Pseudogulbenkiania subflava BP-5 | Type strain | DSM 22618, BCRC 17727, LMG 24211 | BacDiveID:10526

Strain identifier

BacDive ID: 10526

Type strain:

Species: Pseudogulbenkiania subflava

Strain Designation: BP-5

Culture col. no.: DSM 22618, BCRC 17727, LMG 24211

Strain history: <- LMG <- W.-M. Chen, Natl. Kaohsiung Marine Univ. Taiwan

NCBI tax ID(s): 1123014 (strain), 451637 (species)

SI-ID 308900

LMG 24211, BCRC 17727, DSM 22618

Section

Pseudogulbenkiania subflava BP-5 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from cold spring.

Gram-negative
motile
rod-shaped
aerobe
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	*Betaproteobacteria*
	Order	*Neisseriales*
	Family	*Chromobacteriaceae*
	Genus	*Pseudogulbenkiania*
	Species	**Pseudogulbenkiania subflava**
	Full Scientific Name (LPSN)	Pseudogulbenkiania subflava Lin et al. 2008

Information on morphological and physiological properties Morphology

[Ref.: #32601]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #32601]	Cell length	1-1.6 µm

[Ref.: #32601]	Cell width	0.2-0.5 µm

[Ref.: #32601]	Cell shape	rod-shaped

[Ref.: #32601]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %98.561

Pigment production

yes

Multimedia content

Intellectual property rights:

© Leibniz-Institut DSMZ

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Caption:

electron microscopic image

Intellectual property rights:

© HZI/Manfred Rohde

Information on culture and growth conditions Culture and growth conditions

Culture medium

R2A MEDIUM (DSMZ Medium 830)

Culture medium growth

Culture medium link

Medium recipe at MediaDive

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #16367]			growth	28 °C
[Ref.: #32601]			growth	15-42 °C
[Ref.: #32601]			optimum	25-35 °C

[Ref.: #16367]	Temperature range	mesophilic
[Ref.: #32601]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32601]			optimum	07-08
[Ref.: #32601]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

Oxygen tolerance

aerobe

[Ref.: #32601]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32601]		NaCl		growth	0-1	%

Observation

aggregates in chains

	Metabolite utilization	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32601]		alanine ChEBI	+	carbon source
[Ref.: #32601]		asparagine ChEBI	+	carbon source
[Ref.: #32601]		aspartate ChEBI	+	carbon source
[Ref.: #32601]		formate ChEBI	+	carbon source
[Ref.: #32601]		gluconate ChEBI	+	carbon source
[Ref.: #32601]		glutamate ChEBI	+	carbon source
[Ref.: #32601]		histidine ChEBI	+	carbon source
[Ref.: #32601]		lactate ChEBI	+	carbon source
[Ref.: #32601]		leucine ChEBI	+	carbon source
[Ref.: #32601]		maltose ChEBI	+	carbon source
[Ref.: #32601]		methyl pyruvate ChEBI	+	carbon source
[Ref.: #32601]		ornithine ChEBI	+	carbon source
[Ref.: #32601]		proline ChEBI	+	carbon source
[Ref.: #32601]		succinate ChEBI	+	carbon source
[Ref.: #32601]		sucrose ChEBI	+	carbon source
[Ref.: #32601]		trehalose ChEBI	+	carbon source
		Only first 10 entries are displayed. Click here to see all.

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #32601]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #16367]	Sample type/isolated from	cold spring
[Ref.: #16367]	Geographic location (country and/or sea, region)	northern Taiwan, Hsinchu County
[Ref.: #16367]	Country	Taiwan
[Ref.: #16367]	Country ISO 3 Code	TWN
[Ref.: #16367]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Spring
#Condition	#Psychrophilic (<10°C)	-

What are isolation sources categories?

Global distribution of 16S sequence EF626692 (>99% sequence identity) for Pseudogulbenkiania from Microbeatlas

Aquatic Samples	3842
Soil Samples	5496
Animal Samples	1764
Plant Samples	1368
Total Samples	12470

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

Biosafety level

1

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.: #16367]	Beta proteobacterium KMU-BP-5 16S ribosomal RNA gene, partial sequence	EF626692	1421	ENA	1123014 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudogulbenkiania subflava DSM 22618	GCA_900177275	scaffold	GenBank	1123014 tax ID	*
[Ref.: #66792]	Pseudogulbenkiania subflava DSM 22618 strain DSM 22618	1123014.3	wgs	PATRIC	1123014 tax ID	*
[Ref.: #66792]	Pseudogulbenkiania subflava DSM 22618	2568526005	draft	JGI IMG/M	1123014 tax ID	*

GC-content

63.2 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: Pseudogulbenkiania subflava DSM 22618 DSM 22618 NCBI: GCA_900177275.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudogulbenkiania subflava DSM 22618 DSM 22618 NCBI: GCA_900177275.1
[Ref.: #69480]	motile	yes	92.207	no
[Ref.: #69480]	flagellated	yes	81.567	no
[Ref.: #69480]	gram-positive	no	98.789	yes
[Ref.: #69480]	anaerobic	no	97.569	no
[Ref.: #69480]	aerobic	yes	88.047	yes
[Ref.: #69480]	halophile	no	92.462	no
[Ref.: #69480]	spore-forming	no	95.178	no
[Ref.: #69480]	thermophile	no	97.393	no
[Ref.: #69480]	glucose-util	yes	91.459	no
[Ref.: #69480]	glucose-ferment	no	87.84	no

Availability in culture collections External links

Culture collection no.

DSM 22618, BCRC 17727, LMG 24211

SI-ID 308900

*

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pseudogulbenkiania gefcensis sp. nov., isolated from soil.	Lee DG, Im DM, Kang H, Yun P, Park SK, Hyun SS, Hwang DY	Int J Syst Evol Microbiol	10.1099/ijs.0.040873-0	2012	*
Phylogeny	Pseudogulbenkiania subflava gen. nov., sp. nov., isolated from a cold spring.	Lin MC, Chou JH, Arun AB, Young CC, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.65755-0	2008	*

References

#16367

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 22618

#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 )

#32601

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 #28814 (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) .

#66793

Mukherjee et al.: GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life. 35: 676 - 683 2017 ( DOI 10.1038/nbt.3886 , PubMed 28604660 )

#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 )

#79802

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-ID308900.1 )

#28814

IJSEM 2384 2008 ( DOI 10.1099/ijs.0.65755-0 , PubMed 18842860 )

* These data were automatically processed and therefore are not curated

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