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王一亭, 李波, 王厚红, 吴法龙, 张磊. 基于Miseq测序技术分析黄颡鱼不同养殖模式下池塘微生物群落结构多样性[J]. 水生生物学报, 2020, 44(4): 781-789. DOI: 10.7541/2020.094
引用本文: 王一亭, 李波, 王厚红, 吴法龙, 张磊. 基于Miseq测序技术分析黄颡鱼不同养殖模式下池塘微生物群落结构多样性[J]. 水生生物学报, 2020, 44(4): 781-789. DOI: 10.7541/2020.094
WANG Yi-Ting, LI Bo, WANG Hou-Hong, WU Fa-Long, ZHANG Lei. BACTERIAL DIVERSITY OF POND WATER AND SEDIMENT IN DIFFERENT CULTURE SYSTEMS OF YELLOW CATFISH (PELTEOBAGRUS FULVIDRACO) REVEALED BY MISEQ SEQUENCING[J]. ACTA HYDROBIOLOGICA SINICA, 2020, 44(4): 781-789. DOI: 10.7541/2020.094
Citation: WANG Yi-Ting, LI Bo, WANG Hou-Hong, WU Fa-Long, ZHANG Lei. BACTERIAL DIVERSITY OF POND WATER AND SEDIMENT IN DIFFERENT CULTURE SYSTEMS OF YELLOW CATFISH (PELTEOBAGRUS FULVIDRACO) REVEALED BY MISEQ SEQUENCING[J]. ACTA HYDROBIOLOGICA SINICA, 2020, 44(4): 781-789. DOI: 10.7541/2020.094

基于Miseq测序技术分析黄颡鱼不同养殖模式下池塘微生物群落结构多样性

BACTERIAL DIVERSITY OF POND WATER AND SEDIMENT IN DIFFERENT CULTURE SYSTEMS OF YELLOW CATFISH (PELTEOBAGRUS FULVIDRACO) REVEALED BY MISEQ SEQUENCING

  • 摘要: 利用Miseq测序技术分析了黄颡鱼Pelteobagrus fulvidraco (Richardson)三种养殖模式(黄颡鱼单养、黄颡鱼混养草鱼(Ctenopharyngodon idellus, Valenciennes)和黄颡鱼混养草鱼、鳙(Aristichthys nobilis, Richardson)、鲢(Hypophthalmichthys molitrix, Valenciennes)下养殖水体及底泥微生物群落结构多样性。结果显示, 12个样本共获得了655100条合格16S rDNA序列, 每个样本获得的有效序列数目为41256—77508, 可归纳为608—3686个分类操作单元。α多样性指数结果表明, 在三种养殖模式下末期水体的微生物群落丰度和多样性均高于养殖初期, 黄颡鱼混养草鱼模式下水体的群落丰度最高(Chao1指数: 2199.25, ACE指数: 2374.60), 黄颡鱼混养草鱼、鲢、鳙模式下水体微生物群落多样性最高(Shannon指数: 4.88, Simpson指数: 0.021)。样本聚类分析及PcoA主坐标分析结果表明, 黄颡鱼单养及黄颡鱼、草鱼混养模式下的水体和底泥的菌群组成及群落结构相似性较高, 黄颡鱼、草鱼、鲢、鳙混养模式下样本单独形成一类。从门水平的比较分析发现, 所有样本检测到细菌有8门, 其中变形菌门(Proteobacteria)的物种丰度在所有样本中占绝对优势地位。放线菌门(Actinobacteria)在养殖末期升高成为水体中占比第二的优势门, 尤其是黄颡鱼混养草鱼模式下(37.6%)。黄颡鱼在单养模式下, 养殖末期水体拟杆菌门(Bacteroidetes)细菌含量均明显增加(1.95%到10.98%)。从属水平的比较分析发现, 各样本之间的优势属组成有较大差异, 其中黄颡鱼在单养模式下水体样本中气单胞菌属(Aeromonas)在养殖末期丰度占优势(5.81%)。从微生物群落结构和多样性的角度考虑, 黄颡鱼、草鱼、鲢、鳙混养是一种值得推荐的养殖模式。

     

    Abstract: This study analyzed the bacterial diversity of pond water and sediment in three different culture systems of yellow catfish (Pelteobagrus fulvidraco) using Illumina Miseq. Three culture systems are yellow catfish monoculture system, yellow catfish/grass carp polyculture system, and yellow catfish/grass carp/silver carp/bighead carp polyculture system. The results showed that 41256 to 77508 sequences were read from each sample, a total of 655100 16S rDNA sequences were generated, and then these sequences were clustered into 608—3686 OTUs with 97% similarity. According to α-typed diversity indices, the abundance and diversity of microbial communities of the final water samples were higher than those of the initial water samples for all three culture systems. The yellow catfish/grass carp polyculture system has the highest microbial community abundance (Chao1index: 2199.25, ACE index: 2374.60). The yellow catfish/grass carp/silver carp/bighead carp polyculture system has the highest microbial community diversity (Shannon index: 4.88, Simpson index: 0.021). The cluster analysis and principal co-ordinates analysis showed that yellow catfish monoculture system and yellow catfish/grass carp polyculture system are highly similar in microbial composition and community structure. A total of 8 phyla were identified in all 12 samples, and Proteobacteria was the dominant group in all samples. Actinobacteria increased at the end and became the second dominant group, especially in yellow catfish/grass carp polyculture system (37.6%). Bacteroidetes increased in yellow catfish monoculture system in the later periods (1.96% to 10.98%). There were differences in the composition of microorganisms at the genetic level in all samples. Aeromonas dominated in the water samples of yellow catfish monoculture system in the end periods (5.81%). This study revealed that yellow catfish/grass carp/silver carp/bighead carp polyculture system is a promising culture system from the perspective of microbial community structure and diversity.

     

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