Song Woojin, Kim Mincheol, Tripathi Binu M, Kim Hyoki, Adams Jonathan M
Department of Biological Science, College of Natural Sciences, Seoul National University, Seoul, 151-742, Korea.
Seoul Zoo, Seoul Grand park, 102, Daegongwongwangjang-ro, Gwacheon-si, Seoul, Korea.
Environ Microbiol. 2016 Jun;18(6):1740-53. doi: 10.1111/1462-2920.12879. Epub 2015 May 18.
It is difficult to understand the processes that structure immensely complex bacterial communities in the soil environment, necessitating a simplifying experimental approach. Here, we set up a microcosm culturing experiment with soil bacteria, at a range of nutrient concentrations, and compared these over time to understand the relationship between soil bacterial community structure and time/nutrient concentration. DNA from each replicate was analysed using HiSeq2000 Illumina sequencing of the 16S rRNA gene. We found that each nutrient treatment, and each time point during the experiment, produces characteristic bacterial communities that occur predictably between replicates. It is clear that within the context of this experiment, many soil bacteria have distinct niches from one another, in terms of both nutrient concentration, and successional time point since a resource first became available. This fine niche differentiation may in part help to explain the coexistence of a diversity of bacteria in soils. In this experiment, we show that the unimodal relationship between nutrient concentration/time and species diversity often reported in communities of larger organisms is also evident in microbial communities.
理解在土壤环境中构建极其复杂的细菌群落的过程是困难的，因此需要一种简化的实验方法。在这里，我们针对土壤细菌开展了一项微观培养实验，设置了一系列营养浓度，并随时间对这些样本进行比较，以了解土壤细菌群落结构与时间/营养浓度之间的关系。使用HiSeq2000对16S rRNA基因进行Illumina测序，分析每个重复样本的DNA。我们发现，每种营养处理以及实验过程中的每个时间点，都会产生可在重复样本间可预测出现的特征性细菌群落。很明显，在本实验的背景下，许多土壤细菌在营养浓度以及自资源首次可用以来的演替时间点方面，彼此具有不同的生态位。这种精细的生态位分化可能在一定程度上有助于解释土壤中多种细菌的共存。在本实验中，我们表明，在较大生物体群落中经常报道的营养浓度/时间与物种多样性之间的单峰关系在微生物群落中也很明显。
