Kashinskaya E N, Belkova N L, Izvekova G I, Simonov E P, Andree K B, Glupov V V, Baturina O A, Kabilov M R, Solovyev M M
Institute of Systematics and Ecology of Animals, Siberian Branch of Russian Academy of Sciences, Novosibirsk, Russia.
Limnological Institute, Siberian Branch of Russian Academy of Sciences, Irkutsk, Russia.
J Appl Microbiol. 2015 Oct;119(4):948-61. doi: 10.1111/jam.12904. Epub 2015 Sep 8.
The aim of this study was to evaluate, via various molecular methods, the possible correlations between microbial community structure of Prussian carp and the environmental compartments of their habitat.
Microbial communities in the intestine and environmental compartments were studied using PCR-screening, cloning and next-generation high-throughput sequencing of the 16S ribosomal RNA genes. The 16S rDNA metagenomic sequencing showed higher bacterial diversity in comparison with clone libraries, while group-specific PCR showed positive detection of nine bacteria phyla. Proteobacteria, Bacteroidetes, Firmicutes, Cyanobacteria and Actinobacteria were most abundant both in the intestine and habitat environments. The comparative analyses reveal that the bacterial community in the Prussian carp intestine is most similar to that identified from the chironomid.
This study demonstrated some differences between molecular methods and showed advantages and limitations associated with them. These differences have the potential to reduce bias in results obtained from analysis of the community structure. The advantages of each molecular technique can be used for a better understanding of microbial diversity. The microbiota of Prussian carp intestine is most similar to those from the chironomids.
We investigated the diversity of the intestinal microbiota in an economically important aquaculture species, the Prussian carp (Carassius gibelio). The results provide significant information to discuss possible functions of these bacteria for further understanding of Prussian carp health.
本研究旨在通过各种分子方法评估鲤鱼微生物群落结构与其栖息地环境区室之间的可能相关性。
采用16S核糖体RNA基因的PCR筛选、克隆及新一代高通量测序技术，对肠道及环境区室中的微生物群落进行研究。16S rDNA宏基因组测序显示，与克隆文库相比，细菌多样性更高，而组特异性PCR检测到9个细菌门类呈阳性。变形菌门、拟杆菌门、厚壁菌门、蓝细菌门和放线菌门在肠道和栖息环境中最为丰富。比较分析表明，鲤鱼肠道中的细菌群落与摇蚊中鉴定出的细菌群落最为相似。
本研究展示了分子方法之间的一些差异，并表明了与之相关的优势和局限性。这些差异有可能减少群落结构分析结果中的偏差。每种分子技术的优势可用于更好地理解微生物多样性。鲤鱼肠道微生物群与摇蚊的最为相似。
我们调查了经济上重要的水产养殖品种鲤鱼（Carassius gibelio）肠道微生物群的多样性。研究结果为讨论这些细菌的可能功能提供了重要信息，有助于进一步了解鲤鱼健康状况。
