The present study reports metagenomic sequencing and microbial diversity analysis of the sediment samples of a semi-intensive penaeid shrimp culture system. 16S rRNA gene-based high-throughput sequencing revealed distinct and diverse microbial communities in the analyzed sample. Analysis of the results showed a high abundance of Proteobacteria followed by Verrucomicrobia, Bacteroidetes, Planctomycetes, Firmicutes, Cyanobacteria, and Actinobacteria in the metagenome retrieved from the sediment sample. Unclassified bacteria also contributed a significant portion of the metagenome. Two potential shrimp pathogens viz Vibrio harveyi and Acinetobacter lwoffii detected in the sediment sample show the risk associated with the pond. Microbes that play essential roles in nutrient cycling and mineralization of organic compounds such as Bacteroidetes, Planctomycetes, Gammaproteobacteria, Firmicutes, Cyanobacteria, and Actinobacteria could also be identified. The present study provides preliminary data with respect to the microbial community present in the sediments of a shrimp culture system and emphasizes the application of metagenomics in exploring the microbial diversity of aquaculture systems, which might help in the early detection of pathogens within the system and helps to develop pathogen control strategies in semi-intensive aquaculture systems.

中文翻译：

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半精养对虾养殖系统沉积物中微生物群落的宏基因组分析

本研究报告了半集约化对虾养殖系统沉积物样本的宏基因组测序和微生物多样性分析。基于 16S rRNA 基因的高通量测序揭示了分析样本中独特且多样的微生物群落。结果分析表明，在从沉积物样品中提取的宏基因组中，变形菌属高丰度，其次是疣微菌、拟杆菌、浮游菌、厚壁菌、蓝藻和放线菌。未分类的细菌也贡献了宏基因组的很大一部分。在沉积物样本中检测到的两种潜在的虾病原体，即哈维弧菌和 lwoffii 不动杆菌，显示了与池塘相关的风险。在养分循环和有机化合物矿化（如拟杆菌、还可以鉴定浮游菌、γ-变形菌、厚壁菌、蓝藻和放线菌。本研究提供了有关虾养殖系统沉积物中微生物群落的初步数据，并强调宏基因组学在探索水产养殖系统微生物多样性中的应用，这可能有助于及早发现系统内的病原体，并有助于在半精养水产养殖系统中制定病原体控制策略。