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首页> 外文期刊>FEMS Microbiology Letters >Impact of DNA extraction methods on the observed microbial communities from the intestinal flora of the penaeid shrimp Litopenaeus vannamei
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Impact of DNA extraction methods on the observed microbial communities from the intestinal flora of the penaeid shrimp Litopenaeus vannamei

机译：DNA提取方法对Penaeid虾Litopenaeus Vannamei肠道菌群观察到的微生物群落的影响

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摘要

Two DNA extraction methods, the Zirmil-beating cell disruption method (ZBC) and the QIAamp fast DNA stool mini kit (QIA), were used to extract DNA from the intestinal flora of the penaeid shrimp Litopenaeus vannamei, and their microbial communities were analyzed using 16S rDNA high-throughput sequencing. Results were obtained in terms of the number of reads, alpha diversity indexes, beta diversity indexes and taxonomic composition. The alpha diversity indexes of the community, according to the ZBC method, were higher than those according to the QIA method. Furthermore, results from the three samples using the ZBC method were less consistent than those where the QIA method was used. Further, using the latter method led to substantive clustering. It is suggested that the QIA method is more stable and repeatable than the ZBC method. Although the two extraction methods shared the major abundant microflora based on 16S rDNA high-throughput sequencing, bias associated with diversity analysis indexes and certain species was observed.
机译：两种DNA提取方法，ZIRMIL跳动细胞破坏方法（ZBC）和QIAAMP快速DNA粪便迷你试剂盒（QIA）用于从Penaeid虾Litopenaeus Vannamei的肠道菌群中提取DNA，并且使用它们的微生物社区16S RDNA高通量测序。结果是在读数，α分集指数，β多样性指标和分类组合物的数量方面获得的。根据ZBC方法，社区的alpha分集指数高于QIA方法。此外，使用ZBC方法的三个样品的结果比使用QIA方法的三种样品的结果不一致。此外，使用后一种方法导致实质性聚类。建议QIA方法比ZBC方法更稳定和可重复。虽然两种提取方法基于16S rDNA高通量测序共享主要丰富的微生物群，但观察到与分析指标和某些物种相关的偏差。

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  • 来源
    《FEMS Microbiology Letters》 |2019年第9期|共7页
  • 作者

    Jiang Boyun; Sun Jingfeng; Lv Aijun; Hu Xiucai; Shi Hongyue; Sung YeongYik; Wang Qingkui; Wang Yang;

  • 作者单位

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

    Tianjin Agr Univ Coll Fisheries Tianjin Key Lab Aqua Ecol &

    Aquaculture 22 Jinjing Rd Tianjin 300384 Peoples R China;

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  • 原文格式 PDF
  • 正文语种 eng
  • 中图分类 微生物学;
  • 关键词

    high-throughput sequencing; intestinal microflora; litopenaeus vannamei; DNA extraction method; alpha diversity; beta diversity;

    机译：高通量测序;肠道微生物;Litopenaeus Vannamei;DNA提取方法;α多样性;β多样性;

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