Name: Kaistia defluvii B6-12
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 133806

Type strain:

Species: Kaistia defluvii

Strain Designation: B6-12

Culture col. no.: KCTC 23766, JCM 18034

Strain history: <- L Jin, KRIBB

NCBI tax ID(s): 410841 (species)

Special Collections

Section

Kaistia defluvii B6-12 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from freshwater 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	09-12-2024 (DD-MM-YYYY)
	Domain	*Bacteria*
	Phylum	*Pseudomonadota*
	Class	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Kaistiaceae*
	Genus	*Kaistia*
	Species	**Kaistia defluvii**
	Full Scientific Name (LPSN)	Kaistia defluvii Jin et al. 2012

Information on morphological and physiological properties Morphology

[Ref.: #30558]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %98.486

[Ref.: #30558]	Cell length	1.5 µm

[Ref.: #30558]	Cell width	0.65 µm

[Ref.: #30558]	Cell shape	rod-shaped

[Ref.: #30558]	Motility	no

[Ref.: #30558]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #30558]	growth	10-30 °C
[Ref.: #30558]	optimum	29 °C
[Ref.: #67770]	growth	30 °C
[Ref.: #67771]	growth	30 °C

	pH	Kind of pH		pH
[Ref.: #30558]			optimum	7.5
[Ref.: #30558]			growth	06-09

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30558]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30558]		NaCl		growth	0-1	%

[Ref.: #67770]

Observation

quinones: Q-10

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30558]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #30558]	5-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #30558]	arabinose ChEBI	+	carbon source
[Ref.: #30558]	esculin ChEBI	+	hydrolysis
[Ref.: #30558]	fucose ChEBI	+	carbon source
[Ref.: #30558]	glucose ChEBI	+	carbon source
[Ref.: #30558]	lactate ChEBI	+	carbon source
[Ref.: #30558]	maltose ChEBI	+	carbon source
[Ref.: #30558]	mannitol ChEBI	+	carbon source
[Ref.: #30558]	mannose ChEBI	+	carbon source
[Ref.: #30558]	melibiose ChEBI	+	carbon source
[Ref.: #30558]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #30558]	nitrate ChEBI	+	reduction
[Ref.: #30558]	phenylacetate ChEBI	+	carbon source
[Ref.: #30558]	rhamnose ChEBI	+	carbon source
[Ref.: #30558]	ribose ChEBI	+	carbon source
[Ref.: #30558]	salicin ChEBI	+	carbon source
[Ref.: #30558]	sorbitol ChEBI	+	carbon source
[Ref.: #30558]	sucrose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #30558]	catalase	+	1.11.1.6
[Ref.: #30558]	cytochrome oxidase	+	1.9.3.1
[Ref.: #30558]	urease	+	3.5.1.5

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

[Ref.: #30558]	Sample type/isolated from	freshwater sediment (river, lake, pond)

[Ref.: #67770]	Sample type/isolated from	Sediment collected from the River Geumho
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	Daegu
[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	#Aquatic	#Freshwater
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Pond (small)
#Environmental	#Aquatic	#River (Creek)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM409365 (>99% sequence identity) for Kaistia from Microbeatlas

Aquatic Samples	825
Soil Samples	656
Animal Samples	306
Plant Samples	131
Total Samples	1918

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.: #30558]	Kaistia defluvii partial 16S rRNA gene, type strain B6-12T	AM409365	1456	GenBank ENA	410841 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Kaistia defluvii JCM 18034	GCA_026343955	contig	GenBank ENA	410841 tax ID	*

[Ref.: #30558]	GC-content	63 mol%
[Ref.: #67770]	GC-content	63 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 Diaspora project based on: Kaistia defluvii JCM 18034 NCBI: GCA_026343955.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.486	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	98.495	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	84.422	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	84.463	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.574	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	70.954	yes

Availability in culture collections External links

[Ref.: #30558]

Culture collection no.

KCTC 23766, JCM 18034

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Kaistia algarum sp. nov., isolated from a freshwater green alga Paulinella chromatophora.	Lee Y, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.002943	2018	*
Phylogeny	Kaistia defluvii sp. nov., isolated from river sediment.	Jin L, Kim KK, Lee HG, Ahn CY, Oh HM	Int J Syst Evol Microbiol	10.1099/ijs.0.038687-0	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 )

#30558

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 #26889 (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;

#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) .

#26889

IJSEM 2878 2012 ( DOI 10.1099/ijs.0.038687-0 , PubMed 22247212 )

* These data were automatically processed and therefore are not curated

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Kaistia defluvii JCM 18034

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