ArticleBMC plant biology2025
Genome-wide association study reveals putative candidate genes in cucumber (Cucumis sativus L.) associated with shoot and root system architecture traits under water stress conditions.
Article in BMC plant biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1 paper.
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1 citing paper in PubMed.
- Deciphering differential mRNA and lncRNA expression profiles in response to PEG simulated drought stress in cucumber (Cucumis sativus L.).Journal, genetic engineering & biotechnology · 2026Article
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10 authors.
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Abstract
Cucumber is a highly preferred salad vegetable, but it is highly sensitive to drought due to its high water requirement. Therefore, the identification of genomic regions will be highly effective in understanding drought-tolerance breeding programs. In our study, an association panel of 86 diverse cucumber breeding lines was used to detect significant marker-trait associations (MTAs) through the Genome-wide Association Study (GWAS). Phenotyping was done under two different stress conditions - water-deficit and PEG-stimulated stress in the hydroponic medium by measuring different shoot and root system architecture-related traits such as Seedling survivability percentage (SSP), Shoot length (SL), Total root length (TRL), Root volume (RV), Root surface area (RSA), Average root diameter (ARD), Number of root tips (NRT), forks (NRF) and crossings (NRC). Analysis of variance and descriptive statistics revealed the significant differences among these studied traits, and thus, these data can be processed for further association analysis. Through GWAS, a total of 52 stable SNPs were identified for all the traits except for ARD, and five were linked to more than one trait, i.e. pleiotropic influence. The maximum stable SNPs were detected on Chromosome 3, followed by Chromosome 7 and Chromosome 5. Further, in silico search of these stable SNPs against the C. s. var. sativus reference genome revealed the presence of 12 SNPs at or near (1 kb) the genomic regions encoding for putative candidate genes (e.g. RBPs, ARFs, WDRs, etc.) and transcription factors (bHLH, ZNF, LRR-RLK) which are highly relevant for further in-depth functional analysis of cucumber root system. In future, these stable SNPs will be highly useful for marker-assisted transfer of the genes/QTLs to develop climate-smart drought-resilience cultivars.
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