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首页> 外文期刊>Marine genomics >Whole metagenomic sequencing to characterize the sediment microbial community within the Stellwagen Bank National Marine Sanctuary and preliminary biosynthetic gene cluster screening of Streptomyces scabrisporus
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Whole metagenomic sequencing to characterize the sediment microbial community within the Stellwagen Bank National Marine Sanctuary and preliminary biosynthetic gene cluster screening of Streptomyces scabrisporus

机译：整个偏见测序，以表征Stellwagen Bank国家海洋保护区的沉积物微生物群落及初步生物合成基因培养筛查Scabrisporus

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Understanding the marine sediment microbial community structure is of increasing importance to microbiologists since little is known of the diverse taxonomy that exists within this environment. Quantifying microbial species distribution patterns within marine sanctuaries is necessary to address conservation requirements. The objectives of this study were to characterize the relative abundance and biodiversity of metagenome samples of the sediment microbial community in the Stellwagen Bank National Marine Sanctuary (SBNMS). Related to the need for a comprehensive assessment of the microbial habitat within marine sanctuaries is the increased threat of antibiotic-resistant pathogens, coupled with multi-resistant bacterial strains. This has necessitated a renewed search for bioactive compounds in marine benthic habitat. An additional aim was to initiate quantification of biosynthetic gene clusters in species that have potential for natural product and drug discovery relevant to human health. Surficial sediment from 18 samples was collected in the summer and fall of 2017 from three benthic sites in the SBNMS. Microbial DNA was extracted from samples, and sequencing libraries were prepared for taxonomic analysis. Whole metagenome sequencing (WMGS) in combination with a bioinformatics pipeline was employed to delineate the taxa of bacteria present in each sample. Among all sampling sites, biodiversity was higher for summer compared to fall for class (p = 0.0013; F = 4.5) and genus (p = 0.0219; F = 4.4). Actinobacteria was the fifth most abundant class in both seasons (7.81%). Streptomyces was observed to be the fourth most abundant genus in both seasons with significantly higher prevalence in summer compared to fall samples. In summer, site 3 had the highest percentage of Streptomyces (1.71%) compared to sites 2 (1.62%) and 1 (1.37%). The results enabled preliminary quantification of the sequenced hits from the SBNMS sites with the highest potential for harboring secondary metabolite biosynthetic gene clusters for Streptomyces scabrisporus strain (NF3) genomic regions. This study is one of the first to use a whole metagenomics approach to characterize sediment microbial biodiversity in partnership with the SBNMS and demonstrates the potential for future ecological and biomedical research.
机译：了解海洋沉积物微生物群落结构对微生物学家的重要性越来越重要，因为在这种环境中存在的不同分类物少少。在寻址保护要求的情况下，需要定量海洋保护区内的微生物物种分布模式。本研究的目的是在Stellwagen Bank国家海洋保护区（SBNMS）中的沉积物微生物群落的酵母微生物群体的相对丰富和生物多样性。与综合评估海洋保护区内的微生物栖息地的需要有关，这是抗生素抗性病原体的威胁增加，与多种耐药菌菌株相结合。这已经需要再次寻找海洋底栖栖息地的生物活性化合物。额外的目的是在具有与人类健康相关的天然产物和药物发现潜力的物种中开始定量生物合成基因簇。从SBNMS中的三个底栖位点夏天和秋季收集来自18个样品的曲面沉积物。从样品中提取微生物DNA，制备用于分类学分析的测序文库。与生物信息学管道组合的整个Metagenome测序（WMGs）用于描绘每个样品中存在的细菌的分类群。在所有抽样网站中，与阶级的秋季相比，夏季的生物多样性更高（p = 0.0013; f = 4.5）和属（p = 0.0219; f = 4.4）。 Actinobacteria是两个季节（7.81％）中最丰富的课程。观察到链霉菌是两种季节中最丰富的属，与秋季样品相比，夏季的普遍性明显较高。夏季，与位点2（1.62％）和1（1.37％）相比，Site 3的百分比百分比最高（1.71％）。结果使得来自SBNMS位点的测序次数的初步定量具有最高潜力的次脲霉菌菌株（NF3）基因组区域的次级核糖菌株的最高电位。本研究是首次使用整个偏见组织方法来表征沉积物微生物生物多样性与SBNMS的伙伴关系，并展示了未来生态和生物医学研究的潜力。

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