Name: Pseudorhizobium tarimense PL-41
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 132917

Type strain:

Species: Pseudorhizobium tarimense

Strain Designation: PL-41

Culture col. no.: DSM 105042, CCTCC AB 2011011, NRRL B-59556

Strain history: <- NRRL; NRRL B-59556 <- E. Rahman, Wuhan Univ., China; PL-41

NCBI tax ID(s): 1079109 (species)

SI-ID 404301

DSM 105042

Section

Pseudorhizobium tarimense PL-41 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from forest soil Populus euphratica.

Gram-negative
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	*Alphaproteobacteria*
	Order	*Hyphomicrobiales*
	Family	*Rhizobiaceae*
	Genus	*Pseudorhizobium*
	Species	**Pseudorhizobium tarimense**
	Full Scientific Name (LPSN)	Pseudorhizobium tarimense (Turdahon et al. 2013) Kuzmanovi? et al. 2022

Synonym

Rhizobium tarimense

Information on morphological and physiological properties Morphology

[Ref.: #30693]	Gram stain	negative

[Ref.: #30693]	Cell shape	rod-shaped

[Ref.: #30693]	Motility	no

[Ref.: #30693]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #24705]

Culture medium

RHIZOBIUM MEDIUM (DSMZ Medium 98)

[Ref.: #24705]

Culture medium growth

[Ref.: #24705]

Culture medium link

Medium recipe at MediaDive

[Ref.: #24705]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #24705]	growth	30 °C
[Ref.: #30693]	growth	20-37 °C
[Ref.: #30693]	optimum	30 °C

[Ref.: #24705]	Temperature range	mesophilic
[Ref.: #30693]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #30693]			optimum	7.5
[Ref.: #30693]			growth	5.5-8.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30693]

Oxygen tolerance

aerobe

[Ref.: #30693]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #30693]		NaCl		growth	0-3	%
[Ref.: #30693]		NaCl		optimum	0.25	%

[Ref.: #30693]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30693]	2-dehydro-D-gluconate ChEBI	+	carbon source
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30693]	arabinose ChEBI	+	carbon source
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30693]	cellobiose ChEBI	+	carbon source
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #30693]	esculin ChEBI	+	hydrolysis
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #30693]	fructose ChEBI	+	carbon source
[Ref.: #30693]	fucose ChEBI	+	carbon source
[Ref.: #30693]	galactose ChEBI	+	carbon source
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #30693]	gluconate ChEBI	+	carbon source
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #30693]	glucose ChEBI	+	carbon source
[Ref.: #68369]	L-arabinose ChEBI	+	assimilation	* from API 20NE
[Ref.: #30693]	L-arabitol ChEBI	+	carbon source
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #30693]	mannitol ChEBI	+	carbon source
[Ref.: #30693]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #68369]	N-acetylglucosamine ChEBI	+	assimilation	* from API 20NE
[Ref.: #30693]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #30693]	rhamnose ChEBI	+	carbon source
[Ref.: #30693]	ribitol ChEBI	+	carbon source
[Ref.: #30693]	ribose ChEBI	+	carbon source
[Ref.: #30693]	trehalose ChEBI	+	carbon source
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #30693]	xylitol ChEBI	+	carbon source
[Ref.: #30693]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #30693]	acid phosphatase	+	3.1.3.2
[Ref.: #30693]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #30693]	catalase	+	1.11.1.6
[Ref.: #30693]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #30693]	urease	+	3.5.1.5
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #24705]	24591	-	-	-	-	+	+	-	+	+	+	+	+	+	-	+	-	-	-	-	-	+

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

[Ref.: #24705]	Sample type/isolated from	forest soil Populus euphratica
[Ref.: #24705]	Host species	Populus euphratica
[Ref.: #24705]	Geographic location (country and/or sea, region)	ancient Khiyik River valley, Xinjiang Uyghur Autonomous Region
[Ref.: #24705]	Country	China
[Ref.: #24705]	Country ISO 3 Code	CHN
[Ref.: #24705]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil
#Host	#Plants	#Tree

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence HM371420 (>99% sequence identity) for Rhizobium tarimense subclade from Microbeatlas

Aquatic Samples	35
Soil Samples	18
Animal Samples	22
Plant Samples	54
Total Samples	129

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

[Ref.: #24705]

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.: #24705]	Rhizobium tarimense strain PL-41 16S ribosomal RNA gene, partial sequence	HM371420	1444	ENA	1079109 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Rhizobium tarimense DSM 105042	2928180846	draft	JGI IMG/M	1079109 tax ID	*
[Ref.: #66792]	Rhizobium tarimense CCTCC AB 2011011	2738541320	draft	JGI IMG/M	1079109 tax ID	*

[Ref.: #24705]

GC-content

57.8 mol%

Availability in culture collections External links

[Ref.: #24705]

Culture collection no.

DSM 105042, CCTCC AB 2011011, NRRL B-59556

[Ref.: #91194]

SI-ID 404301

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhizobium pakistanensis sp. nov., isolated from groundnut (Arachis hypogaea) nodules grown in rainfed Pothwar, Pakistan.	Khalid R, Zhang YJ, Ali S, Sui XH, Zhang XX, Amara U, Chen WX, Hayat R	Antonie Van Leeuwenhoek	10.1007/s10482-014-0326-x	2014	*
Phylogeny	Rhizobium lemnae sp. nov., a bacterial endophyte of Lemna aequinoctialis.	Kittiwongwattana C, Thawai C	Int J Syst Evol Microbiol	10.1099/ijs.0.061622-0	2014	*
Phylogeny	Rhizobium tarimense sp. nov., isolated from soil in the ancient Khiyik River.	Turdahon M, Osman G, Hamdun M, Yusuf K, Abdurehim Z, Abaydulla G, Abdukerim M, Fang C, Rahman E	Int J Syst Evol Microbiol	10.1099/ijs.0.042176-0	2012	*
Phylogeny	Rhizobium oryzicola sp. nov., potential plant-growth-promoting endophytic bacteria isolated from rice roots.	Zhang XX, Gao JS, Cao YH, Sheirdil RA, Wang XC, Zhang L	Int J Syst Evol Microbiol	10.1099/ijs.0.000358	2015	*

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 )

#24705

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 105042

#30693

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 #27024 (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) .

#68369

Automatically annotated from API 20NE .

#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 .

#91194

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-ID404301.1 )

#27024

IJSEM 2424 2013 ( DOI 10.1099/ijs.0.042176-0 , PubMed 23203621 )

* These data were automatically processed and therefore are not curated

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