ACTA AGRICULTURAE BOREALI-SINICA ›› 2018, Vol. 33 ›› Issue (2): 119-125. doi: 10.7668/hbnxb.2018.02.017

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A Primary Study on Developing SNP Markers in Sorghum

JI Guisu1, LÜ Peng1, DU Ruiheng1, LIU Guoqing1, HOU Shenglin1, MA Xue1, LI Suying1, WANG Jinping1, ZHAO Xiuping2   

  1. 1. Institute of Millet Crops, Hebei Academy of Agriculture and Forestry Sciences, Key Laboratory of Minor Cereal Crops in Hebei Province, Sweet Sorghum Branch, National Center for Sorghum Improvemental, Shijiazhuang 050035, China;
    2. Agriculture and Animal Husbandry Bureau of Yongnian Distract, Handan 057050, China
  • Received:2018-01-13 Published:2018-04-28

Abstract: Sorghum is a global crop for food security,human health and bio-energy development. It is considered one of the model crops for diploid cereal species and a reference crop for polyploid species like sugarcane and Miscanthum. It is important to develop molecular markers for genetics research and marker assisted selection in sorghum breeding. The parental lines,a sweet sorghum variety and a grain sorghum variety,and their F2 progenies were employed to develop Specific-Locus Amplified Fragment Sequencing(SLAF) markers,from which a large amount of SNP markers were obtained by using a high-throughput sequencing technology. A total of 43 528 021 SLAF-seq reads were generated,including 2 598 472 reads from the maternal variety,and 3 134 524 reads from the paternal variety,and 205 083 to 454 258 reads with an average of 290 732.5 from each F2 individual. High quality SLAF tags generated form the maternal and the paternal varieties were 44 895 and 42 100,with sequencing depth of 19.78 and 16.22-fold,respectively. High quality SLAF tags from the F2 progenies ranged from 26 737 to 39 291(average 33 445.06) with a sequencing depth of 2.24 to 3.72-fold(average 2.79). A total of 6 353 polymorphic SNP markers were obtained,in which 5 829(91.75%) were successfully genotyped and 2 246 high quality markers have been obtained with 100% efficient and an average of 94.99% integrity. Results showed that it was a useful way to obtain SNP markers covering whole genome through high-throughput sequencing technology. This study has laid a foundation for linkage map construction,QTL identification and marker assisted breeding in sorghum.

Key words: Sorghum, SLAF-tag, High-throughput sequencing, Development, SNP Marker

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Cite this article

JI Guisu, LÜ Peng, DU Ruiheng, LIU Guoqing, HOU Shenglin, MA Xue, LI Suying, WANG Jinping, ZHAO Xiuping. A Primary Study on Developing SNP Markers in Sorghum[J]. ACTA AGRICULTURAE BOREALI-SINICA, 2018, 33(2): 119-125. doi: 10.7668/hbnxb.2018.02.017.

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