Genomics Studies in Okra and Marker Development: An Overview
摘要
NGS technology has been employed to develop SSR markers in okra. A number of studies based on both partial genome and transcriptome data have developed microsatellite markers. Recently, a total of 10,492 SSRs were identified from comprehensive transcriptome data from nine different parts of okra, along with seedlings under various abiotic stresses. The comprehensive transcriptome study also revealed 57,675 lncRNA and documented 20,558 TFs. The transcription factor families AP2, ERF, WRKY, bZIP, bHLH, MYB, MYB_related, GRAS, NAC, ARR-B, and HSF were found to be strongly implicated in abiotic stress. Recently, transcriptome analysis, whole-genome sequencing of okra, and comparative genomics analysis gained insights into the phylogenetic position of A. esculentus (okra) and identified widespread whole-genome duplication (WGD) events within the Malvaceae species. WGD events led to significant genomic deletions in okra; however, a considerable amount of genes linked to secondary metabolite production and adaptation to the environment were conserved. Through the integration of transcriptomic and metabolomic analyses, the intricate relationship between gene expression and changes in metabolite content across different developmental stages of okra was studied. The first published okra genome was obtained through a comprehensive sequencing approach using different technologies, specifically 58.66 Gb of HiFi long reads, 55.18 Gb of Hi-C paired reads, and 94.59 Gb of Illumina sequencing reads. This would pave the way for studies on marker-trait association and MAS.