ArticleMolecular genetics and genomics : MGG2006
Design and validation of a partial-genome microarray for transcriptional profiling of the Bradyrhizobium japonicum symbiotic gene region.
Article in Molecular genetics and genomics : MGG, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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Who cites it
21 citing papers in PubMed, 35 citations in OpenAlex.
- Metabolomics and Dual RNA-Sequencing on Root Nodules Revealed New Cellular Functions Controlled byMetabolites · 2021Article
- A Stringent-Response-Defective Bradyrhizobium diazoefficiens Strain Does Not Activate the Type 3 Secretion System, Elicits an Early Plant Defense Response, and Circumvents NHApplied and environmental microbiology · 2021Article
- Identification of the Important Genes ofFrontiers in microbiology · 2021Article
- Characterization of FliL Proteins in Bradyrhizobium diazoefficiens: Lateral FliL Supports Swimming Motility, and Subpolar FliL Modulates the Lateral Flagellar System.Journal of bacteriology · 2020Article
- Functional Genomics Approaches to Studying Symbioses between Legumes and Nitrogen-Fixing Rhizobia.High-throughput · 2018Review
- Transcriptional Control of the Lateral-Flagellar Genes of Bradyrhizobium diazoefficiens.Journal of bacteriology · 2017Article
- The global response regulator RegR controls expression of denitrification genes in Bradyrhizobium japonicum.PloS one · 2014Article
- Analysis of two polyhydroxyalkanoate synthases in Bradyrhizobium japonicum USDA 110.Journal of bacteriology · 2013Article
- Soybean seed lectin prevents the accumulation of S-adenosyl methionine synthetase and the S1 30S ribosomal protein in Bradyrhizobium japonicum under C and N starvation.Current microbiology · 2012Article
- Effect of soybean coumestrol on Bradyrhizobium japonicum nodulation ability, biofilm formation, and transcriptional profile.Applied and environmental microbiology · 2012Article
- Article
- Complete Genome Sequence of the Soybean Symbiont Bradyrhizobium japonicum Strain USDA6T.Genes · 2011Article
- Isovaleryl-homoserine lactone, an unusual branched-chain quorum-sensing signal from the soybean symbiont Bradyrhizobium japonicum.Proceedings of the National Academy of Sciences of the United States of America · 2011Article
- Characterization of the NifA-RpoN regulon in Rhizobium etli in free life and in symbiosis with Phaseolus vulgaris.Applied and environmental microbiology · 2010Article
- Disparate pathways for the biogenesis of cytochrome oxidases in Bradyrhizobium japonicum.The Journal of biological chemistry · 2010Article
- The genistein stimulon of Bradyrhizobium japonicum.Molecular genetics and genomics : MGG · 2008Article
- New target genes controlled by the Bradyrhizobium japonicum two-component regulatory system RegSR.Journal of bacteriology · 2007Article
- Dissection of the Bradyrhizobium japonicum NifA+sigma54 regulon, and identification of a ferredoxin gene (fdxN) for symbiotic nitrogen fixation.Molecular genetics and genomics : MGG · 2007Article
- Genomes of the symbiotic nitrogen-fixing bacteria of legumes.Plant physiology · 2007Review
- FixJ: a major regulator of the oxygen limitation response and late symbiotic functions of Sinorhizobium meliloti.Journal of bacteriology · 2006Article
Corrections and comments
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Authors and funding
7 authors at 3 institutions in 4 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The design and use of a pilot microarray for transcriptome analysis of the symbiotic, nitrogen-fixing Bradyrhizobium japonicum is reported here. The custom-synthesized chip (Affymetrix GeneChip) features 738 genes, more than half of which belong to a 400-kb chromosomal segment strongly associated with symbiosis-related functions. RNA was isolated following an optimized protocol from wild-type cells grown aerobically and microaerobically, and from cells of aerobically grown regR mutant and microaerobically grown nifA mutant. Comparative microarray analyses thus revealed genes that are transcribed in either a RegR- or a NifA-dependent manner plus genes whose expression depends on the cellular oxygen status. Several genes were newly identified as members of the RegR and NifA regulons, beyond genes, which had been known from previous work. A comprehensive transcription analysis was performed with one of the new RegR-controlled genes (id880). Expression levels determined by microarray analysis of selected NifA- and RegR-controlled genes corresponded well with quantitative real-time PCR data, demonstrating the high complementarity of microarray analysis to classical methods of gene expression analysis in B. japonicum. Nevertheless, several previously established members of the NifA regulon were not detected as transcribed genes by microarray analysis, confirming the potential pitfalls of this approach also observed by other authors. By and large, this pilot study has paved the way towards the genome-wide transcriptome analysis of the 9.1-Mb B. japonicum genome.
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