Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology (KRIBB), Daejeon, 34141, Republic of Korea.
Department of Bioinformatics, KRIBB School of Bioscience, Korea University of Science and Technology (UST), Daejeon, 34141, Republic of Korea.
Sci Data. 2024 Feb 27;11(1):246. doi: 10.1038/s41597-024-03077-7.
Hibiscus syriacus L. is a renowned ornamental plant. We constructed 95 chloroplast genomes of H. syriacus L. cultivars using a short-read sequencing platform (Illumina) and a long-read sequencing platform (Oxford Nanopore Technology). The following genome assembly, we delineate quadripartite structures encompassing large single-copy, small single-copy, and inverted repeat (IRa and IRb) regions, from 160,231 bp to 161,041 bp. Our comprehensive analyses confirmed the presence of 79 protein-coding genes, 30 tRNA genes, and 4 rRNA genes in the pan-chloroplast genome, consistent with prior research on the H. syriacus chloroplast genome. Subsequent pangenome analysis unveiled widespread genome sequence conservation alongside unique cultivar-specific variant patterns consisting of 193 single-nucleotide polymorphisms and 61 insertions or deletions. The region containing intra-species variant patterns, as identified in this study, has the potential to develop accession-specific molecular markers, enhancing precision in cultivar classification. These findings are anticipated to drive advancements in breeding strategies, augment biodiversity, and unlock the agricultural potential inherent in H. syriacus.
红花玉兰（Hibiscus syriacus L.）是一种著名的观赏植物。我们使用短读测序平台（Illumina）和长读测序平台（Oxford Nanopore Technology）构建了 95 个红花玉兰品种的叶绿体基因组。我们对叶绿体基因组进行了全面分析，确认了存在 79 个蛋白编码基因、30 个 tRNA 基因和 4 个 rRNA 基因，其大小在 160231bp 到 161041bp 之间。这些基因的排列顺序与前人对红花玉兰叶绿体基因组的研究结果一致，呈现出四分体结构，包括大单拷贝区、小单拷贝区和反向重复区（IRa 和 IRb）。随后的泛基因组分析揭示了广泛的基因组序列保守性，同时存在独特的品种特异性变体模式，包括 193 个单核苷酸多态性和 61 个插入或缺失。本研究中鉴定的种内变异区，有望开发出特定于品种的分子标记，提高品种分类的准确性。这些发现有望推动育种策略的发展、增加生物多样性，并挖掘红花玉兰的农业潜力。
