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Table 2 Candidate genes for resistance to CBB. Bold cases indicate non differentially-expressed genes (i.e. genes with −1.5 < log2FC < 1.5 and/or adjusted p-value ≥0.05)

From: Common bean resistance to Xanthomonas is associated with upregulation of the salicylic acid pathway and downregulation of photosynthesis

Gene ID Annotation log2FC BAT93 log2FC JaloEEP558 |Δlog2FC| > 5 Inverse pattern of expression Colocation with QRLs
Phvul.001G039700 17.6 kDa class II HSP -1,67 8,75 Yes Yes
Phvul.001G061000 Sulfite exporter TauE/SafE family -1,86 3,23 Yes Yes
Phvul.001G229800 plasmodesmata-located protein 7 -5,58 5,80 Yes Yes
Phvul.002G212000 HSP20-like chaperones superfamily -2,96 7,52 Yes Yes
Phvul.002G231500 HSP20-like chaperones superfamily -3,20 9,04 Yes Yes
Phvul.002G243500 GDSL-like Lipase/Acylhydrolase superfamily -8,35 -2,79 Yes Yes
Phvul.002G249800 RmlC-like cupins superfamily -3,81 1,43 Yes Yes
Phvul.002G318500 Pectin methylesterase inhibitor -1,86 3,43 Yes Yes
Phvul.003G265800 PLAC8 family protein 3,25 -4,07 Yes Yes
Phvul.005G014200 NLR -1,02 -8,31 Yes Yes
Phvul.005G034000 cytokinin oxidase/dehydrogenase 6 -9,67 -0,86 Yes Yes
Phvul.005G044600 NAC (No Apical Meristem) domain transcriptional regulator superfamily 0,46 5,50 Yes Yes
Phvul.005G049700 LOB 4 -1,25 4,23 Yes Yes
Phvul.005G058600 MLP-like protein 43 4,19 -2,73 Yes Yes
Phvul.005G085800 light-harvesting chlorophyll B-binding protein 3 -5,41 -0,30 Yes Yes
Phvul.005G097600 plasmodesmata callose-binding protein 5 1,33 -3,99 Yes Yes
Phvul.005G097800 bZIP transcription factor -1,98 3,92 Yes Yes
Phvul.006G197100 Pathogenesis-related 1 protein 4,85 -1,52 Yes Yes
Phvul.007G013000 Eukaryotic aspartyl protease family -5,87 1,45 Yes Yes
Phvul.007G018600 FAD/NAD(P)-binding oxidoreductase family -1,88 2,98 Yes Yes
Phvul.007G024800 Major facilitator superfamily 1,05 -4,98 Yes Yes
Phvul.007G030300 receptor serine/threonine kinase, putative -1,32 -6,34 Yes Yes
Phvul.007G038400 CYCLIN D3;1 -7,76 -2,01 Yes Yes
Phvul.007G049700 cysteine-rich RLK 29 -1,88 1,68 Yes Yes
Phvul.007G051300 cysteine-rich RLK 25 0,49 -5,54 Yes Yes
Phvul.008G081300 Protein kinase superfamily -3,96 3,96 Yes Yes
Phvul.008G137100 Lipid-transfer protein -3,68 5,63 Yes Yes
Phvul.009G030900 Unknown protein -5,53 0,56 Yes Yes
Phvul.009G057100 ovate family protein 7 4,64 -4,99 Yes Yes Yes
Phvul.009G080200 17.6 kDa class II HSP -3,10 4,47 Yes Yes
Phvul.009G084400 Integrase-type DNA-binding superfamily -0,53 7,55 Yes Yes
Phvul.009G094000 plant natriuretic peptide A -0,53 8,66 Yes Yes
Phvul.009G097500 mitotic-like cyclin 3B -5,85 -0,65 Yes Yes
Phvul.009G106200 proline extensin-like receptor kinase 1 -2,56 2,82 Yes Yes
Phvul.009G119200 SBP family 1,54 -4,90 Yes Yes
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