{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Su K"],"funding":["Natural Science Research Project of Anhui Province"],"pagination":["409"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC12027353"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["16(4)"],"pubmed_abstract":["<h4>Background</h4>Cucumber (<i>Cucumis sativus</i> L.) is an important economic crop worldwide. Response regulators (RRs) play crucial roles in plant growth, development, and responses to both biotic and abiotic stresses.<h4>Methods</h4>Combined analysis of 182 re-sequencing and transcriptome datasets was conducted to investigate <i>CsRR</i> variations, with subsequent RT-qPCR experiments confirming its functional significance.<h4>Results</h4>In this study, 18 <i>CsRR</i> genes were identified and classified into three groups according to their protein structures: A-ARRs (3), B-ARRs (8), and PRRs (7). Resequencing uncovered critical mutations (non-synonymous SNPs, frameshift, and stop-gain variants) in <i>CsRR</i> genes. Transcriptome data revealed that five genes responded to abiotic stress and four responded to biotic stress. <i>CsPRR1</i> was upregulated in both resistant and susceptible lines at five dpi, downregulated in resistant plants at nine dpi, and showed no significant difference at 11 dpi. <i>CsPRR2</i> was consistently upregulated in both lines at 5, 9, and 11 dpi. <i>CsPRR3</i> was upregulated in resistant lines at nine dpi but downregulated at 11 dpi. <i>CsARR8</i> was significantly downregulated in both lines at 9 and 11 dpi. Notably, <i>CsPRR2</i> demonstrated dual functionality related to (i) the regulation of immature fruit skin color via a stop-gain InDel and (ii) resistance to Foc, as the gene was upregulated in both resistant and susceptible lines after inoculation with the pathogen.<h4>Conclusions</h4>This study integrated resequencing and transcriptomic data to comprehensively characterize <i>CsRR</i> genes, establishing a foundation for further exploration of their functional mechanisms in cucumber."],"journal":["Genes"],"pubmed_title":["Resequencing and Transcriptome Analyses Reveal Variations and Expression Patterns of the RR Gene Family in Cucumber."],"pmcid":["PMC12027353"],"funding_grant_id":["2023AH051056"],"pubmed_authors":["Yang J","Li J","Gao Y","Su K","Ao W","Sun Z","Gan D"],"additional_accession":[]},"is_claimable":false,"name":"Resequencing and Transcriptome Analyses Reveal Variations and Expression Patterns of the RR Gene Family in Cucumber.","description":"<h4>Background</h4>Cucumber (<i>Cucumis sativus</i> L.) is an important economic crop worldwide. Response regulators (RRs) play crucial roles in plant growth, development, and responses to both biotic and abiotic stresses.<h4>Methods</h4>Combined analysis of 182 re-sequencing and transcriptome datasets was conducted to investigate <i>CsRR</i> variations, with subsequent RT-qPCR experiments confirming its functional significance.<h4>Results</h4>In this study, 18 <i>CsRR</i> genes were identified and classified into three groups according to their protein structures: A-ARRs (3), B-ARRs (8), and PRRs (7). Resequencing uncovered critical mutations (non-synonymous SNPs, frameshift, and stop-gain variants) in <i>CsRR</i> genes. Transcriptome data revealed that five genes responded to abiotic stress and four responded to biotic stress. <i>CsPRR1</i> was upregulated in both resistant and susceptible lines at five dpi, downregulated in resistant plants at nine dpi, and showed no significant difference at 11 dpi. <i>CsPRR2</i> was consistently upregulated in both lines at 5, 9, and 11 dpi. <i>CsPRR3</i> was upregulated in resistant lines at nine dpi but downregulated at 11 dpi. <i>CsARR8</i> was significantly downregulated in both lines at 9 and 11 dpi. Notably, <i>CsPRR2</i> demonstrated dual functionality related to (i) the regulation of immature fruit skin color via a stop-gain InDel and (ii) resistance to Foc, as the gene was upregulated in both resistant and susceptible lines after inoculation with the pathogen.<h4>Conclusions</h4>This study integrated resequencing and transcriptomic data to comprehensively characterize <i>CsRR</i> genes, establishing a foundation for further exploration of their functional mechanisms in cucumber.","dates":{"release":"2025-01-01T00:00:00Z","publication":"2025 Mar","modification":"2026-07-03T03:27:13.192Z","creation":"2025-07-07T03:08:49.417Z"},"accession":"S-EPMC12027353","cross_references":{"pubmed":["40282369"],"doi":["10.3390/genes16040409"]}}