Rhizobium phaseoli (DSM 30137, ATCC 14482, JCM 20683)

Name: Rhizobium phaseoli (DSM 30137, ATCC 14482, JCM 20683)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 13609

Type strain

Strain Designation 3I6c15, 316c15

Culture col. no. DSM 30137 ATCC 14482 JCM 20683 NBRC 14785 NRRL L-321 7 more

NCBI tax ID(s) 396

Special Collections DSMZ JCM CIP

History <- ATCC <- U. M. Means, USDA, 3I6c15 IAM 12612 <-- ATCC 14482 <-- U. M. Means 3I6c15. CIP <- 2002, P. De Lajudie, Montpellier, France: strain ORS 662 <- LMG <- 1989, ATCC, Rhizobium leguminosarum biovar phaseoli <- U. Means, Rhizobium phaseoli, USDA: strain 316c15

Links

Rhizobium phaseoli 3I6c15 is a Gram-negative, motile, rod-shaped bacterium of the family Rhizobiaceae.

Gram-negative motile rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 265209

LMG 8819,ATCC 14482,DSM 30137,IFO 14785,IAM 12612,VKM B-1966,CECT 4115,CCRC 13520,CCT 4168,KCTC 2352,NBRC 14785,NRRL L-321,BCRC 13520,CCT 5088,KACC 10740,JCM 20683,CIP 107329

@ref 20215

Last LPSN update 2026-02-09 11:21:11

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Rhizobium

Species Rhizobium phaseoli

Full scientific name Rhizobium phaseoli Dangeard 1926 (Approved Lists 1980)

BacDive ID	Other strains from **Rhizobium phaseoli** (2)	Type strain
13607	R. phaseoli DSM 1979, TAL 1383
13608	R. phaseoli 3I6c14, DSM 6038, ATCC 14483

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
121793	negative	rod-shaped
125439	negative		98
125438	negative		98.833

Colony morphology

9158

Incubation period1-2 days

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
9158	RHIZOBIUM MEDIUM (DSMZ Medium 98)	Medium recipe at MediaDive	Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water
38201	MEDIUM 296 - for Rhizobium		Distilled water make up to (800.000 ml);Agar (15.000 g);Yeast extract (1.000 g);Mannitol (10.000 g);Earth extract - M0541 (200.000 ml)
121793	CIP Medium 296	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
9158	positive	growth	26
38201	positive	growth	30
67770	positive	growth	25
121793	positive	growth	25-37
121793	negative	growth	10
121793	negative	growth	41
121793	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	aerobe	95.4

Spore formation

@ref	Spore formation	Confidence
125439		97.1

Halophily

@ref	Salt	Growth	Tested relation	Concentration
121793	NaCl	positive	growth	0 %
121793	NaCl		growth	2 %
121793	NaCl		growth	4 %
121793	NaCl		growth	6 %
121793	NaCl		growth	8 %
121793	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68369	17128 ChEBI	adipate	-	assimilation	from API 20NE
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68369	29016 ChEBI	arginine	-	hydrolysis	from API 20NE
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
121793	16947 ChEBI	citrate	-	carbon source
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	15824 ChEBI	D-fructose	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	17634 ChEBI	D-glucose	-	builds acid from	from API 50CH acid
68369	17634 ChEBI	D-glucose	-	fermentation	from API 20NE
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68369	27689 ChEBI	decanoate	-	assimilation	from API 20NE
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
121793	4853 ChEBI	esculin	+	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68369	5291 ChEBI	gelatin	-	hydrolysis	from API 20NE
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	28087 ChEBI	glycogen	-	builds acid from	from API 50CH acid
121793	606565 ChEBI	hippurate	-	hydrolysis
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
121793	17632 ChEBI	nitrate	-	reduction
68369	17632 ChEBI	nitrate	-	reduction	from API 20NE
121793	16301 ChEBI	nitrite	-	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68369	27897 ChEBI	tryptophan	-	energy source	from API 20NE
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68369	16199 ChEBI	urea	+	hydrolysis	from API 20NE
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
121793	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
68369	35581 ChEBI	indole		from API 20NE
121793	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test	Voges-proskauer-test	Methylred-test
121793	15688 ChEBI	acetoin		-
121793	17234 ChEBI	glucose			-
68369	35581 ChEBI	indole	-			from API 20NE

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
121793	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68369	arginine dihydrolase	-	3.5.3.6	from API 20NE
68382	beta-galactosidase	+	3.2.1.23	from API zym
121793	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	+	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
9158	catalase	+	1.11.1.6
121793	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68369	cytochrome oxidase	+	1.9.3.1	from API 20NE
9158	cytochrome-c oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	-		from API zym
121793	gamma-glutamyltransferase	-	2.3.2.2
121793	gelatinase	-
68369	gelatinase	-		from API 20NE
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
121793	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
121793	ornithine decarboxylase	-	4.1.1.17
121793	oxidase	-
121793	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
121793	tryptophan deaminase	-
121793	urease	+	3.5.1.5
68369	urease	+	3.5.1.5	from API 20NE
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
121793	-	+	+	-	-	+	-	-	-	-	+	+	-	+	-	+	+	+	-	-

API 20NE

@ref	Reduction of nitratesNO3	TRP	GLU_ Ferm	ADH (Arg)	URE	ESC	GEL	PNPG	GLU_ Assim	ARA	MNE	MAN	NAG	MAL	GNT	CAP	ADI	MLT	CIT	PAC	OX
9158	-	-	-	-	+	-	-	+	+/-	+/-	+/-	+/-	+/-	+/-	+/-	-	-	+/-	-	-	+
9158	-	-	-	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	not determinedn.d.

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
121793	not determinedn.d.	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+/-

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
38201		Beltsville, MD	USA	USA	North America
67770	Plant-derived foodstuff (garden beans)	Beltsville, MD	USA	USA	North America
121793	Garden beans	Beltsville, Maryland	United States of America	USA	North America

Taxonmaps

69479

Global distribution of 16S sequence EF141340 (>99% sequence identity) for Rhizobium from Microbeatlas

Aquatic Samples	32
Soil Samples	50
Animal Samples	28
Plant Samples	223
Total Samples	333

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
9158	1	Risk group (German classification) According to TRBA 466
121793	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score	IMG accession
66792	Rhizobium phaseoli DSM 30137	complete			396	82.69	2738541346
67770	ASM398512v1 assembly for Rhizobium phaseoli ATCC 14482	scaffold	GCA_003985125	396.115	396	63.45

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Rhizobium phaseoli strain ATCC 14482 16S ribosomal RNA gene, partial sequence	EF141340	1477	396
20218	Rhizobium phaseoli strain ATCC 14482 16S-23S ribosomal RNA intergenic spacer, partial sequence	EF141341	1091	396
20218	Rhizobium leguminosarum strain CCT 4168T 16S-23S ribosomal DNA intergenic spacer region, 3' end	AF091788	784	384
20218	Rhizobium leguminosarum strain CCT 4168T 16S-23S ribosomal DNA intergenic spacer region, 5' end	AF091789	743	384
20218	R.leguminosarum (LMG 8819) 16S rRNA gene	X77122	1099	384
20218	Rhizobium phaseoli gene for 16S rRNA, partial sequence, strain: NBRC 14785	AB680664	1406	396
124043	Rhizobium phaseoli strain ATCC 14482 16S ribosomal RNA gene, partial sequence.	PV800216	1477	396
124043	Rhizobium phaseoli strain ATCC 14482 16S ribosomal RNA gene, partial sequence.	PV574229	1477	396

GC content

9158

GC-content (mol%)59.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhizobium phaseoli ATCC 14482
NCBI: GCA_003985125

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	97.10	no
125439	motility	BacteriaNetⓘ	yes	57.80	no
125439	gram_stain	BacteriaNetⓘ	negative	98.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	95.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhizobium phaseoli strain ATCC 14482
PATRIC: 396.115

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.83	no
125438	anaerobic	anaerobicⓘ	no	94.93	no
125438	spore-forming	spore-formingⓘ	no	89.24	no
125438	aerobic	aerobicⓘ	yes	86.82	no
125438	thermophilic	thermophileⓘ	no	99.75	yes
125438	flagellated	motile2+ⓘ	yes	72.01	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Characterization of drought stress-mitigating Rhizobium from faba bean (Vicia faba L.) in the Chinese Qinghai-Tibet Plateau.	Li P, Teng C, Zhang J, Liu Y, Wu X, He T.	Front Microbiol	10.3389/fmicb.2023.1212996	2023
	Phylogeographic distribution of rhizobia nodulating common bean (Phaseolus vulgaris L.) in Ethiopia.	Hailu Gunnabo A, Geurts R, Wolde-Meskel E, Degefu T, Giller KE, van Heerwaarden J.	FEMS Microbiol Ecol	10.1093/femsec/fiab046	2021
	Formulation of a Highly Effective Inoculant for Common Bean Based on an Autochthonous Elite Strain of Rhizobium leguminosarum bv. phaseoli, and Genomic-Based Insights Into Its Agronomic Performance.	Pastor-Bueis R, Sanchez-Canizares C, James EK, Gonzalez-Andres F.	Front Microbiol	10.3389/fmicb.2019.02724	2019
Phylogeny	Estimating Divergence Times and Substitution Rates in Rhizobia.	Chriki-Adeeb R, Chriki A.	Evol Bioinform Online	10.4137/ebo.s39070	2016
Genetics	Computational inference of Rhizobium phaseoli transcriptional regulatory network predicts Transcription Factors involved in nodulation.	Hernandez-Benitez EM, Martinez-Romero E, Aguirre-Noyola JL, Farias-Rico JA, Ledezma-Tejeida D.	Brief Funct Genomics	10.1093/bfgp/elaf020	2025
	Microbial inoculants - fostering sustainability in groundnut production.	Krishnan KS, Rangasamy A, Arunan YE, Dananjeyan B, Subramanium T, Saminathan V.	Sci Prog	10.1177/00368504251338943	2025
	Non-rhizobial endophyte recruitment and diversity in Pisum sativum are strongly shaped by phosphorus fertilizer form.	Thaqi SK, Hensel N, Vitow N, Baum C, Streb LM, Kublik S, Leinweber P, Panten K, Schloter M, Schulz S.	Environ Microbiome	10.1186/s40793-025-00751-0	2025
Phylogeny	Unearthing Optimal Symbiotic Rhizobia Partners from the Main Production Area of Phaseolus vulgaris in Yunnan.	Zhang J, Wang J, Feng Y, Brunel B, Zong X.	Int J Mol Sci	10.3390/ijms25158511	2024
Pathogenicity	Guidelines for the description of rhizobial symbiovars.	Martinez-Romero E, Peix A, Hungria M, Mousavi SA, Martinez-Romero J, Young P.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006373	2024
	Complete Genome Sequence of Rhizobium phaseoli Podophage Palo.	Nabhani A, Rushing L, Newkirk H, Burrowes B, Young R, Gonzalez C.	Microbiol Resour Announc	10.1128/mra.01443-20	2021
	Seed Inoculation and Foliar Application of Micronutrients Improve the Yield and Quality of Pinto Bean.	Taghvaei M, Nikouei A, Fazaeli M, Hemmati A, Mastinu A.	Plant Environ Interact	10.1002/pei3.70061	2025
	Evaluation of possible biological control of Fusarium concentricum sp. using plant extracts and antagonistic species of microbes in vitro.	Hasan MF, Islam MA, Sikdar B.	F1000Res	10.12688/f1000research.27098.2	2020
	Transcriptomic Responses of Rhizobium phaseoli to Root Exudates Reflect Its Capacity to Colonize Maize and Common Bean in an Intercropping System.	Aguirre-Noyola JL, Rosenblueth M, Santiago-Martinez MG, Martinez-Romero E.	Front Microbiol	10.3389/fmicb.2021.740818	2021
	Identification and Characterization of Common Bean (Phaseolus vulgaris) Non-Nodulating Mutants Altered in Rhizobial Infection.	Reyero-Saavedra R, Fuentes SI, Leija A, Jimenez-Nopala G, Pelaez P, Ramirez M, Girard L, Porch TG, Hernandez G.	Plants (Basel)	10.3390/plants12061310	2023
	Metatranscriptomics and nitrogen fixation from the rhizoplane of maize plantlets inoculated with a group of PGPRs.	Gomez-Godinez LJ, Fernandez-Valverde SL, Martinez Romero JC, Martinez-Romero E.	Syst Appl Microbiol	10.1016/j.syapm.2019.05.003	2019
Genetics	Deciphering the potential of a plant growth promoting endophyte Rhizobium sp. WYJ-E13, and functional annotation of the genes involved in the metabolic pathway.	Huang X, Zeng Z, Chen Z, Tong X, Jiang J, He C, Xiang T.	Front Microbiol	10.3389/fmicb.2022.1035167	2022
Metabolism	A Tar aspartate receptor and Rubisco-like protein substitute biotin in the growth of rhizobial strains.	Vargas-Lagunas C, Mora Y, Aguilar A, Reyes-Gonzalez AR, Arteaga-Ide A, Dunn MF, Encarnacion S, Girard L, Peralta H, Mora J.	Microbiology (Reading)	10.1099/mic.0.001130	2022
	The Absence of Phasins PhbP2 and PhbP3 in Azotobacter vinelandii Determines the Growth and Poly-3-hydroxybutyrate Synthesis.	Aguirre-Zapata C, Segura D, Ruiz J, Galindo E, Perez A, Diaz-Barrera A, Pena C.	Polymers (Basel)	10.3390/polym16202897	2024
Phylogeny	First report of Serratia marcescens associated with black rot of Citrus sinensis fruit , and evaluation of its biological control measures in Bangladesh.	Hasan MF, Islam MA, Sikdar B.	F1000Res	10.12688/f1000research.27657.2	2020
	The Cell Membrane of a Novel Rhizobium phaseoli Strain Is the Crucial Target for Aluminium Toxicity and Tolerance.	Wekesa C, Muoma JO, Reichelt M, Asudi GO, Furch ACU, Oelmuller R.	Cells	10.3390/cells11050873	2022
	Long-term push-pull cropping system shifts soil and maize-root microbiome diversity paving way to resilient farming system.	Jalloh AA, Khamis FM, Yusuf AA, Subramanian S, Mutyambai DM.	BMC Microbiol	10.1186/s12866-024-03238-z	2024
Phylogeny	Genomic insight into the taxonomy of Rhizobium genospecies that nodulate Phaseolus vulgaris.	Tong W, Li X, Huo Y, Zhang L, Cao Y, Wang E, Chen W, Tao S, Wei G.	Syst Appl Microbiol	10.1016/j.syapm.2018.03.001	2018
	Influence of organic acids on pentlandite bioleaching by Acidithiobacillus ferrooxidans LR.	Giese EC.	3 Biotech	10.1007/s13205-021-02711-0	2021
Pathogenicity	Synergy between Rhizobium phaseoli and Acidithiobacillus ferrooxidans in the Bioleaching Process of Copper.	Zheng X, Li D.	Biomed Res Int	10.1155/2016/9384767	2016
	Rhizobial, passenger nodule endophytes and phyllosphere bacteria in combination with acyl homoserine lactones enhances the growth and yield of groundnut.	Madhan S, Arunan YE, Rangasamy A, Dananjeyan B, Iruthayasamy J, Gajendiran M, Ramasamy K, Rajasekaran R, Saminathan V.	Biotechnol Rep (Amst)	10.1016/j.btre.2025.e00893	2025
Genetics	Isolation and Characterization of High-Efficiency Rhizobia From Western Kenya Nodulating With Common Bean.	Wekesa CS, Furch ACU, Oelmuller R.	Front Microbiol	10.3389/fmicb.2021.697567	2021
	Mechanistic Analysis of the VirA Sensor Kinase in Agrobacterium tumefaciens Using Structural Models.	Swackhammer A, Provencher EAP, Donkor AK, Garofalo J, Dowling S, Garchitorena K, Phyo A, Ramirez Veliz N, Karen M, Kwon A, Diep R, Norris M, Safo MK, Pierce BD.	Front Microbiol	10.3389/fmicb.2022.898785	2022
	Exo-Metabolites of Phaseolus vulgaris-Nodulating Rhizobial Strains.	Montes-Grajales D, Esturau-Escofet N, Esquivel B, Martinez-Romero E.	Metabolites	10.3390/metabo9060105	2019
	Characterization of larval gut microbiota of two endoparasitoid wasps associated with their common host, Plutella xylostella (Linnaeus) (Lepidoptera: Plutellidae).	Hu N-n, Wang Z-q, Zhang S-j, Wang Z-z, Chen X-x.	Microbiol Spectr	10.1128/spectrum.01208-24	2024
	Selected indigenous drought tolerant rhizobium strains as promising biostimulants for common bean in Northern Spain.	Del-Canto A, Sanz-Saez A, Sillero-Martinez A, Mintegi E, Lacuesta M.	Front Plant Sci	10.3389/fpls.2023.1046397	2023
Phylogeny	Analysis of rhizobial strains nodulating Phaseolus vulgaris from Hispaniola Island, a geographic bridge between Meso and South America and the first historical link with Europe.	Diaz-Alcantara CA, Ramirez-Bahena MH, Mulas D, Garcia-Fraile P, Gomez-Moriano A, Peix A, Velazquez E, Gonzalez-Andres F.	Syst Appl Microbiol	10.1016/j.syapm.2013.09.005	2014
Transcriptome	Transcriptomic Response of Rhizobium leguminosarum to Acidic Stress and Nutrient Limitation Is Versatile and Substantially Influenced by Extrachromosomal Gene Pool.	Zebracki K, Koper P, Wojcik M, Marczak M, Mazur A.	Int J Mol Sci	10.3390/ijms252111734	2024
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Phylogeny	Novel Rhizobium lineages isolated from root nodules of the common bean (Phaseolus vulgaris L.) in Andean and Mesoamerican areas.	Ribeiro RA, Ormeno-Orrillo E, Dall'Agnol RF, Graham PH, Martinez-Romero E, Hungria M.	Res Microbiol	10.1016/j.resmic.2013.05.002	2013
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Phylogeny	Genetic diversity and symbiotic effectiveness of Phaseolus vulgaris-nodulating rhizobia in Kenya.	Mwenda GM, O'Hara GW, De Meyer SE, Howieson JG, Terpolilli JJ.	Syst Appl Microbiol	10.1016/j.syapm.2018.02.001	2018
Enzymology	Crystal structure of L-2-keto-3-deoxyfuconate 4-dehydrogenase reveals a unique binding mode as a alpha-furanosyl hemiketal of substrates.	Akagashi M, Watanabe S, Kwiatkowski S, Drozak J, Terawaki SI, Watanabe Y.	Sci Rep	10.1038/s41598-024-65627-8	2024
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Phylogeny	Phylogeny and genetic diversity of native rhizobia nodulating common bean (Phaseolus vulgaris L.) in Ethiopia.	Aserse AA, Rasanen LA, Assefa F, Hailemariam A, Lindstrom K.	Syst Appl Microbiol	10.1016/j.syapm.2011.11.005	2012
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Genetics	Genomic basis of symbiovar mimosae in Rhizobium etli.	Rogel MA, Bustos P, Santamaria RI, Gonzalez V, Romero D, Cevallos MA, Lozano L, Castro-Mondragon J, Martinez-Romero J, Ormeno-Orrillo E, Martinez-Romero E.	BMC Genomics	10.1186/1471-2164-15-575	2014
Genetics	Plasmids Related to the Symbiotic Nitrogen Fixation Are Not Only Cooperated Functionally but Also May Have Evolved over a Time Span in Family Rhizobiaceae.	Yang LL, Jiang Z, Li Y, Wang ET, Zhi XY.	Genome Biol Evol	10.1093/gbe/evaa152	2020
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Metabolism	Canonical and non-canonical EcfG sigma factors control the general stress response in Rhizobium etli.	Jans A, Vercruysse M, Gao S, Engelen K, Lambrichts I, Fauvart M, Michiels J.	Microbiologyopen	10.1002/mbo3.137	2013
	Positive selection of nodulation-deficient Rhizobium phaseoli.	Raleigh EA, Signer ER.	J Bacteriol	10.1128/jb.151.1.83-88.1982	1982
Metabolism	Bacillus aryabhattai SRB02 tolerates oxidative and nitrosative stress and promotes the growth of soybean by modulating the production of phytohormones.	Park YG, Mun BG, Kang SM, Hussain A, Shahzad R, Seo CW, Kim AY, Lee SU, Oh KY, Lee DY, Lee IJ, Yun BW.	PLoS One	10.1371/journal.pone.0173203	2017
Enzymology	Fructose 1,6-bisphosphate aldolase activity of Rhizobium species.	Siddiqui KA, Banerjee AK.	Folia Microbiol (Praha)	10.1007/bf02877044	1975
	Survival of Rhizobium phaseoli in Coal-Based Legume Inoculants.	Paczkowski MW, Berryhill DL.	Appl Environ Microbiol	10.1128/aem.38.4.612-615.1979	1979
	Characterization of the lipopolysaccharide from a Rhizobium phaseoli mutant that is defective in infection thread development.	Carlson RW, Kalembasa S, Turowski D, Pachori P, Noel KD.	J Bacteriol	10.1128/jb.169.11.4923-4928.1987	1987
	Rhizobium phaseoli symbiotic mutants with transposon Tn5 insertions.	Noel KD, Sanchez A, Fernandez L, Leemans J, Cevallos MA.	J Bacteriol	10.1128/jb.158.1.148-155.1984	1984
	Multiple copies of nodD in Rhizobium tropici CIAT899 and BR816.	van Rhijn PJ, Feys B, Verreth C, Vanderleyden J.	J Bacteriol	10.1128/jb.175.2.438-447.1993	1993
	Population Changes and Persistence of Rhizobium phaseoli in Soil and Rhizospheres.	Robert FM, Schmidt EL.	Appl Environ Microbiol	10.1128/aem.45.2.550-556.1983	1983
	Identification of Rhizobium phaseoli Strains That Are Tolerant or Sensitive to Soil Acidity.	Lowendorf HS, Alexander M.	Appl Environ Microbiol	10.1128/aem.45.3.737-742.1983	1983
	Proteomic profiling of Rhizobium tropici PRF 81: identification of conserved and specific responses to heat stress.	Gomes DF, Batista JS, Schiavon AL, Andrade DS, Hungria M.	BMC Microbiol	10.1186/1471-2180-12-84	2012
	Nodule initiation elicited by noninfective mutants of Rhizobium phaseoli.	Vandenbosch KA, Noel KD, Kaneko Y, Newcomb EH.	J Bacteriol	10.1128/jb.162.3.950-959.1985	1985
	Nitrogenase reductase: A functional multigene family in Rhizobium phaseoli.	Quinto C, De La Vega H, Flores M, Leemans J, Cevallos MA, Pardo MA, Azpiroz R, De Lourdes Girard M, Calva E, Palacios R.	Proc Natl Acad Sci U S A	10.1073/pnas.82.4.1170	1985
	Reiterated DNA sequences in Rhizobium and Agrobacterium spp.	Flores M, Gonzalez V, Brom S, Martinez E, Pinero D, Romero D, Davila G, Palacios R.	J Bacteriol	10.1128/jb.169.12.5782-5788.1987	1987
	Mutations in Rhizobium phaseoli that lead to arrested development of infection threads.	Noel KD, Vandenbosch KA, Kulpaca B.	J Bacteriol	10.1128/jb.168.3.1392-1401.1986	1986
Metabolism	Analysis of two polyhydroxyalkanoate synthases in Bradyrhizobium japonicum USDA 110.	Quelas JI, Mongiardini EJ, Perez-Gimenez J, Parisi G, Lodeiro AR.	J Bacteriol	10.1128/jb.02203-12	2013
	Mineral soils as carriers for Rhizobium inoculants.	Chao WL, Alexander M.	Appl Environ Microbiol	10.1128/aem.47.1.94-97.1984	1984
	Nodulation of Pole Bean (Phaseolus vulgaris L.) by Rhizobium Species of Two Cross-Inoculation Groups.	Bal AK, Shantharam S, Wong PP.	Appl Environ Microbiol	10.1128/aem.44.4.965-971.1982	1982
	Fungicide Enhancement of Nitrogen Fixation and Colonization of Phaseolus vulgaris by Rhizobium phaseoli.	Lennox LB, Alexander M.	Appl Environ Microbiol	10.1128/aem.41.2.404-411.1981	1981
	Dilution of liquid Rhizobium cultures to increase production capacity of inoculant plants.	Somasegaran P, Halliday J.	Appl Environ Microbiol	10.1128/aem.44.2.330-333.1982	1982
	Rhizobium meliloti genes required for nodule development are related to chromosomal virulence genes in Agrobacterium tumefaciens.	Dylan T, Ielpi L, Stanfield S, Kashyap L, Douglas C, Yanofsky M, Nester E, Helinski DR, Ditta G.	Proc Natl Acad Sci U S A	10.1073/pnas.83.12.4403	1986
Metabolism	Involvement of the azorhizobial chromosome partition gene (parA) in the onset of bacteroid differentiation during Sesbania rostrata stem nodule development.	Liu CT, Lee KB, Wang YS, Peng MH, Lee KT, Suzuki S, Suzuki T, Oyaizu H.	Appl Environ Microbiol	10.1128/aem.02327-10	2011
	Inhibition of Rhizobium etli Polysaccharide Mutants by Phaseolus vulgaris Root Compounds.	Eisenschenk L, Diebold R, Perez-Lesher J, Peterson AC, Kent Peters N, Noel KD.	Appl Environ Microbiol	10.1128/aem.60.9.3315-3322.1994	1994
	Quantification of nitrogen reductase and nitrite reductase genes in soil of thinned and clear-cut Douglas-fir stands by using real-time PCR.	Levy-Booth DJ, Winder RS.	Appl Environ Microbiol	10.1128/aem.02188-09	2010
	Recognition of leguminous hosts by a promiscuous Rhizobium strain.	Shantharam S, Wong PP.	Appl Environ Microbiol	10.1128/aem.43.3.677-685.1982	1982
	Evidence Suggesting Protozoan Predation on Rhizobium Associated with Germinating Seeds and in the Rhizosphere of Beans (Phaseolus vulgaris L.).	Ramirez C, Alexander M.	Appl Environ Microbiol	10.1128/aem.40.3.492-499.1980	1980
Metabolism	Indole-3-acetic acid biosynthesis is deficient in Gluconacetobacter diazotrophicus strains with mutations in cytochrome c biogenesis genes.	Lee S, Flores-Encarnacion M, Contreras-Zentella M, Garcia-Flores L, Escamilla JE, Kennedy C.	J Bacteriol	10.1128/jb.186.16.5384-5391.2004	2004
Phylogeny	Comparative genomics of Bradyrhizobium japonicum CPAC 15 and Bradyrhizobium diazoefficiens CPAC 7: elite model strains for understanding symbiotic performance with soybean.	Siqueira AF, Ormeno-Orrillo E, Souza RC, Rodrigues EP, Almeida LG, Barcellos FG, Batista JS, Nakatani AS, Martinez-Romero E, Vasconcelos AT, Hungria M.	BMC Genomics	10.1186/1471-2164-15-420	2014
Genetics	The Divided Bacterial Genome: Structure, Function, and Evolution.	diCenzo GC, Finan TM.	Microbiol Mol Biol Rev	10.1128/mmbr.00019-17	2017
Enzymology	Heterogeneity of Rhizobium lipopolysaccharides.	Carlson RW.	J Bacteriol	10.1128/jb.158.3.1012-1017.1984	1984
Enzymology	Restoration of gibberellin production in Fusarium proliferatum by functional complementation of enzymatic blocks.	Malonek S, Rojas MC, Hedden P, Hopkins P, Tudzynski B.	Appl Environ Microbiol	10.1128/aem.71.10.6014-6025.2005	2005
	Two host-inducible genes of Rhizobium fredii and characterization of the inducing compound.	Sadowsky MJ, Olson ER, Foster VE, Kosslak RM, Verma DP.	J Bacteriol	10.1128/jb.170.1.171-178.1988	1988
Genetics	Genomic basis of broad host range and environmental adaptability of Rhizobium tropici CIAT 899 and Rhizobium sp. PRF 81 which are used in inoculants for common bean (Phaseolus vulgaris L.).	Ormeno-Orrillo E, Menna P, Almeida LG, Ollero FJ, Nicolas MF, Pains Rodrigues E, Shigueyoshi Nakatani A, Silva Batista JS, Oliveira Chueire LM, Souza RC, Ribeiro Vasconcelos AT, Megias M, Hungria M, Martinez-Romero E.	BMC Genomics	10.1186/1471-2164-13-735	2012
Phylogeny	Rhizobium etli taxonomy revised with novel genomic data and analyses.	Lopez-Guerrero MG, Ormeno-Orrillo E, Velazquez E, Rogel MA, Acosta JL, Gonzalez V, Martinez J, Martinez-Romero E	Syst Appl Microbiol	10.1016/j.syapm.2012.06.009	2012
	Average nucleotide identity of genome sequences supports the description of Rhizobium lentis sp. nov., Rhizobium bangladeshense sp. nov. and Rhizobium binae sp. nov. from lentil (Lens culinaris) nodules.	Rashid MH, Young JPW, Everall I, Clercx P, Willems A, Santhosh Braun M, Wink M.	Int J Syst Evol Microbiol	10.1099/ijs.0.000373	2015
	Rhizobium ecuadorense sp. nov., an indigenous N2-fixing symbiont of the Ecuadorian common bean (Phaseolus vulgaris L.) genetic pool.	Ribeiro RA, Martins TB, Ormeno-Orrillo E, Marcon Delamuta JR, Rogel MA, Martinez-Romero E, Hungria M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.000392	2015
Genetics	Draft genome sequence of type strain HBR26^T and description of Rhizobium aethiopicum sp. nov.	Aserse AA, Woyke T, Kyrpides NC, Whitman WB, Lindstrom K.	Stand Genomic Sci	10.1186/s40793-017-0220-z	2017
Phylogeny	Rhizobium sophorae sp. nov. and Rhizobium sophoriradicis sp. nov., nitrogen-fixing rhizobial symbionts of the medicinal legume Sophora flavescens.	Jiao YS, Yan H, Ji ZJ, Liu YH, Sui XH, Wang ET, Guo BL, Chen WX, Chen WF	Int J Syst Evol Microbiol	10.1099/ijs.0.068916-0	2014
Phylogeny	Revision of the taxonomic status of the species Rhizobium leguminosarum (Frank 1879) Frank 1889AL, Rhizobium phaseoli Dangeard 1926AL and Rhizobium trifolii Dangeard 1926AL. R. trifolii is a later synonym of R. leguminosarum. Reclassification of the strain R. leguminosarum DSM 30132 (=NCIMB 11478) as Rhizobium pisi sp. nov.	Ramirez-Bahena MH, Garcia-Fraile P, Peix A, Valverde A, Rivas R, Igual JM, Mateos PF, Martinez-Molina E, Velazquez E	Int J Syst Evol Microbiol	10.1099/ijs.0.65621-0	2008

References

#9158	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 30137
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#38201	; Curators of the CIP;
#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;
#68369	Automatically annotated from API 20NE .
#68371	Automatically annotated from API 50CH acid .
#68382	Automatically annotated from API zym .
#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 .
#121793	Collection of Institut Pasteur ; Curators of the CIP; CIP 107329
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Rhizobium phaseoli (DSM 30137, ATCC 14482, JCM 20683)

Name and taxonomic classification

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Halophily

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