Name: Advenella kashmirensis WT001
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 383

Type strain:

Species: Advenella kashmirensis

Strain Designation: WT001

Culture col. no.: DSM 17095, LMG 22965, MTCC 7002

Strain history: <- P. Roy <- W. Ghosh; WT001

NCBI tax ID(s): 310575 (species)

SI-ID 135988

LMG 22695, DSM 17095, LMG 22965

Other strains from Advenella kashmirensis

A. kashmirensis WGT, DSM 17096, LMG 22696

Section

Advenella kashmirensis WT001 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from bulk soil of a temperate orchard.

coccus-shaped
Gram-negative
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	*Burkholderiales*
	Family	*Alcaligenaceae*
	Genus	*Advenella*
	Species	**Advenella kashmirensis**
	Full Scientific Name (LPSN)	Advenella kashmirensis (Ghosh et al. 2005) Gibello et al. 2009

Synonym

Tetrathiobacter kashmirensis

Information on morphological and physiological properties Morphology

[Ref.: #31452]	Gram stain	negative

[Ref.: #31452]	Cell length	1.4 µm

[Ref.: #31452]	Cell width	1.05 µm

[Ref.: #31452]	Cell shape	coccus-shaped

[Ref.: #31452]	Motility	no

[Ref.: #31452]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6757]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #6757]

Culture medium growth

[Ref.: #6757]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6757]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6757]	growth	28 °C
[Ref.: #31452]	growth	10-42 °C
[Ref.: #31452]	optimum	26 °C

[Ref.: #6757]	Temperature range	mesophilic
[Ref.: #31452]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31452]			optimum	6.5
[Ref.: #31452]			growth	4.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6757]

Oxygen tolerance

aerobe

[Ref.: #31452]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31452]	acetate ChEBI	+	carbon source
[Ref.: #31452]	arabinose ChEBI	+	carbon source
[Ref.: #31452]	arginine ChEBI	+	carbon source
[Ref.: #31452]	aspartate ChEBI	+	carbon source
[Ref.: #31452]	citrate ChEBI	+	carbon source
[Ref.: #31452]	D-tryptophan ChEBI	+	carbon source
[Ref.: #31452]	fructose ChEBI	+	carbon source
[Ref.: #31452]	galactose ChEBI	+	carbon source
[Ref.: #31452]	glucose ChEBI	+	carbon source
[Ref.: #31452]	glutamate ChEBI	+	carbon source
[Ref.: #31452]	lactose ChEBI	+	carbon source
[Ref.: #31452]	malate ChEBI	+	carbon source
[Ref.: #31452]	maltose ChEBI	+	carbon source
[Ref.: #31452]	mannose ChEBI	+	carbon source
[Ref.: #31452]	nitrate ChEBI	+	reduction
[Ref.: #31452]	succinate ChEBI	+	carbon source
[Ref.: #31452]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #31452]	catalase	+	1.11.1.6
[Ref.: #31452]	cytochrome oxidase	+	1.9.3.1
[Ref.: #31452]	urease	+	3.5.1.5

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

[Ref.: #6757]	Sample type/isolated from	bulk soil of a temperate orchard
[Ref.: #6757]	Geographic location (country and/or sea, region)	Srinagar, Jammu and Kashmir
[Ref.: #6757]	Country	India
[Ref.: #6757]	Country ISO 3 Code	IND
[Ref.: #6757]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Grove (Orchard)
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AJ864470 (>99% sequence identity) for Advenella from Microbeatlas

Aquatic Samples	378
Soil Samples	822
Animal Samples	766
Plant Samples	491
Total Samples	2457

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

[Ref.: #6757]

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.: #6757]	Tetrathiobacter kashmirensis 16S rRNA gene, type strain WT001T	AJ864470	1467	ENA	310575 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Advenella kashmirensis WT001	GCA_000219915	complete	GenBank	1036672 tax ID	*
[Ref.: #66792]	Advenella kashmirensis WT001	1036672.3	wgs	PATRIC	1036672 tax ID	*
[Ref.: #66792]	Advenella kashmirensis WT001	1036672.20	plasmid	PATRIC	1036672 tax ID	*
[Ref.: #66792]	Advenella kashmirensis WT001	2515154053	complete	JGI IMG/M	1036672 tax ID	*

[Ref.: #31452]

GC-content

55.1 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Advenella kashmirensis WT001 WT001 NCBI: GCA_000219915.3
[Ref.: #69480]	motile	no	77.488	no
[Ref.: #69480]	flagellated	no	96.208	no
[Ref.: #69480]	gram-positive	no	98.119	yes
[Ref.: #69480]	anaerobic	no	99.416	no
[Ref.: #69480]	aerobic	yes	94.01	yes
[Ref.: #69480]	halophile	no	77.461	no
[Ref.: #69480]	spore-forming	no	96.751	no
[Ref.: #69480]	thermophile	no	99.677	no
[Ref.: #69480]	glucose-util	yes	54.65	no
[Ref.: #69480]	glucose-ferment	no	89.789	no

Availability in culture collections External links

[Ref.: #6757]

Culture collection no.

DSM 17095, LMG 22965, MTCC 7002

[Ref.: #70063]

SI-ID 135988

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Advenella alkanexedens sp. nov., an alkane-degrading bacterium isolated from biogas slurry samples.	Wang H, Zhou S, Wang Y, Kong D, Guo X, Zhu J, Dong W, Ruan Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.000811	2015	*
Phylogeny	[Advenella kashmirensis subsp. methylica PK1, a facultative methylotroph from carex rhizosphere].	Poroshina MN, Doronina NV, Kaparullina EN, Trotsenko IuA	Mikrobiologiia		2015	*
Enzymology	Optimization of a phenol extraction-based protein preparation method amenable to downstream 2DE and MALDI-MS based analysis of bacterial proteomes.	Alam M, Ghosh W	Proteomics	10.1002/pmic.201300146	2014	*
Enzymology	Identification of 3-sulfinopropionyl coenzyme A (CoA) desulfinases within the Acyl-CoA dehydrogenase superfamily.	Schurmann M, Demming RM, Krewing M, Rose J, Wubbeler JH, Steinbuchel A	J Bacteriol	10.1128/JB.01265-13	2013	*
Genetics	Genome implosion elicits host-confinement in Alcaligenaceae: evidence from the comparative genomics of Tetrathiobacter kashmirensis, a pathogen in the making.	Ghosh W, Alam M, Roy C, Pyne P, George A, Chakraborty R, Majumder S, Agarwal A, Chakraborty S, Majumdar S, Gupta SK	PLoS One	10.1371/journal.pone.0064856	2013	*
Phylogeny	Advenella faeciporci sp. nov., a nitrite-denitrifying bacterium isolated from nitrifying-denitrifying activated sludge collected from a laboratory-scale bioreactor treating piggery wastewater.	Matsuoka M, Park S, An SY, Miyahara M, Kim SW, Kamino K, Fushinobu S, Yokota A, Wakagi T, Shoun H	Int J Syst Evol Microbiol	10.1099/ijs.0.037440-0	2012	*
Phylogeny	Reclassification of the members of the genus Tetrathiobacter Ghosh et al. 2005 to the genus Advenella Coenye et al. 2005.	Gibello A, Vela AI, Martin M, Barra-Caracciolo A, Grenni P, Fernandez-Garayzabal JF	Int J Syst Evol Microbiol	10.1099/ijs.0.007443-0	2009	*
Phylogeny	Tetrathiobacter kashmirensis gen. nov., sp. nov., a novel mesophilic, neutrophilic, tetrathionate-oxidizing, facultatively chemolithotrophic betaproteobacterium isolated from soil from a temperate orchard in Jammu and Kashmir, India.	Ghosh W, Bagchi A, Mandal S, Dam B, Roy P	Int J Syst Evol Microbiol	10.1099/ijs.0.63595-0	2005	*

References

#6757

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17095

#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 )

#31452

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 #27755 (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) .

#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) .

#70063

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-ID135988.1 )

#27755

IJSEM 1779 2005 ( DOI 10.1099/ijs.0.63595-0 , PubMed 16166666 )

* These data were automatically processed and therefore are not curated

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Advenella kashmirensis WT001 WT001

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