus sp. nov., isolated from crater lakes.	Li AH, Liu HC, Hou WG, Zhou YG	Int J Syst Evol Microbiol	10.1099/ijsem.0.001061	2016	*
Phylogeny	Pseudorhodobacter collinsensis sp. nov., isolated from a till sample of an icecap front.	Zhang Y, Jiang F, Chang X, Qiu X, Ren L, Qu Z, Deng S, Da X, Kan W, Kim M, Fang C, Peng F	Int J Syst Evol Microbiol	10.1099/ijsem.0.000693	2015	*
Phylogeny	Pseudorhodobacter wandonensis sp. nov., isolated from wood falls, and emended description of the genus Pseudorhodobacter.	Lee MH, Lee SY, Jung YT, Park S, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.042879-0	2012	*

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 )

#30715

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 #27046 (see below)

#62643 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 61506

#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) .

#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 )

#91621

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-ID410717.1 )

#27046

IJSEM 1479 2013 ( DOI 10.1099/ijs.0.042879-0 , PubMed 22843726 )

* These data were automatically processed and therefore are not curated

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Pseudorhodobacter wandonensis strain KCTC 23672

Pseudorhodobacter wandonensis strain KCTC 23672

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