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Genomic analyses provide insights into the history of tomato breeding
Tao Lin,Guangtao Zhu,Junhong Zhang,Xiangyang Xu,Qinghui Yu,Zheng Zheng,Zhonghua Zhang,Yaoyao Lun,Shuai Li,Xiaoxuan Wang,Zejun Huang,Junming Li,Chunzhi Zhang,Taotao Wang,Yuyang Zhang,Aoxue Wang,Yancong Zhang,Kui Lin,Chuanyou Li,Guosheng Xiong,Yongbiao Xue,Andrea Mazzucato,Mathilde Causse,Zhangjun Fei,James J Giovannoni,Roger T Chetelat,Dani Zamir,Thomas St?dler,Jingfu Li,Zhibiao Ye,Yongchen Du, & Sanwen Huang
Nature Genetics
Abstract
The histories of crop domestication and breeding are recorded in genomes. Although tomato is a model species for plant biology and breeding, the nature of human selection that altered its genome remains largely unknown. Here we report a comprehensive analysis of tomato evolution based on the genome sequences of 360 accessions. We provide evidence that domestication and improvement focused on two independent sets of quantitative trait loci (QTLs), resulting in modern tomato fruit ~100 times larger than its ancestor. Furthermore, we discovered a major genomic signature for modern processing tomatoes, identified the causative variants that confer pink fruit color and precisely visualized the linkage drag associated with wild introgressions. This study outlines the accomplishments as well as the costs of historical selection and provides molecular insights toward further improvement.
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DOI:10.1038/ng.3117 |
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Genomic analyses provide insights into the history of tomato breeding |
英文论文题目: |
Genomic analyses provide insights into the history of tomato breeding |
第一作者: |
Tao Lin,Guangtao Zhu,Junhong Zhang,Xiangyang Xu,Qinghui Yu,Zheng Zheng,Zhonghua Zhang,Yaoyao Lun,Shuai Li,Xiaoxuan Wang,Zejun Huang,Junming Li,Chunzhi Zhang,Taotao Wang,Yuyang Zhang,Aoxue Wang,Yancong Zhang,Kui Lin,Chuanyou Li,Guosheng Xiong,Yongbiao Xue,Andrea Mazzucato,Mathilde Causse,Zhangjun Fei,James J Giovannoni,Roger T Chetelat,Dani Zamir,Thomas St?dler,Jingfu Li,Zhibiao Ye,Yongchen Du, & Sanwen Huang |
英文第一作者: |
Tao Lin,Guangtao Zhu,Junhong Zhang,Xiangyang Xu,Qinghui Yu,Zheng Zheng,Zhonghua Zhang,Yaoyao Lun,Shuai Li,Xiaoxuan Wang,Zejun Huang,Junming Li,Chunzhi Zhang,Taotao Wang,Yuyang Zhang,Aoxue Wang,Yancong Zhang,Kui Lin,Chuanyou Li,Guosheng Xiong,Yongbiao Xue,Andrea Mazzucato,Mathilde Causse,Zhangjun Fei,James J Giovannoni,Roger T Chetelat,Dani Zamir,Thomas St?dler,Jingfu Li,Zhibiao Ye,Yongchen Du, & Sanwen Huang |
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2014-10-14 |
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The histories of crop domestication and breeding are recorded in genomes. Although tomato is a model species for plant biology and breeding, the nature of human selection that altered its genome remains largely unknown. Here we report a comprehensive analysis of tomato evolution based on the genome sequences of 360 accessions. We provide evidence that domestication and improvement focused on two independent sets of quantitative trait loci (QTLs), resulting in modern tomato fruit ~100 times larger than its ancestor. Furthermore, we discovered a major genomic signature for modern processing tomatoes, identified the causative variants that confer pink fruit color and precisely visualized the linkage drag associated with wild introgressions. This study outlines the accomplishments as well as the costs of historical selection and provides molecular insights toward further improvement. |
英文摘要: |
The histories of crop domestication and breeding are recorded in genomes. Although tomato is a model species for plant biology and breeding, the nature of human selection that altered its genome remains largely unknown. Here we report a comprehensive analysis of tomato evolution based on the genome sequences of 360 accessions. We provide evidence that domestication and improvement focused on two independent sets of quantitative trait loci (QTLs), resulting in modern tomato fruit ~100 times larger than its ancestor. Furthermore, we discovered a major genomic signature for modern processing tomatoes, identified the causative variants that confer pink fruit color and precisely visualized the linkage drag associated with wild introgressions. This study outlines the accomplishments as well as the costs of historical selection and provides molecular insights toward further improvement. |
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Nature Genetics |
英文刊物名称: |
Nature Genetics |
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Tao Lin,Guangtao Zhu,Junhong Zhang,Xiangyang Xu,Qinghui Yu,Zheng Zheng,Zhonghua Zhang,Yaoyao Lun,Shuai Li,Xiaoxuan Wang,Zejun Huang,Junming Li,Chunzhi Zhang,Taotao Wang,Yuyang Zhang,Aoxue Wang,Yancong Zhang,Kui Lin,Chuanyou Li,Guosheng Xiong,Yongbiao Xue,Andrea Mazzucato,Mathilde Causse,Zhangjun Fei,James J Giovannoni,Roger T Chetelat,Dani Zamir,Thomas Städler,Jingfu Li,Zhibiao Ye,Yongchen Du, & Sanwen Huang. Genomic analyses provide insights into the history of tomato breeding. Nature Genetics. DOI:10.1038/ng.3117 |
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