State Key Laboratory of Cotton Biology, Key Laboratory of Biological and Genetic Breeding of Cotton, Ministry of Agriculture, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China; State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling, China.
State Key Laboratory of Cotton Biology, Key Laboratory of Biological and Genetic Breeding of Cotton, Ministry of Agriculture, Institute of Cotton Research, Chinese Academy of Agricultural Sciences, Anyang 455000, Henan, China.
Gene. 2019 Jan 5;680:72-83. doi: 10.1016/j.gene.2018.09.039. Epub 2018 Sep 22.
GATA transcription factors (TFs), which bind to DNA in regulatory regions, are involved in cell differentiation and possess a type-IV zinc finger and a DNA-binding domain. GATA genes have been characterized in plant species such as Arabidopsis thaliana, Oryza sativa, and Glycine max, and their functions have been elucidated in A. thaliana. Although many Gossypium quantitative trait loci for fiber quality harbor GATA TFs, GATA genes have not yet been characterized in cotton. In this study, we identified 179 GATA genes from the genomes of three Gossypium species. We analyzed the phylogenetic relationships, chromosomal distribution, gene structure, expression pattern, and predicted promoters of all 179 Gossypium GATA genes (46 in G. raimondii, 46 in G. arboreum, and 87 in G. hirsutum). Phylogenetic analysis grouped the 179 GATA genes into four subfamilies. Domain analysis revealed that GATA domains in subfamilies I, II, and III were located near the C-terminal, whereas those in subfamily IV were adjacent to the N-terminal. RNA-seq and (Real-time PCR) qRT-PCR revealed that 39.1% (34/87) of GATA genes were expressed in growing plant tissues in G. hirsutum, but only 12.6% (11/87) were expressed during fiber development. In addition, 45.7% (21/46) and 26.1% (12/46) of GATA genes were expressed in G. arboreum and G. raimondii, respectively. Our results may be useful for elucidating the evolution, expression patterns, and functional divergence of GATA genes in Gossypium.
GATA 转录因子（TFs）结合到调节区域的 DNA 上，参与细胞分化，具有 IV 型锌指和 DNA 结合域。在拟南芥、水稻和大豆等植物物种中已经鉴定出 GATA 基因，并且在拟南芥中阐明了它们的功能。尽管许多棉花纤维品质的数量性状位点都含有 GATA TF，但棉花中尚未对 GATA 基因进行鉴定。在这项研究中，我们从三个棉属物种的基因组中鉴定出 179 个 GATA 基因。我们分析了所有 179 个 Gossypium GATA 基因（G. raimondii 中有 46 个，G. arboreum 中有 46 个，G. hirsutum 中有 87 个）的系统发育关系、染色体分布、基因结构、表达模式和预测启动子。系统发育分析将 179 个 GATA 基因分为四个亚家族。结构域分析表明，亚家族 I、II 和 III 的 GATA 结构域位于 C 端附近，而亚家族 IV 的 GATA 结构域位于 N 端附近。RNA-seq 和（实时 PCR）qRT-PCR 显示，在 G. hirsutum 中，39.1%（34/87）的 GATA 基因在生长的植物组织中表达，但只有 12.6%（11/87）在纤维发育过程中表达。此外，G. arboreum 和 G. raimondii 中分别有 45.7%（21/46）和 26.1%（12/46）的 GATA 基因表达。我们的结果可能有助于阐明 Gossypium 中 GATA 基因的进化、表达模式和功能分化。
