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Home > Archive>Volume 20, Issue 1, 2019 >179-187. DOI:10.13430/j.cnki.jpgr.20180517003 Online First
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Development and Functional Analysis of Peanut Insertion and Deletion (InDel) Markers Based on Genotyping-by-sequencing (GBS)
DOI:
10.13430/j.cnki.jpgr.20180517003
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  • WANG Juan

    WANG Juan

    1Institute of Shandong Peanut Research,Qingdao 266000;
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  • LIU Yu

    LIU Yu

    1Institute of Shandong Peanut Research,Qingdao 266000;2College of Food Science and Engineering,Ocean University of China,Qingdao 266101
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  • LI Chun-juan

    LI Chun-juan

    1Institute of Shandong Peanut Research,Qingdao 266000;
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  • YAN Cai-xia

    YAN Cai-xia

    1Institute of Shandong Peanut Research,Qingdao 266000;
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  • ZHAO Xiao-bo

    ZHAO Xiao-bo

    1Institute of Shandong Peanut Research,Qingdao 266000;
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  • SHAN Shi-hua

    SHAN Shi-hua

    1Institute of Shandong Peanut Research,Qingdao 266000;
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Foundation project :Central Guidance for Local Science and Technology; Natural Science Foundation of Shandong Province( ZR2017BC082); Taishan Scholars Project(ts201712080); Agricultural Science and Technological Innovation Project of Shandong Academy of Agricultural Science( CXGC2018E21).

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    Abstract:

    Insertion/deletion (InDel) is the second largest molecular markers, which provide the valuable reference for population genetics and marker-assisted selection study. Peanut is one of the most important oil crops worldwide. The whole genome sequence of cultivated peanut has been released and therefore provided the important genome reference for functional genomic studies. In this study, by taking use of the genotyping-by-sequencing datasets on 169 peanut core collections, we identified 10,401 InDels with the size difference of 1 to 14 bp. The highest number of InDels was observed on chromosome Arahy.16, while the lowest number was found on Arahy.08. Although only 1,167 Indels were located in coding regions, obviously these InDels might show the specific functions, including catalytic activity and binding compared with other regions. The KEGG analysis suggested that InDels were mainly detected in the metabolism process. These InDels explored in this study might serve as the important genetic resources being useful for the further validation of functional genes.

    Key words:InDel detection; InDel distribution; GO and KEGG annotation
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History
  • Received:May 17,2018
  • Revised:November 13,2018
  • Adopted:August 14,2018
  • Online: May 22,2019
  • Published: January 16,2019
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