Name: Allorhizobium pseudoryzae J3-A127
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 24482

Type strain:

Species: Allorhizobium pseudoryzae

Strain Designation: J3-A127

Variant: Isotype of BacDive ID 13644

Culture col. no.: DSM 19479, ACCC 10380, KCTC 23294

Strain history: <- X. Zhang, Agric. Cult. Coll. of China, Inst. Agric. Res. and Regional Planning, Chinese Academy of Agric. Sci., Beijing, PR China; J3-A127 <- L. Sun

NCBI tax ID(s): 379684 (species)

SI-ID 412340

DSM 19479

Special Collections

DSMZ
KCTC

Other strains from Allorhizobium pseudoryzae

Section

Allorhizobium pseudoryzae J3-A127 is a Gram-negative bacterium that was isolated from roots of fresh rice plants .

Gram-negative
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	*Allorhizobium*
	Species	**Allorhizobium pseudoryzae**
	Full Scientific Name (LPSN)	Allorhizobium pseudoryzae (Zhang et al. 2011) Mousavi et al. 2016

	Synonym	Rhizobium pseudoryzae
	Synonym	"Affinirhizobium* pseudoryzae"*

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %98.319

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21028]

Culture medium

LB (Luria-Bertani) MEDIUM (DSMZ Medium 381)

[Ref.: #21028]

Culture medium growth

[Ref.: #21028]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21028]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21028]			growth	28 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]

Ability of spore formation

no Confidence in %100

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

[Ref.: #21028]	Sample type/isolated from	roots of fresh rice plants (Oryza sativa)
[Ref.: #21028]	Host species	Oryza sativa
[Ref.: #21028]	Geographic location (country and/or sea, region)	Hebei province, Luannan County, Sangyuan, Agric. Exp. Demonstration Base
[Ref.: #21028]	Country	China
[Ref.: #21028]	Country ISO 3 Code	CHN
[Ref.: #21028]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Root (Rhizome)

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence DQ454123 (>99% sequence identity) for Rhizobium pseudoryzae from Microbeatlas

Aquatic Samples	238
Soil Samples	83
Animal Samples	166
Plant Samples	10
Total Samples	497

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

[Ref.: #21028]

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.: #21028]	Rhizobium pseudoryzae strain J3-A127 16S ribosomal RNA gene, partial sequence	DQ454123	1443	GenBank ENA	379684 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Allorhizobium pseudoryzae DSM 19479	GCA_011046245	complete	GenBank ENA	379684 tax ID	*
[Ref.: #66792]	Rhizobium pseudoryzae strain DSM 19479	379684.3	complete	PATRIC	379684 tax ID	*
[Ref.: #66792]	Rhizobium pseudoryzae DSM 19479	2738541316	draft	JGI IMG/M	379684 tax ID	*

[Ref.: #21028]	GC-content	59.5 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #21028]	GC-content	56.6 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Rhizobium pseudoryzae DSM 19479 NCBI: GCA_011046245.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Rhizobium pseudoryzae DSM 19479 NCBI: GCA_011046245.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	98.319	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	95.172	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	82.888	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.915	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	99	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	71.821	no

Availability in culture collections External links

[Ref.: #21028]

Culture collection no.

DSM 19479, ACCC 10380, KCTC 23294

[Ref.: #88343]

SI-ID 412340

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Rhizobium helianthi sp. nov., isolated from the rhizosphere of sunflower.	Wei X, Yan S, Li D, Pang H, Li Y, Zhang J	Int J Syst Evol Microbiol	10.1099/ijsem.0.000594	2015	*
Phylogeny	Rhizobium capsici sp. nov., isolated from root tumor of a green bell pepper (Capsicum annuum var. grossum) plant.	Lin SY, Hung MH, Hameed A, Liu YC, Hsu YH, Wen CZ, Arun AB, Busse HJ, Glaeser SP, Kampfer P, Young CC	Antonie Van Leeuwenhoek	10.1007/s10482-014-0371-5	2015	*
Phylogeny	Rhizobium straminoryzae sp. nov., isolated from the surface of rice straw.	Lin SY, Hsu YH, Liu YC, Hung MH, Hameed A, Lai WA, Yen WS, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.062117-0	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 paknamense sp. nov., isolated from lesser duckweeds (Lemna aequinoctialis).	Kittiwongwattana C, Thawai C	Int J Syst Evol Microbiol	10.1099/ijs.0.051888-0	2013	*
Phylogeny	Rhizobium pseudoryzae sp. nov., isolated from the rhizosphere of rice.	Zhang X, Sun L, Ma X, Sui XH, Jiang R	Int J Syst Evol Microbiol	10.1099/ijs.0.026146-0	2010	*

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 )

#21028

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 19479

#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 )

#88343

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-ID412340.1 )

* These data were automatically processed and therefore are not curated

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Rhizobium pseudoryzae DSM 19479

Rhizobium pseudoryzae DSM 19479

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