A prolific and robust whole-genome genotyping method using PCR amplification via primer-template mismatched annealing

作     者：Sheng Zhao Cuicui Zhang Liqun Wang Minxuan Luo Peng Zhang Yue Wang Waqar Afzal Malik Yue Wang Peng Chen Xianjin Qiu Chongrong Wang Hong Lu Yong Xiang Yuwen Liu Jue Ruan Qian Qian Haijian Zhi Yuxiao Chang Sheng Zhao;Cuicui Zhang;Liqun Wang;Minxuan Luo;Peng Zhang;Yue Wang;Waqar Afzal Malik;Peng Chen;Xianjin Qiu;Chongrong Wang;Hong Lu;Yong Xiang;Yuwen Liu;Jue Ruan;Qian Qian;Haijian Zhi;Yuxiao Chang

作者机构：National Key Laboratory for Crop Genetics and Germplasm EnhancementNational Center for Soybean ImprovementNanjing Agricultural UniversityNanjing 210095China Guangdong Laboratory of Lingnan Modern AgricultureGenome Analysis Laboratory of the Ministry of Agriculture and Rural AffairsAgricultural Genomics Institute at ShenzhenChinese Academy of Agricultural SciencesShenzhen 518120China College of AgricultureYangtze UniversityJingzhou 434023China Guangdong Provincial Key Laboratory of New Technology in Rice BreedingRice Research InstituteGuangdong Academy of Agricultural SciencesGuangzhou 510640China 

出 版 物：《Journal of Integrative Plant Biology》 (植物学报（英文版）)

年 卷 期：2023年第65卷第3期

页      面：633-645页

核心收录：

学科分类：0710[理学-生物学] 07[理学] 09[农学] 071007[理学-遗传学] 0901[农学-作物学] 090102[农学-作物遗传育种] 

基　　金：supported by the National Natural Science Foundation of China(31970379 and 32172086) the Jiangsu Collaborative Innovation Center for Modern Crop Production (JCIC-MCP) the National Key R&D Program of China (ZZ202001) the R&D program of Shenzhen (KCXFZ20211020164207012) the R&D program in key areas of Guangdong Province (2021B0707010006) the Science and Technology Planning Project of Guangdong Province (2022B0202060002) 

主　　题：background selection foreground genotyping primer-template mismatched annealing marker-assisted breeding whole-genome genotyping 

摘      要：Whole-genome genotyping methods are important for ***,it has been challenging to develop a robust method for simultaneous foreground and background genotyping that can easily be adapted to different genes and *** our study,we accidently discovered that in adapter ligation-mediated PCR,the amplification by primertemplate mismatched annealing(PTMA)along the genome could generate thousands of stable PCR *** on this observation,we consequently developed a novel method for simultaneous foreground and background integrated genotyping by sequencing(FBI-seq)using one specific primer,in which foreground genotyping is performed by primer-template perfect annealing(PTPA),while background genotyping employs *** DNA arrays,multiple PCR,or genome target enrichments,FBI-seq requires little preliminary work for primer design and synthesis,and it is easily adaptable to different foreground genes and ***-seq therefore provides a prolific,robust,and accurate method for simultaneous foreground and background genotyping to facilitate breeding in the postgenomics era.