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Table 3 Up-regulation of the R. tropici CIAT 899 pRtCIAT899b genes located downstream nod boxes. Transcriptional activation (4-fold induction with respect to control cultures) of several nod box controlled operons was demonstrated by RNA-seq data in the presence of both inducer molecules. HP: gene that codes for a hypothetical protein

From: RNA-seq analysis of the Rhizobium tropici CIAT 899 transcriptome shows similarities in the activation patterns of symbiotic genes in the presence of apigenin and salt

NB (Distance) Cds number/Locus tag/Gene name Putative function Fold change
apigenin
Fold change
salt
1 (270 pb) cds216 to 227/RTCIAT899_ PB01300 to RTCIAT899_ PB01345/nodABCSUIJHPQ1Q2 NF production 8.73 to 1.28 13.66 to 2.54
2 (250 pb) cds177 to 180/RTCIAT899_ PB01095 to RTCIAT899_ PB01110/nodA2hsnTnodFE NF production 10.3 to 10.37 9.81 to 11.94
3 (180 pb) cds450 to 449/RTCIAT899_ PB02710 to RTCIAT899_ PB02705/nodM NF production 2.43 to 3.18 5.85 to 8.49
4 (680 pb) cds95 to 93/RTCIAT899_PB00575 to RTCIAT899_PB00565/y4wEF Synthesis of IAA 8.57 to 1.63 12.17 to 3.27
5 (38 pb) cds263 to 262/RTCIAT899_PB01550 to RTCIAT899_PB01545/HP Unknown 6.75 to 4.26 28.65 to 14.37
6 (70 pb) cds61 to 62/RTCIAT899_PB00370 to RTCIAT899_PB00375/HP Unknown 1.80 to 2.11 2.17 to 1.64
7 (191 pb) cds170/RTCIAT899_PB01055/HP Unknown 1.18 5.68
8 (470 pb) cds81/RTCIAT899_PB00495/HP Unknown −1.05 2.58
9 (979 pb) cds173/RTCIAT899_PB01570/nodD2 Transcriptional regulation −1.25 3.01
10 (292 pb) cds89/RTCIAT899_PB00540/HPa Unknown 1.13 −1.44
  1. aThe transcriptional orientation of this gene is opposite to the NB10 sequence orientation