Illumina sequencing-based analysis of sediment bacteria community in different trophic status freshwater lakes.
Illumina sequencing-based analysis of sediment bacteria community in different trophic status freshwater lakes.
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基于Illumina测序的不同营养状态淡水湖泊沉积物细菌群落分析
DOI：
10.1002/mbo3.450
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发表时间：
2017-08
期刊：
影响因子：
3.4
通讯作者：
Li R
中科院分区：
文献类型：
--
作者：
Wan Y;Ruan X;Zhang Y;Li R
沉积物细菌群落是水生态系统营养循环和能量转移的主要驱动力。深入了解群落的时空变化规律，对于理解群落的循环和转移机制具有重要意义。本文以太湖为模型系统，研究了沉积物细菌群落结构及其与环境因子的关系，探讨了生物多样性对营养水平和季节性的依赖性。为了克服传统技术的局限性，我们采用Illumina MiSeq测序和LeFSe分支图来获得细菌分类及其时空分布变化的更全面的视图。结果发现，收获的序列总量增加了1，000倍，并且在一年中的大部分季节中，营养水平与细菌多样性之间存在反向关系。结果表明，研究区共鉴定出65门、221纲、436目、624科、864属。三角洲变形菌和γ变形菌盛行在春季/夏季和冬季，分别，无论营养条件;同时，这两个类占主导地位的富营养化和中营养化湖泊地区，分别，但只在秋季。对于LEfSe分析，表现出最强的季节或空间变化的细菌分类群，大多数分别在春/夏季或中度富营养化区域具有最高丰度。Pearson相关性分析表明，5个主要门和18个亚系统发育组与营养状态呈显著相关。典范对应分析进一步表明，间隙水NH 4 +-N以及沉积物TOM和NOx-N可能是影响细菌群落组成的主要环境因子。
Sediment bacterial community is the main driving force for nutrient cycling and energy transfer in aquatic ecosystem. A thorough understanding of the community's spatiotemporal variation is critical for us to understand the mechanisms of cycling and transfer. Here, we investigated the sediment bacterial community structures and their relations with environmental factors, using Lake Taihu as a model system to explore the dependence of biodiversity upon trophic level and seasonality. To combat the limitations of conventional techniques, we employed Illumina MiSeq Sequencing and LeFSe cladogram to obtain a more comprehensive view of the bacterial taxonomy and their variations of spatiotemporal distribution. The results uncovered a 1,000‐fold increase in the total amount of sequences harvested and a reverse relationship between trophic level and the bacterial diversity in most seasons of a year. A total of 65 phyla, 221 classes, 436 orders, 624 families, and 864 genera were identified in the study area. Delta‐proteobacteria and gamma‐proteobacteria prevailed in spring/summer and winter, respectively, regardless trophic conditions; meanwhile, the two classes dominated in the eutrophication and mesotrophication lake regions, respectively, but exclusively in the Fall. For LEfSe analysis, bacterial taxon that showed the strongest seasonal or spatial variation, majority had the highest abundance in spring/summer or medium eutrophication region, respectively. Pearson's correlation analysis indicated that 5 major phyla and 18 sub‐phylogenetic groups showed significant correlation with trophic status. Canonical correspondence analysis further revealed that porewater NH 4 +‐N as well as sediment TOM and NO x‐N are likely the dominant environmental factors affecting bacterial community compositions.
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DOI：
10.1038/ismej.2012.8
发表时间：
2012-08
期刊：
The ISME journal
影响因子：
--
作者：
通讯作者：
--
影响因子：
5.1
作者：
Bauer, Margarete;Kube, Michael;Gloeckner, Frank Oliver
通讯作者：
Gloeckner, Frank Oliver
影响因子：
4.2
作者：
Hempel, Melanie;Blume, Maja;Blindow, Irmgard;Gross, Elisabeth M.
通讯作者：
Gross, Elisabeth M.
DOI：
10.1073/pnas.1000080107
发表时间：
2011-03-15
影响因子：
11.1
作者：
Caporaso, J. Gregory;Lauber, Christian L.;Knight, Rob
通讯作者：
Knight, Rob
影响因子：
2.9
作者：
Lucheta, A. R.;Otero, X. L.;Lambais, M. R.
通讯作者：
Lambais, M. R.