State Key Laboratory of Cotton Biology, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, China.
National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan 40070, China.
Int J Mol Sci. 2018 Feb 6;19(2):483. doi: 10.3390/ijms19020483.
Members of the transcription factor gene family play important roles in diverse processes related to plant growth and development, such as seed development, drought tolerance, and flowering time. However, the function of genes in cotton remains unclear. A total of 23, 24, and 50 genes were identified in (), (), and , respectively. A systematic phylogenetic analysis was carried out in , , , , cacao, rice and, sorghum, where the 150 genes were divided into five groups (α-ε). Of these groups, α is the largest clade, and γ contains the LEC1 type NF-YB proteins. Syntenic analyses revealed that paralogues of genes in exhibited good collinearity. Owing to segmental duplication within the A sub-genome (A) and D sub-genome (D), there was an expanded set of genes in . Furthermore, we investigated the structures of exons, introns, and conserved motifs of genes in upland cotton. Most of the genes had only one exon, and the genes from the same clade exhibited a similar motif pattern. Expression data show that most genes were expressed ubiquitously, and only a few genes were highly expressed in specific tissues, as confirmed by quantitative real-time PCR (qRT-PCR) analysis. The overexpression of gene, predominantly expressed in embryonic tissues, indicates that may affect embryogenesis in cotton. This study is the first comprehensive characterization of the gene family in cotton, and showed that genes could be divided into five clades. The duplication events that occurred over the course of evolution were the major impetus for gene expansion in upland cotton. Collectively, this work provides insight into the evolution of in cotton and further our knowledge of this commercially important species.
转录因子基因家族的成员在与植物生长和发育相关的各种过程中发挥着重要作用，例如种子发育、耐旱性和开花时间。然而，棉花中基因的功能尚不清楚。在 、 和 中分别鉴定出 23、24 和 50 个 基因。在 、 、 、可可、水稻和 、高粱中进行了系统的系统发育分析，其中 150 个基因分为五个组（α-ε）。在这些组中，α是最大的进化枝，γ包含 LEC1 型 NF-YB 蛋白。共线性分析表明， 基因的同源基因在 中表现出良好的共线性。由于 A 亚基因组（A）和 D 亚基因组（D）内的片段重复， 中存在一组扩展的 基因。此外，我们研究了陆地棉 基因的外显子、内含子和保守基序的结构。大多数 基因只有一个外显子，来自同一进化枝的基因表现出相似的基序模式。表达数据表明，大多数 基因广泛表达，只有少数基因在特定组织中高度表达，这通过定量实时 PCR（qRT-PCR）分析得到证实。在胚胎组织中主要表达的 基因的过表达表明 可能会影响棉花的胚胎发生。本研究首次对棉花 基因家族进行了全面描述，并表明 基因可分为五个进化枝。进化过程中发生的重复事件是陆地棉 基因扩展的主要动力。总之，这项工作为棉花 基因的进化提供了深入的了解，并进一步加深了我们对这一商业上重要物种的认识。
