Additional file 1 of Integrated transcriptome and proteome analysis reveals complex regulatory mechanism of cotton in response to salt stress

Additional file 1: Figure S1. Description of Xinluzhong 54. a Cultivation area of Xinluzhong 54. b-c Plant phenotype of Xinluzhong 54 under 150 mmol·L− 1 and 250 mmol·L− 1 NaCl treatment, respectively. Figure S2. Identification of differentially expressed genes (DEGs) in response to salt stress. a The number of DEGs on each chromosome. b qRT-PCR validation of transcript levels evaluated by RNA-Seq. Figure S3. Functional enrichment analysis of DEGs. a Expression patterns and enrichment pathways of 1 136 common DEGs. b KEGG analysis of up-regulated DEGs. c KEGG analysis of down-regulated DEGs. Figure S4. Functional enrichment analysis of DEGs. a KEGG analysis of up-regulated DEPs. b KEGG analysis of down-regulated DEPs. Figure S5. Expression patterns of differentially expressed proteins involved in photosynthesis and carbon catabolism. a-c stand for the expression patterns of DEPs involved in photosynthesis, glycolysis/ gluconeogenesis and TCA cycle, respectively. Figure S6. Plant hormone signal pathways analysis. The expression changes of key node genes involved in different hormone signal pathway under salt stress treatment. Figure S7. Transcription factors response to salt stress in cotton. a and b stand for the statistics of up-regulated and down-regulated transcription factors induced by salt stress, respectively. c The expression patterns of different transcription factors under salt stress treatment. Figure S8. Potential protein interaction models through the STRING database. a Predicted CBL-CIPK protein interaction patterns. b Predicted MAPK signal cascade protein interaction patterns. Table S1. Primers used for qRT-PCR. Table S2. Transcriptome data statistics. Table S3. Statistics on the correlation between DEGs and DEPs. Table S4. Information of associated genes.