Analysis of carbohydrate-related gene expression in Rhizobium leguminosarum biovar viciae during symbiotic pea nodule development
Kim, Hyong Sook
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The carbohydrate-related gene expression of Rhizobium leguminosarum biovar viciae strain 3841, a gram-negative, alpha-proteobacteria forming symbiotic indeterminate nodules on peas, was analyzed with publicly available whole-genome microarray data set at subsequent time points during rhizobial pea root invasion and bacteriod development. A statistical analysis was performed on the expression ratios of free-living culture and bacteroid state to study a broad sample of rhizobial carbohydrate-related ortholog genes compiled from various databases (NCBI COG, KEGG, CAZy, and GeneDB) and reported literatures. (i) We examined known carbohydrate classes in R. leguminosarum and validated previous findings, e.g. the up-regulation of Nod factor genes and down-regulation of EPS genes. (ii) Unclassified carbohydrate-related genes that were either up- or down-regulated were studied. (iii) A number of either expressed or suppressed genes were selected as candidates for future potential genetic and biochemical analysis of their roles in carbohydrate biosynthesis and symbiotic development.