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首页> 外文期刊>Proceedings of the National Academy of Sciences of the United States of America >Population genomic and genome-wide association studies of agroclimatic traits in sorghum
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Population genomic and genome-wide association studies of agroclimatic traits in sorghum

机译：高粱农业气候性状的群体基因组和全基因组关联研究

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摘要

Accelerating crop improvement in sorghum, a staple food for people in semiarid regions across the developing world, is key to ensuring global food security in the context of climate change. To facilitate gene discovery and molecular breeding in sorghum, we have characterized ～265,000 single nucleotide polymorphisms (SNPs) in 971 worldwide accessions that have adapted to diverse agroclimatic conditions. Using this genome-wide SNP map, we have characterized population structure with respect to geographic origin and morphological type and identified patterns of ancient crop diffusion to diverse agroclimatic regions across Africa and Asia. To better understand the genomic patterns of diversification in sorghum, we quantified variation in nucleotide diversity, linkage disequilibrium, and recombination rates across the genome. Analyzing nucleotide diversity in landraces, we find evidence of selective sweeps around starch metabolism genes, whereas in landrace-derived introgression lines, we find introgressions around known height and maturity loci. To identify additional loci underlying variation in major agroclimatic traits, we performed genome-wide association studies (GWAS) on plant height components and inflorescence architecture. GWAS maps several classical loci for plant height candidate genes for inflorescence architecture. Finally, we trace the independent spread of multiple haplotypes carrying alleles for short stature or long inflorescence branches. This genome-wide map of SNP variation in sorghum provides a basis for crop improvement through marker-assisted breeding and genomic selection.%Department of Biological Sciences, University of South Carolina, Columbia, SC 29208;rnInternational Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;rnInternational Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;rnICRISAT-Sadore, BP 12404 Niamey, Niger;rnInternational Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;rnInternational Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;rnInternational Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;rnDepartment of Crop Sciences, University of Illinois, Urbana, IL 61801;rnInstitute for Genomic Diversity, Cornell University, Ithaca, NY 14853;rnInstitute for Genomic Diversity, Cornell University, Ithaca, NY 14853;rnInstitute for Genomic Diversity, Cornell University, Ithaca, NY 14853;rnInstitute for Genomic Diversity, Cornell University, Ithaca, NY 14853;rnInstitute for Genomic Diversity, Cornell University, Ithaca, NY 14853,Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853,Agricultural Research Service, Department of Agriculture, Ithaca, NY 14853;rnDepartment of Biological Sciences, University of South Carolina, Columbia, SC 29208;
机译：高粱是发展中世界半干旱地区人民的主要食品，高粱加速作物增产，对于确保气候变化背景下的全球粮食安全至关重要。为了促进高粱中的基因发现和分子育种，我们在971个全球适应不同农业气候条件的种质中鉴定了约265,000个单核苷酸多态性（SNP）。使用此全基因组SNP图谱，我们就地理起源和形态类型表征了种群结构，并确定了古代农作物向非洲和亚洲不同农业气候区扩散的模式。为了更好地了解高粱多样化的基因组模式，我们对核苷酸多样性，连锁不平衡以及整个基因组中的重组率进行了定量分析。分析地方品种的核苷酸多样性，我们发现淀粉代谢基因周围有选择性扫描的证据，而在地方品种衍生的基因渗入系中，我们发现了已知高度和成熟位点周围的基因渗入。为了确定主要农业气候性状中潜在的其他位点变异，我们对植物高度成分和花序结构进行了全基因组关联研究（GWAS）。 GWAS绘制了几个经典的基因座，用于花序结构的植物高度候选基因。最后，我们追踪携带等位基因的多个单倍型的独立传播，这些等位基因的身高或花序短。这张高粱SNP变异的全基因组图谱为通过标记辅助育种和基因组选择改善作物提供了基础。%% s，南卡罗来纳大学生物科学系，哥伦比亚，SC 29208； rn国际半干旱作物研究所Tropics（ICRISAT），印度安得拉邦海得拉巴502 324； rn国际半干旱热带作物研究所（ICRISAT），印度安得拉邦海得拉巴502 324； rnICRISAT-Sadore，BP 12404；尼日尔尼亚美； rn国际作物研究半干旱热带研究所（ICRISAT），印度安得拉邦海德拉巴502 324； rn国际半干旱热带作物研究所（ICRISAT），印度安得拉邦海得拉巴502 324国际作物研究所； rn国际半干旱作物研究所-Arid Tropics（ICRISAT），印度安得拉邦海得拉巴502 324；伊利诺伊大学农作物科学系，伊利诺伊州61801； rn康奈尔大学基因组多样性研究所，纽约伊萨卡14853； rn康奈尔大学基因组多样性研究所，纽约伊萨卡14853； rn康奈尔大学基因组多样性研究所，纽约伊萨卡14853； rn康奈尔大学基因组多样性研究所，纽约伊萨卡14853； rn康奈尔大学基因组多样性研究所，纽约州14853，康奈尔大学植物育种与遗传学系，伊萨卡，纽约州14853，农业部农业研究服务，伊萨卡州，纽约州14853； rn南卡罗来纳大学生物科学系，哥伦比亚，SC 29208；

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  • 作者

    Geoffrey P. Morris; Punna Ramu; Santosh P. Deshpande; C. Thomas Hash; Trushar Shah; Hari D. Upadhyaya; Oscar Riera-Lizarazu; Patrick J. Brown; Charlotte B. Acharya; Sharon E. Mitchell; James Harriman; Jeffrey C. Glaubitz; Edward S. Buckler; Stephen Kresovich;

  • 作者单位

    Department of Biological Sciences, University of South Carolina, Columbia, SC 29208;

    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;

    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;

    ICRISAT-Sadore, BP 12404 Niamey, Niger;

    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;

    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;

    International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, Andhra Pradesh, India;

    Department of Crop Sciences, University of Illinois, Urbana, IL 61801;

    Institute for Genomic Diversity, Cornell University, Ithaca, NY 14853;

    Institute for Genomic Diversity, Cornell University, Ithaca, NY 14853;

    Institute for Genomic Diversity, Cornell University, Ithaca, NY 14853;

    Institute for Genomic Diversity, Cornell University, Ithaca, NY 14853;

    Institute for Genomic Diversity, Cornell University, Ithaca, NY 14853,Department of Plant Breeding and Genetics, Cornell University, Ithaca, NY 14853,Agricultural Research Service, Department of Agriculture, Ithaca, NY 14853;

    Department of Biological Sciences, University of South Carolina, Columbia, SC 29208;

  • 收录信息 美国《科学引文索引》(SCI);美国《生物学医学文摘》(MEDLINE);美国《化学文摘》(CA);
  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类
  • 关键词

    sorghum bicolor; quantitative trait locus; adaptation;

    机译：高粱数量性状基因座适应;

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