Label‐Free Quantitative Proteomics of Enriched Nuclei from Sugarcane (Saccharum ssp) Stems in Response to Drought Stress

Abstract

Drought is considered the major abiotic stress limiting crop productivity. This study seeks to identify proteins involved in the drought response in sugarcane stems submitted to drought stress. The integration of nuclei enrichment sample preparation with the shotgun proteomic approach results in great coverage of the sugarcane stem proteome with 5381 protein groups identified. A total of 1204 differentially accumulated proteins are detected in response to drought, among which 586 and 618 are increased and reduced in abundance, respectively. A total of 115 exclusive proteins are detected, being 41 exclusives of drought-stressed plants and 74 exclusives of control plants. In the control plants, most of these proteins are related to cell wall metabolism, indicating that drought affects negatively the cell wall metabolism. Also, 37 transcription factors (TFs) are identified, which are low abundant nuclear proteins and are differentially accumulated in response to drought stress. These TFs are associated to protein domains such as leucine-rich (bZIP), C2H2, NAC, C3H, LIM, Myb-related, heat shock factor (HSF) and auxin response factor (ARF). Increased abundance of chromatin remodeling and RNA processing proteins are also observed. It is suggested that these variations result from an imbalance of protein synthesis and degradation processes induced by drought.

Genomic patterns of structural variation among diverse genotypes of Sorghum bicolor and a potential role for deletions in local adaptation

“…We found several genes potentially related to drought tolerance that had deletions unique to cluster 1, which is particularly interesting given that cluster 1 is comprised almost entirely of genotypes from Ethiopia. These drought tolerance genes included Sobic.004G042400, a Myb/SANT-like DNA-binding domain protein that showed differential abundance in response to drought in sugarcane ( Salvato et al 2019 ), Sobic.004G183600, a molybdenum cofactor biosynthesis protein whose overexpression was found to confer increased drought tolerance in maize ( Lu et al 2013 ), and Sobic.008G100400, a member of the pentatricopeptide repeat family with critical roles in stress and development in many plant species ( Sharma and Pandey 2015 ). Two genes with cluster 1 specific deletions had putative roles in both drought and salt tolerance.…”

“…Cluster 1 had the most cluster-specific deletions related to drought tolerance. The size of these mutations ranged from an 80 bp deletion in a molybdenum cofactor biosynthesis protein 1 to a 3.6 kbp deletion in a Myb/SANT-like DNA-binding domain-containing protein, two genes that have been found to be differentially expressed in response to drought in maize and sugarcane respectively ( Lu et al 2013 ; Salvato et al 2019 ).…”

Sugarcane cell suspension reveals major metabolic changes under different nitrogen starvation regimes

“…While maize and tomato plants showed a reduction of amino acids content when exposed to N deficiency (i.e., Trp, Arg, Asp), different accessions of Arabidopsis had an increase of the levels of some amino acids (glycine -Gly, histidine -His, leucine -Leu, Ile). This response was explained as an ability for adjusting the amino acids to compensate the decrease of N availability, mainly through an increased protein degradation (Bassi et al 2018;Fritz et al 2006;Salvato et al 2019).…”

Sugarcane Omics: An Update on the Current Status of Research and Crop Improvement

“…Their results revealed that the expression of fructose-bisphosphate aldolase, oxygen-evolving enhancer protein, and SOD were elevated in two or three organs of K86-161, whereas these proteins decreased in B34-164 under drought stress. More recently, Salvato et al [93] carried out quantitative proteomics of enriched nuclei from sugarcane ( Saccharum ssp) stems in response to drought stress by filter-aided sample preparation (FASP) and LC–MS/MS. The results show that most of 74 exclusives proteins of control plants are related to cell wall metabolism, suggesting that drought affects negatively the cell wall metabolism; Also, 37 TFs that were associated to protein domains, such as leucine-rich (bZIP), C2H2, NAC, C3H, LIM, Myb-related, heat shock factor (HSF) and auxin response factor (ARF), are identified.…”

“…The results show that most of 74 exclusives proteins of control plants are related to cell wall metabolism, suggesting that drought affects negatively the cell wall metabolism; Also, 37 TFs that were associated to protein domains, such as leucine-rich (bZIP), C2H2, NAC, C3H, LIM, Myb-related, heat shock factor (HSF) and auxin response factor (ARF), are identified. These TFs belong to low abundant nuclear proteins and are differentially accumulated in response to drought stress [93].…”