Illumina sequencing‐based analysis of sediment bacteria community in different trophic status freshwater lakes

Abstract

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.

Aquatic Macrophytes and Local Factors Drive Bacterial Community Distribution and Interactions in a Riparian Zone of Lake Taihu

“…Our results showed that the bacterial community structure in the nonrhizosphere zones was correlated with NH 4 + , DOC, and OM, similar to the results of other studies in different freshwater ecosystems [6,61]. Notably, SWC and particle size correlated with the bacterial community and network structures in both the P. australis and non-P. australis zones.…”

Seasonal and spatial variation in the sediment bacterial community and diversity of Lake Bosten, China

“…Microorganisms include the most diverse and metabolically active taxonomic groups in lake ecosystems and are widely distributed in lake water systems . As microbes are the driving force for nutrient cycling and energy conversion in aquatic ecosystems , microbial physiological function changes affect the form and cycling of nutrient elements in the sediments, and microbes are particularly sensitive and highly susceptible to environmental impacts. Therefore, microorganisms are often used as an ideal indicator for the evolution of lake ecosystems to quantitatively reflect the influence of environmental disturbances on lake ecosystems.…”

A Review and Perspective of eDNA Application to Eutrophication and HAB Control in Freshwater and Marine Ecosystems

“…Therefore, bacteria in the sediment also play a critical role in aquatic ecosystems. High-throughput DNA sequencing was used to analyze the sediment bacterial community in Lake Taihu [47]. The data showed that biodiversity is positively correlated with NH 4 + -N in the water and negatively correlated with NO X -N in the sediment.…”