Guangxi Key Laboratory of Sugarcane Biology, State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, College of Agriculture, Guangxi University, Nanning, 530004, China.
College of Life Science, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Fujian Agriculture and Forestry University, Fuzhou, 350002, China.
BMC Genomics. 2021 Oct 27;22(1):767. doi: 10.1186/s12864-021-08090-3.
SQUAMOSA promoter binding proteins (SBPs) genes encode a family of plant-specific transcription factors involved in various growth and development processes, including flower and fruit development, leaf initiation, phase transition, and embryonic development. The SBP gene family has been identified and characterized in many species, but no systematic analysis of the SBP gene family has been carried out in sugarcane.
In the present study, a total of 50 sequences for 30 SBP genes were identified by the genome-wide analysis and designated SsSBP1 to SsSBP30 based on their chromosomal distribution. According to the phylogenetic tree, gene structure and motif features, the SsSBP genes were classified into eight groups (I to VIII). By synteny analysis, 27 homologous gene pairs existed in SsSBP genes, and 37 orthologous gene pairs between sugarcane and sorghum were found. Expression analysis in different tissues, including vegetative and reproductive organs, showed differential expression patterns of SsSBP genes, indicating their functional diversity in the various developmental processes. Additionally, 22 SsSBP genes were predicted as the potential targets of miR156. The differential expression pattern of miR156 exhibited a negative correlation of transcription levels between miR156 and the SsSBP gene in different tissues.
The sugarcane genome possesses 30 SsSBP genes, and they shared similar gene structures and motif features in their subfamily. Based on the transcriptional and qRT-PCR analysis, most SsSBP genes were found to regulate the leaf initial and female reproductive development. The present study comprehensively and systematically analyzed SBP genes in sugarcane and provided a foundation for further studies on the functional characteristics of SsSBP genes during different development processes.
启动子结合蛋白（SBPs）基因编码一类植物特异性转录因子，参与各种生长和发育过程，包括花和果实发育、叶片起始、阶段转变和胚胎发育。SBP 基因家族已在许多物种中被鉴定和描述，但在甘蔗中尚未进行 SBP 基因家族的系统分析。
本研究通过全基因组分析共鉴定到 50 个 SBP 基因序列，并根据其染色体分布将其命名为 SsSBP1 至 SsSBP30。根据系统发育树、基因结构和基序特征，将 SsSBP 基因分为 8 组（I 至 VIII）。通过共线性分析，在 SsSBP 基因中存在 27 对同源基因对，在甘蔗和高粱之间发现了 37 对直系同源基因对。在不同组织（包括营养器官和生殖器官）中的表达分析表明，SsSBP 基因表现出不同的表达模式，表明它们在各种发育过程中具有功能多样性。此外，预测到 22 个 SsSBP 基因是 miR156 的潜在靶标。miR156 的差异表达模式表明 miR156 和不同组织中的 SsSBP 基因之间的转录水平呈负相关。
甘蔗基因组含有 30 个 SsSBP 基因，它们在亚家族中具有相似的基因结构和基序特征。基于转录和 qRT-PCR 分析，大多数 SsSBP 基因被发现调节叶片起始和雌性生殖发育。本研究全面系统地分析了甘蔗中的 SBP 基因，为进一步研究 SsSBP 基因在不同发育过程中的功能特征提供了基础。
