珍珠粟(Pennisetum glaucum)种质中蛋白质和氨基酸遗传变异的全基因组 SNP 和候选基因

IF 3.6 3区 生物学 Q1 PLANT SCIENCES
Planta Pub Date : 2024-07-27 DOI:10.1007/s00425-024-04495-y
Satbeer Singh, Chandra Bhan Yadav, Nelson Lubanga, Matthew Hegarty, Rattan S. Yadav
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引用次数: 0

摘要

主要结论共鉴定出与总蛋白和18种氨基酸相关的544个显著标记性状关联和286个候选基因。在强标记性状关联(- log10P ≥ 5.5)附近发现了 33 个候选基因。摘要珍珠粟(Pennisetum glaucum)在南亚和撒哈拉以南非洲地区主要作为自给作物种植。它是这些地区每日蛋白质摄入的主要来源。尽管珍珠粟非常重要,但目前还没有系统研究珍珠粟种质中蛋白质和氨基酸含量的遗传变异。本研究利用一组 435 K 单核苷酸多态性(SNPs)和 161 个珍珠粟近交种质协会小组(PMiGAP)基因型,剖析了珍珠粟中总蛋白质和 18 种必需和非必需氨基酸的全球遗传变异。共检测到 544 个显著的标记-性状关联(P < 0.0001; - log10P ≥ 4),并使用 Bonferroni 校正方法确定了 23 个强标记-性状关联。在所研究性状的基因组中发现了 48 个多效基因位点。总共发现了 286 个与总蛋白质和 18 种氨基酸相关的候选基因。在强相关 SNP 附近发现了 33 个候选基因。相关标记和候选基因有助于深入了解所研究性状的遗传结构,对今后培育改良珍珠粟品种很有帮助。改良珍珠粟品种具有更高的蛋白质和氨基酸组成,将有助于通过饮食解决日益严重的营养不良问题。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Genome-wide SNPs and candidate genes underlying the genetic variations for protein and amino acids in pearl millet (Pennisetum glaucum) germplasm

Genome-wide SNPs and candidate genes underlying the genetic variations for protein and amino acids in pearl millet (Pennisetum glaucum) germplasm

Main conclusion

A total of 544 significant marker-trait associations and 286 candidate genes associated with total protein and 18 amino acids were identified. Thirty-three candidate genes were found near the strong marker trait associations (– log10P ≥ 5.5).

Abstract

Pearl millet (Pennisetum glaucum) is largely grown as a subsistence crop in South Asia and sub-Saharan Africa. It serves as a major source of daily protein intake in these regions. Despite its importance, no systematic effort has been made to study the genetic variations of protein and amino acid content in pearl millet germplasm. The present study was undertaken to dissect the global genetic variations of total protein and 18 essential and non-essential amino acids in pearl millet, using a set of 435 K Single Nucleotide Polymorphisms (SNPs) and 161 genotypes of the Pearl Millet Inbred Germplasm Association Panel (PMiGAP). A total of 544 significant marker-trait associations (at P < 0.0001; – log10P ≥ 4) were detected and 23 strong marker-trait associations were identified using Bonferroni’s correction method. Forty-eight pleiotropic loci were found in the genome for the studied traits. In total, 286 candidate genes associated with total protein and 18 amino acids were identified. Thirty-three candidate genes were found near strongly associated SNPs. The associated markers and the candidate genes provide an insight into the genetic architecture of the traits studied and are going to be useful in breeding improved pearl millet varieties in the future. Availabilities of improved pearl millet varieties possessing higher protein and amino acid compositions will help combat the rising malnutrition problem via diet.

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来源期刊
Planta
Planta 生物-植物科学
CiteScore
7.20
自引率
2.30%
发文量
217
审稿时长
2.3 months
期刊介绍: Planta publishes timely and substantial articles on all aspects of plant biology. We welcome original research papers on any plant species. Areas of interest include biochemistry, bioenergy, biotechnology, cell biology, development, ecological and environmental physiology, growth, metabolism, morphogenesis, molecular biology, new methods, physiology, plant-microbe interactions, structural biology, and systems biology.
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