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在 L. 中进行全基因组鉴定和基因家族的系统发生和表达分析

Genome-Wide Identification and Phylogenetic and Expression Analyses of the Gene Family in L.

机构信息

Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China.

College of Life Science and Technology, Harbin Normal University, Harbin 150025, China.

出版信息

Int J Mol Sci. 2023 Jan 25;24(3):2388. doi: 10.3390/ijms24032388.

Abstract

The PLATZ family is a novel class of plant-specific zinc finger transcription factors with important roles in plant growth and development and abiotic stress responses. PLATZ members have been identified in many plants, including , , , , and ; however, due to the complexity of the alfalfa reference genome, the members of the PLATZ gene family in alfalfa ( L.) have not been systematically identified and analyzed. In this study, 55 genes () were identified in the alfalfa "Xinjiangdaye" reference genome. Basic bioinformatic analysis was performed, including the characterization of sequence lengths, protein molecular weights, genomic positions, and conserved motifs. Expression analysis reveals that 7 are tissue-specifically expressed, and 10 are expressed in all examined tissues. The transcriptomic expression of these genes is obvious, indicating that these s have different functions in the growth and development of alfalfa. Based on transcriptome data analysis and real-time quantitative PCR (RT-qPCR), we identified 22, 22, and 21 genes that responded to salt, cold, and drought stress, respectively, with 20 responding to all three stresses. This study lays a foundation for further exploring the functions of , and provides ideas for the improvement of alfalfa varieties and germplasm innovation.

摘要

PLATZ 家族是一类新型的植物特异性锌指转录因子,在植物生长发育和非生物胁迫响应中具有重要作用。PLATZ 成员已在许多植物中被鉴定出来,包括拟南芥、水稻、玉米、番茄和杨树;然而,由于紫花苜蓿参考基因组的复杂性,紫花苜蓿(Medicago sativa L.)PLATZ 基因家族的成员尚未被系统地鉴定和分析。在本研究中,在紫花苜蓿“新疆大叶”参考基因组中鉴定出了 55 个基因()。进行了基本的生物信息学分析,包括序列长度、蛋白质分子量、基因组位置和保守基序的特征描述。表达分析表明,有 7 个基因组织特异性表达,有 10 个基因在所有检测的组织中表达。这些基因的转录组表达明显,表明这些基因在紫花苜蓿的生长发育中有不同的功能。基于转录组数据分析和实时定量 PCR(RT-qPCR),我们分别鉴定出 22、22 和 21 个基因对盐、冷和干旱胁迫有响应,其中 20 个基因对这三种胁迫都有响应。本研究为进一步探索基因的功能奠定了基础,并为紫花苜蓿品种改良和种质创新提供了思路。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/f371/9916490/0ef034b03dba/ijms-24-02388-g001.jpg

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