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《桃金娘科 L. 基因家族的全基因组鉴定与分析》

Genome-Wide Identification and Analysis of Gene Family in L. (Myrtaceae).

机构信息

Programa de Pós-Graduação em Genética e Biologia Molecular (PPGBM), Departamento de Genética, Instituto de Biociências, UFRGS, Av. Bento Gonçalvez 9500, Porto Alegre 91509-900, Brazil.

Escuela de Medicina, Universidad Científica del Sur, Lima 15067, Peru.

出版信息

Genes (Basel). 2022 Nov 28;13(12):2235. doi: 10.3390/genes13122235.

Abstract

is a Brazilian native plant species with great ecological and economic importance. It is distributed throughout the Atlantic forest, where two distinct populations show local adaptation to the contrasting conditions of restinga and riparian forest. Among various TFs described in plants, the TF family has been reported to affect flowering and vascular development, making them promising candidates for characterization in . In this study, 28 genes were identified by a genome-wide analysis, of which 20 were grouped into 11 MCOGs by Bayesian phylogeny, suggesting a shared functionallity between members. Based on RNA-seq experiments, we have detected eight drought responsive genes, and SNPs identification revealed population unique polymorphisms, implying a role in local adapatation mechanisms. Finally, analysis of conserved motifs through MEME revealed 15 different protein motifs, and a promoter region analysis returned 40 enriched TF binding motifs, both reporting novel biological functions circa the gene family. In general, the family is found to be conserved both in sequence and expression. Furthermore, this study contributes to both literature and the genetic exploration of native species, elucidating their genetic potential and bringing to light new research topics, paving the way to future studies.

摘要

是一种具有重要生态和经济意义的巴西本土植物物种。它分布于整个大西洋森林,其中两个不同的种群表现出对休息区和河岸林的对比条件的局部适应。在植物中描述的各种 TF 中,已经报道了 TF 家族影响开花和血管发育,使它们成为特征描述的有希望的候选者。在这项研究中,通过全基因组分析鉴定了 28 个基因,其中 20 个通过贝叶斯系统发育分为 11 个 MCOG,表明成员之间具有共享的功能。基于 RNA-seq 实验,我们已经检测到 8 个干旱响应基因,SNP 鉴定揭示了种群特有的多态性,暗示了它们在局部适应机制中的作用。最后,通过 MEME 对保守基序的分析揭示了 15 个不同的蛋白质基序,启动子区域分析返回了 40 个富含 TF 结合基序,都报告了该基因家族的新的生物学功能。总的来说,发现 家族在序列和表达上都是保守的。此外,这项研究不仅为 文献做出了贡献,也为本土物种的遗传探索做出了贡献,阐明了它们的遗传潜力,并揭示了新的研究课题,为未来的研究铺平了道路。

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