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马铃薯(L.)ALKB 同源基因家族的全基因组鉴定和表达分析

Genome-Wide Identification and Expression Analysis of the ALKB Homolog Gene Family in Potato ( L.).

机构信息

Integrative Science Center of Germplasm Creation in Western China (CHONGQING) Science City, Biological Science Research Center, Southwest University, Chongqing 400716, China.

College of Agronomy and Biotechnology, Southwest University, Chongqing 400715, China.

出版信息

Int J Mol Sci. 2024 Oct 12;25(20):10984. doi: 10.3390/ijms252010984.

Abstract

-methyladenosine (mA) is an abundant and pervasive post-transcriptional modification in eukaryotic mRNAs. AlkB homolog (ALKBH) proteins play crucial roles in RNA metabolism and translation, participating in mA methylation modification to regulate plant development. However, no comprehensive investigations have been conducted on in potato. Here, 11 family genes were identified in potato and renamed according to BLASTP and phylogenetic analyses following the genome. The characteristics, sequence structures, motif compositions, phylogenetics, chromosomal locations, synteny, and promoter -acting element predictions were analyzed, revealing distinct evolutionary relationships between potato and other species (tomato and ). Homologous proteins were classified into seven groups depending on similar conserved domains, which implies that they possess a potentially comparable function. Moreover, the s were ubiquitous, and their expression was examined in the various tissues of a whole potato, in which the genes, except for were most highly expressed in the stolon and flower. Multiple hormone and stress-response elements were found to be located in the promoters of the genes. Further qRT-PCR results suggest that they may be significantly upregulated in response to phytohormones and abiotic stress (except for cold), and the expression of most of the genes exhibited positively modulated trends. Overall, this study is the first to report a genome-wide assessment of the family in potato, providing valuable insights into candidate gene selection and facilitating in-depth functional analyses of ALKBH-mediated mA methylation mechanisms in potato.

摘要

N6-甲基腺嘌呤(m6A)是真核生物 mRNA 中丰富且普遍存在的转录后修饰。 AlkB 同源物(ALKBH)蛋白在 RNA 代谢和翻译中发挥着重要作用,参与 m6A 甲基化修饰以调节植物发育。然而,在马铃薯中,尚未对其进行全面研究。在这里,在马铃薯中鉴定出 11 个家族基因,并根据 BLASTP 和系统发育分析,根据 基因组进行了重新命名。分析了特征、序列结构、基序组成、系统发育、染色体位置、同线性和启动子作用元件预测,揭示了马铃薯与其他物种(番茄和拟南芥)之间的明显进化关系。同源蛋白根据相似的保守结构域分为七个组,这表明它们具有潜在的可比功能。此外,这些基因是普遍存在的,在整个马铃薯的各种组织中检测到其表达,其中除了 之外,基因在匍匐茎和花中表达量最高。在 基因的启动子中发现了多种激素和应激响应元件。进一步的 qRT-PCR 结果表明,它们可能对植物激素和非生物胁迫(除冷胁迫外)显著上调,大多数 基因的表达呈现出正调控趋势。总的来说,本研究首次对马铃薯中的 家族进行了全基因组评估,为候选基因选择提供了有价值的见解,并促进了马铃薯中 ALKBH 介导的 m6A 甲基化机制的深入功能分析。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/d4ec/11507222/95b8cb415d52/ijms-25-10984-g001.jpg

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