Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates
Salt marsh sediment diversity: a test of the variability of the rare biosphere among environmental replicates
复制标题
DOI：
10.1038/ismej.2012.47
复制
发表时间：
2012-11-01
期刊：
影响因子：
11
通讯作者：
Sogin, Mitchell L.
中科院分区：
文献类型：
--
作者：
Bowen, Jennifer L.;Morrison, Hilary G.;Sogin, Mitchell L.
微生物系统中的系统发育多样性大部分来自稀有类群，这些类群构成了类群等级分布曲线的长尾。这种巨大的多样性提出了一个挑战，以测试假设扰动对微生物群落组成的影响，因为环境复制之间的稀有类群的变异性可能是足够大的，它将需要一个禁止程度的测序，以辨别样品之间的差异。在这项研究中，我们使用16 S rRNA标签的焦磷酸测序来检查盐沼沉积物细菌的多样性和场地内变异性。我们的目标是确定焦磷酸测序是否可以在来自同一地点的重复环境样本中产生相似的群落组成模式。我们假设，由于分类丰富的稀有生物圈的不完整测序，从同一地点重复采样将产生不同的快照的稀有社区。我们证明，我们采样的盐沼沉积物包含一系列非常多样化的细菌分类群，并且与我们的假设相反，在同一地点重复采样会产生可靠的细菌群落组成相似模式，即使是在稀有生物中也是如此。这些结果表明，16 s标签的深度测序非常适合于区分稀有类群之间的位点特异性相似性和差异，并且是微生物生态学假设检验的有价值的工具。The ISME Journal（2012）6，2014-2023; doi：10.1038/ismej.2012.47; 2012年6月28日在线发表
Much of the phylogenetic diversity in microbial systems arises from rare taxa that comprise the long tail of taxon rank distribution curves. This vast diversity presents a challenge to testing hypotheses about the effects of perturbations on microbial community composition because variability of rare taxa among environmental replicates may be sufficiently large that it would require a prohibitive degree of sequencing to discern differences between samples. In this study we used pyrosequencing of 16S rRNA tags to examine the diversity and within-site variability of salt marsh sediment bacteria. Our goal was to determine whether pyrosequencing could produce similar patterns in community composition among replicate environmental samples from the same location. We hypothesized that repeated sampling from the same location would produce different snapshots of the rare community due to incomplete sequencing of the taxonomically rich rare biosphere. We demonstrate that the salt marsh sediments we sampled contain a remarkably diverse array of bacterial taxa and, in contrast to our hypothesis, repeated sampling from within the same site produces reliably similar patterns in bacterial community composition, even among rare organisms. These results demonstrate that deep sequencing of 16s tags is well suited to distinguish sitespecific similarities and differences among rare taxa and is a valuable tool for hypothesis testing in microbial ecology. The ISME Journal (2012) 6, 2014-2023; doi:10.1038/ismej.2012.47; published online 28 June 2012