The seasonal structure of microbial communities in the Western English Channel
The seasonal structure of microbial communities in the Western English Channel
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DOI：
10.1111/j.1462-2920.2009.02017.x
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发表时间：
2009-12-01
影响因子：
5.1
通讯作者：
Joint, Ian
中科院分区：
文献类型：
--
作者：
Gilbert, Jack A.;Field, Dawn;Joint, Ian
即使目前投入了大量的研究工作，也很少有海洋微生物群落能被很好地描述。这些努力中只有一小部分是为了调查时间群落结构。在这里，我们提出了应用高通量焦磷酸测序来研究一年生细菌群落结构的第一份报告。测定了西英吉利海峡L4采样点表面12个时间点的微生物多样性。这项工作在2007年进行了11个月。从小亚基核糖体RNA基因（16S rRNA） V6高变区共获得182 560个序列；每个样本的读数在11 327到17 339之间。大约7000个属被鉴定出来，每25个读数中就有一个属于新属；然而，这种抽样水平远远没有耗尽任何一个时间点上存在的全部多样性。整个数据集包含17 673个唯一序列。在所有时间点只发现了93个（0.5%），但这几个谱系占总reads序列的50%。最丰富的门是变形菌门（占所有测序reads的50%），而SAR11分支占无处不在reads的21%，占总测序reads的12%。相比之下，78%的可操作分类单位只在一个时间点被发现，67%的单位只被发现一次，证明了一个大而短暂的稀有组合。这个时间序列显示了季节性结构的群落多样性的证据。也有季节性演替的证据，主要反映了优势分类群之间的变化。这些结构的变化与温度、磷酸盐和硅酸盐浓度的组合显著相关。
P>Very few marine microbial communities are well characterized even with the weight of research effort presently devoted to it. Only a small proportion of this effort has been aimed at investigating temporal community structure. Here we present the first report of the application of high-throughput pyrosequencing to investigate intra-annual bacterial community structure. Microbial diversity was determined for 12 time points at the surface of the L4 sampling site in the Western English Channel. This was performed over 11 months during 2007. A total of 182 560 sequences from the V6 hyper-variable region of the small-subunit ribosomal RNA gene (16S rRNA) were obtained; there were between 11 327 and 17 339 reads per sample. Approximately 7000 genera were identified, with one in every 25 reads being attributed to a new genus; yet this level of sampling far from exhausted the total diversity present at any one time point. The total data set contained 17 673 unique sequences. Only 93 (0.5%) were found at all time points, yet these few lineages comprised 50% of the total reads sequenced. The most abundant phylum was Proteobacteria (50% of all sequenced reads), while the SAR11 clade comprised 21% of the ubiquitous reads and similar to 12% of the total sequenced reads. In contrast, 78% of all operational taxonomic units were only found at one time point and 67% were only found once, evidence of a large and transient rare assemblage. This time series shows evidence of seasonally structured community diversity. There is also evidence for seasonal succession, primarily reflecting changes among dominant taxa. These changes in structure were significantly correlated to a combination of temperature, phosphate and silicate concentrations.