Bradyrhizobium japonicum USDA 6

Rod

Kingdom

Pseudomonadati

Phylum

Pseudomonadota

Class

Alphaproteobacteria

Order

Hyphomicrobiales

Family

Nitrobacteraceae

Genus

Bradyrhizobium

Description

Bradyrhizobium japonicum USDA 6 is a Gram-negative, rod-shaped bacterium primarily found in soil environments. This species is notable for its ability to form symbiotic relationships with the legume Glycine max, commonly known as soybean. The interaction between B. japonicum and soybean plants is critical for nitrogen fixation, which enhances soil fertility and contributes to agricultural productivity. The bacterium is equipped with flagella, which facilitate motility in its soil habitat. This motility may play a role in the colonization of root surfaces, where it establishes symbiotic associations with host plants. B. japonicum USDA 6 has a single replicon, indicating a streamlined genomic organization that may be advantageous for its ecological niche and symbiotic efficiency. The accession number NC_017249.1 refers to its genomic sequence, which provides insights into its genetic makeup and potential metabolic capabilities. Understanding the genomic features of B. japonicum USDA 6 can further illuminate its role in sustainable agriculture and its interactions with other microorganisms in the soil ecosystem. In summary, Bradyrhizobium japonicum USDA 6 exemplifies the significance of microbial symbionts in enhancing agricultural systems through nitrogen fixation. Its specialized adaptations to the soil environment and its relationship with Glycine max highlight the intricate connections within soil ecosystems and the importance of microbial diversity in supporting plant health and growth.

Taxonomy

KingdomPseudomonadati
PhylumPseudomonadota
ClassAlphaproteobacteria
OrderHyphomicrobiales
FamilyNitrobacteraceae
GenusBradyrhizobium
SpeciesBradyrhizobium japonicum
StrainUSDA 6

Profile

Physiology
Gram staining propertiesNegative
ShapeRod
MobilityNot Available
Flagellar presenceYes
Number of membranesNot Available
Image of Bradyrhizobium japonicum USDA 6
AI-generated image based on bacteria physiology
Ecology, Host, and Life Cycle
Oxygen requirementsNot Available
Optimal temperatureNot Available
Temperature rangeNot Available
Habitatsoil
Biotic relationshipNot Available
Host(s)Glycine max
Cell arrangementNot Available
SporulationNot Available
Energy sourceNot Available
PathogenicityNot Available

Genome Summary

Bradyrhizobium japonicum USDA 6, complete sequence.

Gene Summary

Adenine Count

1674281 bp

Thymine Count

1671169 bp

Guanine Count

2930285 bp

Cytosine Count

2931649 bp

Genome Length

9207384 bp

Protein-coding Genes

8677 genes

Non-Coding Genes

86 genes

# of Chromosomes/Plasmids

1

Genes

NameLocus TagUniProt IDStrand OrientationGene Start/EndProtein Molecular Weight
bola/ibag family iron-sulfur metabolism proteinBJ6T_RS19275Not AvailablePositive4139393 - 41396298313.97
low temperature requirement protein aBJ6T_RS19280Not AvailablePositive4139656 - 414084943873.9
l-histidine n(alpha)-methyltransferaseBJ6T_RS19285Not AvailableNegative4140877 - 414184835833.7
ergothioneine biosynthesis protein egtbBJ6T_RS19290Not AvailableNegative4141899 - 414319748847.0
grx4 family monothiol glutaredoxinBJ6T_RS19295Not AvailablePositive4143437 - 414376311886.3
o-acetyl-adp-ribose deacetylaseBJ6T_RS19300Not AvailablePositive4143768 - 414431918990.7
serine hydrolase domain-containing proteinBJ6T_RS19305Not AvailablePositive4144366 - 414565246966.7
serine hydrolase domain-containing proteinBJ6T_RS19310Not AvailablePositive4145654 - 414691645668.9
threonine aldolase family proteinBJ6T_RS19315Not AvailableNegative4147019 - 414810438427.1
30s ribosomal protein s4BJ6T_RS19320Not AvailableNegative4148174 - 414879123523.4

Displaying genes 4021 – 4030 of 8763 in total

Pathways

0 pathways

No pathways found

No metabolic pathways have been associated with this bacterium yet.

Metabolites

743 records
Metabolite IDMetabolite nameStructureCAS number
BASm0000173(R)-3-Hydroxybutyric acidC4H8O3Chemical structure of (R)-3-Hydroxybutyric acid625-72-3
Average104.0473Da
Monoisotopic104.047344122Da
BASm0000217alpha-ribazoleC14H18N2O4Chemical structure of alpha-ribazoleNot available
Average278.3037Da
Monoisotopic278.126657074Da
BASm0000237(R)-4'-phosphopantothenateC9H18NO8PChemical structure of (R)-4'-phosphopantothenateNot available
Average299.2149Da
Monoisotopic299.0770031Da
BASm00002512-dehydropantoateC6H9O4Chemical structure of 2-dehydropantoateNot available
Average145.1333Da
Monoisotopic145.050083776Da
BASm0000377(S)-malateC4H4O5Chemical structure of (S)-malateNot available
Average132.0716Da
Monoisotopic132.005873238Da
BASm0000387(6R)-5,10-methylene-5,6,7,8-tetrahydrofolateC20H21N7O6Chemical structure of (6R)-5,10-methylene-5,6,7,8-tetrahydrofolateNot available
Average455.432Da
Monoisotopic455.1564286Da
BASm0000401(S)-2-succinylamino-6-oxoheptanedioateC11H12NO8Chemical structure of (S)-2-succinylamino-6-oxoheptanedioateNot available
Average286.218Da
Monoisotopic286.0579371Da
BASm0000950L-xyluloseC5H10O5Chemical structure of L-xylulose527-50-4
Average150.1299Da
Monoisotopic150.05282343Da
BASm0000989GlycerolC3H8O3Chemical structure of Glycerol56-81-5
Average92.0938Da
Monoisotopic92.04734412Da
BASm0001035indole-3-pyruvateC11H8NO3Chemical structure of indole-3-pyruvate35656-49-6
Average202.1861Da
Monoisotopic202.0504181Da

Displaying 1–10 of 743 metabolites

Health Effects

No health effects information available for this bacterium.