School of Life Sciences, Nantong University, Nantong, 226019, Jiangsu, China.
Key Laboratory of Cotton Breeding and Cultivation in Huang-Huai-Hai Plain, Ministry of Agriculture and Rural Affairs of China, Institute of Industrial Crops, Shandong Academy of Agricultural Sciences, Jinan, 250100, Shandong, China.
Theor Appl Genet. 2024 Jan 31;137(2):40. doi: 10.1007/s00122-024-04541-z.
Analysis of fiber quality lncRNAs and their target genes from a pair of Gossypium mustelinum near-isogenic lines provide new prospects for improving the fiber quality of Upland cotton. Long noncoding RNAs (lncRNAs) are an important part of genome transcription and play roles in a wide range of biological processes in plants. In this research, a pair of near-isogenic cotton lines, namely, a Gossypium mustelinum introgression line (IL9) with outstanding fiber quality and its recurrent Upland cotton parent (PD94042), were used as the experimental materials. Cotton fibers were selected for lncRNA sequencing at 17 and 21 days post-anthesis. A total of 2693 differentially expressed genes were identified. In total, 5841 lncRNAs were ultimately screened, from which 163 differentially expressed lncRNAs were identified. Target genes of the lncRNAs were predicted by two different methods: cis and trans. Some of the target genes were related to cell components, membrane components, plant hormone signal transduction and catalytic metabolism, and the results indicated that there might also be important effects on the development of fiber. Four differentially expressed target genes related to fiber quality (Gomus.D05G015100, Gomus.A05G281300, Gomus.A12G023400 and Gomus.A10G226800) were screened through gene function annotation, and the functions of these four genes were verified through virus-induced gene silencing (VIGS). Compared to the negative controls, plants in which any of these four genes were silenced showed significant reductions in fiber strength. In addition, the plants in which the Gomus.A12G023400 gene was silenced showed a significant reduction in fiber uniformity, whereas the plants in which Gomus.A05G281300 was silenced showed a significant increase in fiber fineness as measured via micronaire. Our results showed that these genes play different roles during fiber development, impacting fiber quality.
一对海岛棉近等基因系的纤维品质长链非编码 RNA 及其靶基因分析为提高陆地棉纤维品质提供了新的前景。长链非编码 RNA（lncRNA）是基因组转录的重要组成部分，在植物的广泛的生物学过程中发挥作用。在这项研究中，以具有优异纤维品质的海岛棉导入系（IL9）及其轮回亲本陆地棉 PD94042 为实验材料，对 17 天和 21 天开花后的棉花纤维进行 lncRNA 测序。共鉴定出 2693 个差异表达基因。共筛选出 5841 个 lncRNA，最终鉴定出 163 个差异表达的 lncRNA。通过两种不同的方法预测 lncRNA 的靶基因：顺式和反式。其中一些靶基因与细胞成分、膜成分、植物激素信号转导和催化代谢有关，结果表明，这些靶基因可能对纤维发育也有重要影响。通过基因功能注释筛选到 4 个与纤维品质相关的差异表达靶基因（Gomus.D05G015100、Gomus.A05G281300、Gomus.A12G023400 和 Gomus.A10G226800），并通过病毒诱导基因沉默（VIGS）验证了这四个基因的功能。与阴性对照相比，沉默这四个基因中的任何一个基因的植株的纤维强度都显著降低。此外，沉默 Gomus.A12G023400 基因的植株纤维均匀度显著降低，而沉默 Gomus.A05G281300 基因的植株纤维细度显著增加。结果表明，这些基因在纤维发育过程中发挥不同的作用，影响纤维品质。
