| 引用本文: | 刘赢,张军,敖游,宋丽莉,束永俊.基于高通量测序的长穗偃麦草功能分子标记发掘和分析[J].生物信息学,2015,13(2):82-87. |
| LIU Ying,ZHANG Jun,AO You,SONG Lili,SHU Yongjun.Genome-wide identification and characterization of SNPs from Thinopyrum elongatumusing high-thought sequencing[J].Chinese Journal of Bioinformatics,2015,13(2):82-87. |
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| 摘要: |
| 长穗偃麦草是小麦重要的近源物种,含有丰富的抗逆基因,广泛地应用于小麦的遗传改良育种。本研究利用高通量测序,获得长穗偃麦草的转录组测序信息,利用比较基因组学方法研究其与小麦、水稻和玉米等作物的遗传关系,评估它们之间的亲缘关系。同时,将长穗偃麦草的高通量序列比对到小麦基因,利用软件Freebayes和SAMtools/Bcftools发掘功能基因的变异位点,并对这些含有变异位点的功能基因进行注释分析,揭示长穗偃麦草优异性状形成的分子机制,这将为长穗偃麦草优异基因资源的开发和应用奠定重要基础。 |
| 关键词: 长穗偃麦草 转录组分析 功能基因 单核苷酸多态性 |
| DOI：10.3969/j.issn.1672-5565.2015.02.02 |
| 分类号:Q524+.3 |
| 基金项目:高等学校博士学科点专项科研基金(20122329120001)。 |
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| Genome-wide identification and characterization of SNPs from Thinopyrum elongatumusing high-thought sequencing |
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LIU Ying, ZHANG Jun, AO You, SONG Lili, SHU Yongjun
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(Key Laboratory of Molecular Cytogenetics and Genetic Breeding of Heilongjiang Province, College of Life Science and Technology, Harbin Normal University, Harbin 150025,China)
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| Abstract: |
| Thinopyrum elongatumis an important relative of common wheat because it harbors numerous biotic and abiotic stress-resistance genes. In this study, we used the high-through sequencing technology and comparative genome strategies to analyze the Th. elongatumtranscriptome, and evaluated the evolution relationship between Th. elongatumand other cereal crops. Meanwhile, all sequences were aligned to wheat genes, and SNP sites were identified by software Freebayes and SAMtools/Bcftools. The genes containing SNP sites were annotated using COG, which was helpful for exploring molecular mechanism of excellent traits formation in Th. elongatum, and it provides a valuable reference for future development and utilization of excellent genes in Th. elongatum. |
| Key words: Thinopyrum elongatum Transcriptomic analysis Functional gene Single nucleotide polymorphism |
