Name: Bradyrhizobium japonicum JCM 10834
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 161077

Type strain:

Species: Bradyrhizobium japonicum

Culture col. no.: JCM 10834, USDA 123

Strain history: K. Minamisawa <-- H. H. Keyser USDA 123.

NCBI tax ID(s): 936135 (strain), 375 (species)

SI-ID 1342

LMG 6136, JCM 10834, BCRC 13529, CCRC 13529, ICMP 12778

Special Collections

Other strains from Bradyrhizobium japonicum

Section

Bradyrhizobium japonicum JCM 10834 is a Gram-negative bacterium that was isolated from Root nodules of Glycine max.

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	*Nitrobacteraceae*
	Genus	*Bradyrhizobium*
	Species	**Bradyrhizobium japonicum**
	Full Scientific Name (LPSN)	Bradyrhizobium japonicum (Kirchner 1896) Jordan 1982

	Synonym	"Rhizobacterium* japonicum"*
	Synonym	Rhizobium japonicum

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %97.5

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	30 °C

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

[Ref.: #67770]	Sample type/isolated from	Root nodules of Glycine max
[Ref.: #67770]	Host species	Glycine max
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AF363151 (>99% sequence identity) for Bradyrhizobium from Microbeatlas

Aquatic Samples	2827
Soil Samples	5001
Animal Samples	4320
Plant Samples	739
Total Samples	12887

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.: #67770]	Bradyrhizobium japonicum strain USDA 123 16S ribosomal RNA gene, partial sequence	AF363151	1345	GenBank ENA	936135 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Bradyrhizobium japonicum USDA 123	GCA_000482525	scaffold	GenBank ENA	936135 tax ID

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: Bradyrhizobium japonicum USDA 123 USDA 123 NCBI: GCA_000482525.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.5	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	91.084	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	82.292	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	80.195	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.999	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	75.687	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 10834, USDA 123

[Ref.: #113190]

SI-ID 1342

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Enzymology	Effect of Flooding and the nosZ Gene in Bradyrhizobia on Bradyrhizobial Community Structure in the Soil.	Saeki Y, Nakamura M, Mason MLT, Yano T, Shiro S, Sameshima-Saito R, Itakura M, Minamisawa K, Yamamoto A	Microbes Environ	10.1264/jsme2.ME16132	2017	*
Phylogeny	Symbiotic Potential of Bradyrhizobium japonicum Strains with Different Growth Rates.	Krutylo DV, Leonova NO	Mikrobiol Z		2016	*
Enzymology	Survival and Competitiveness of Bradyrhizobium japonicum Strains 20 Years after Introduction into Field Locations in Poland.	Narozna D, Pudelko K, Kroliczak J, Golinska B, Sugawara M, Madrzak CJ, Sadowsky MJ	Appl Environ Microbiol	10.1128/AEM.01399-15	2015	*
Genetics	Predominant populations of indigenous soybean-nodulating Bradyrhizobium japonicum strains obtained from organic farming systems in Minnesota.	Wongphatcharachai M, Staley C, Wang P, Moncada KM, Sheaffer CC, Sadowsky MJ	J Appl Microbiol	10.1111/jam.12771	2015	*
Metabolism	Towards a two-dimensional proteomic reference map of Bradyrhizobium japonicum CPAC 15: spotlighting "hypothetical proteins".	Batista JS, Torres AR, Hungria M	Proteomics	10.1002/pmic.201000092	2010	*
Enzymology	Changes in population occupancy of Bradyrhizobia under different temperature regimes.	Saeki Y, Ozumi S, Yamamoto A, Umehara Y, Hayashi M, Sigua GC	Microbes Environ	10.1264/jsme2.me10128	2010	*
Metabolism	Nodulation gene regulation and quorum sensing control density-dependent suppression and restriction of nodulation in the Bradyrhizobium japonicum-soybean symbiosis.	Jitacksorn S, Sadowsky MJ	Appl Environ Microbiol	10.1128/AEM.02939-07	2008	*
Genetics	Variability in Bradyrhizobium japonicum and B. elkanii seven years after introduction of both the exotic microsymbiont and the soybean host in a cerrados soil.	Batista JS, Hungria M, Barcellos FG, Ferreira MC, Mendes IC	Microb Ecol	10.1007/s00248-006-9149-2	2007	*
Phylogeny	Differential symbiotic response of phage-typed strains of Bradyrhizobium japonicum with soybean cultivars.	Appunu C, Dhar B	J Microbiol	2374	2006	*
Pathogenicity	Host-Controlled Restriction of Nodulation by Bradyrhizobium japonicum Strains in Serogroup 110.	Lohrke SM, Orf JH, Martinez-Romero E, Sadowsky MJ	Appl Environ Microbiol	10.1128/aem.61.6.2378-2383.1995	1995	*
Enzymology	The genomes of the family Rhizobiaceae: size, stability, and rarely cutting restriction endonucleases.	Sobral BW, Honeycutt RJ, Atherly AG	J Bacteriol	10.1128/jb.173.2.704-709.1991	1991	*
Pathogenicity	Host Plant Effects on Nodulation and Competitiveness of the Bradyrhizobium japonicum Serotype Strains Constituting Serocluster 123.	Cregan PB, Keyser HH, Sadowsky MJ	Appl Environ Microbiol	10.1128/aem.55.10.2532-2536.1989	1989	*
Genetics	Nodulation and Competition for Nodulation of Selected Soybean Genotypes among Bradyrhizobium japonicum Serogroup 123 Isolates.	Keyser HH, Cregan PB	Appl Environ Microbiol	10.1128/aem.53.11.2631-2635.1987	1987	*
	Diversity among Field Populations of Bradyrhizobium japonicum in Poland.	Madrzak CJ, Golinska B, Kroliczak J, Pudelko K, Lazewska D, Lampka B, Sadowsky MJ	Appl Environ Microbiol	10.1128/aem.61.4.1194-1200.1995	1995	*
	Plasmids pJP4 and r68.45 Can Be Transferred between Populations of Bradyrhizobia in Nonsterile Soil.	Kinkle BK, Sadowsky MJ, Schmidt EL, Koskinen WC	Appl Environ Microbiol	10.1128/aem.59.6.1762-1766.1993	1993	*
	Lysogeny in Bradyrhizobium japonicum and Its Effect on Soybean Nodulation.	Abebe HM, Sadowsky MJ, Kinkle BK, Schmidt EL	Appl Environ Microbiol	10.1128/aem.58.10.3360-3366.1992	1992	*
	Formation of Novel Polysaccharides by Bradyrhizobium japonicum Bacteroids in Soybean Nodules.	Streeter JG, Salminen SO, Whitmoyer RE, Carlson RW	Appl Environ Microbiol	10.1128/aem.58.2.607-613.1992	1992	*
	Symbiotic Potential, Competitiveness, and Serological Properties of Bradyrhizobium japonicum Indigenous to Korean Soils.	Kang UG, Somasegaran P, Hoben HJ, Bohlool BB	Appl Environ Microbiol	10.1128/aem.57.4.1038-1045.1991	1991	*
	DNA Hybridization Probe for Use in Determining Restricted Nodulation among Bradyrhizobium japonicum Serocluster 123 Field Isolates.	Sadowsky MJ, Cregan PB, Keyser HH	Appl Environ Microbiol	10.1128/aem.56.6.1768-1774.1990	1990	*
	Strain-Specific Inhibition of nod Gene Induction in Bradyrhizobium japonicum by Flavonoid Compounds.	Kosslak RM, Joshi RS, Bowen BA, Paaren HE, Appelbaum ER	Appl Environ Microbiol	10.1128/aem.56.5.1333-1341.1990	1990	*
	Influence of Glycine spp. on Competitiveness of Bradyrhizobium japonicum and Rhizobium fredii.	Cregan PB, Keyser HH	Appl Environ Microbiol	10.1128/aem.54.3.803-808.1988	1988	*
	Long-Term Effects of Metal-Rich Sewage Sludge Application on Soil Populations of Bradyrhizobium japonicum.	Kinkle BK, Angle JS, Keyser HH	Appl Environ Microbiol	10.1128/aem.53.2.315-319.1987	1987	*
	Bradyrhizobium japonicum Serocluster 123 and Diversity among Member Isolates.	Schmidt EL, Zidwick MJ, Abebe HM	Appl Environ Microbiol	10.1128/aem.51.6.1212-1215.1986	1986	*
	Influence of Environmental Factors on Interstrain Competition in Rhizobium japonicum.	Kosslak RM, Bohlool BB	Appl Environ Microbiol	10.1128/aem.49.5.1128-1133.1985	1985	*
	Conservation of a symbiotic DNA region in soybean root nodule bacteria.	Hahn M, Hennecke H	Appl Environ Microbiol	10.1128/aem.53.9.2253-2255.1987	1987	*

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 )

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#113190

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-ID1342.1 )

* These data were automatically processed and therefore are not curated

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