Marine bacterial communities in the upper gulf of Thailand assessed by Illumina next-generation sequencing platform

Abstract

Background: The total bacterial community plays an important role in aquatic ecosystems. In this study, bacterial communities and diversity along the shores of the Upper Gulf of Thailand were first characterized. The association between bacterial communities and types of land use was also evaluated. Results: The bacterial communities and diversity of seawater in the Upper Gulf of Thailand, with regard to types of land use, were first revealed by using Illumina next-generation sequencing. A total of 4953 OTUs were observed from all samples in which 554 OTUs were common. The bacterial communities in sampling sites were significantly different from each other. The runoff water from three types of land use significantly affected the community richness and diversity of marine bacteria. Aquaculture sites contained the highest levels of community richness and diversity, followed by mangrove forests and tourist sites. Seawater physicochemical parameters including salinity, turbidity, TSS, total N, and BOD 5 , were significantly different when grouped by land use. The bacterial communities were mainly determined by salinity, total N, and total P. The species richness estimators and OTUs were positively correlated with turbidity. The top ten most abundant phyla and genera as well as the distribution of bacterial classes were characterized. The Proteobacteria constituted the largest proportions in all sampling sites, ranging between 67.31 and 78.80%. The numbers of the Marinobacterium, Neptuniibacter, Synechococcus, Candidatus Thiobios, hgcI clade (Actinobacteria), and Candidatus Pelagibacter were significantly different when grouped by land use. Conclusions: Type of land use significantly affected bacterial communities and diversity along the Upper Gulf of Thailand. Turbidity was the most influential parameter affecting the variation in bacterial community composition. Salinity, total N, and P were the ones of the important factors that shaped the bacterial communities. In addition, the variations of bacterial communities from site-to-site were greater than within-site. The Proteobacteria, Bacteroidetes, Actinobacteria, Cyanobacteria, Verrucomicrobia, Euryarchaeota, Planctomycetes, Firmicutes, Deep Sea DHVEG-6, and Marinimicrobia were the most and common phyla distributed across the Upper Gulf of Thailand.

Structural and Functional Impacts of Microbiota on Pyropia yezoensis and Surrounding Seawater in Cultivation Farms along Coastal Areas of the Yellow Sea

“…Members of the SUP05 clade reported in marine waters and are supposed to contribute directly by the successive reduction of nitrate (NO 3 − ) to nitrogenous gases (N 2 O or N 2 ) [80]. Various studies have also identified the occurrence of these genera in algae and surrounding seawater [22,50,81]. Our study results are in agreement with Wei et al, who identified similar profile of bacterial communities in P. yezoensis and surrounding seawater by 16S rRNA gene sequencing approach [82].…”

Planktonic bacteria in white shrimp ( Litopenaeus vannamei ) and channel catfish ( Letalurus punetaus ) aquaculture ponds in a salt‐alkaline region

“…2016). Nimnoi and Pongsilp (2020) reported that the run‐off water from aquaculture sites significantly affected the community richness and diversity of marine bacteria. In recirculating aquaculture systems, the bacterial community was more diverse in a normal system than in a system with fish disease syndromes (Xue et al .…”

Diversity analysis, identification, and bioprospecting of Lactic Acid Bacteria (LAB) isolated from Sumbawa horse milk

“…Next-generation sequencing (NGS) using Illumina is the most widely applied technique in metagenomic studies for analyzing microbial diversity and functional analysis profiles (Jatmiko et al 2019). NGS is the most effective approach technology for individual classification to particular taxa and allowed finer characterization of bacterial genomes as well as deeper taxonomic recognition of complex microbiomes (Nimnoi and Pongsilp 2020). The hypervariable V3-V4 region in the 16S rRNA gene is a target of PCR amplification that can provide information about the bacterial community profile more accurately than the hypervariable V1-V3 region (Teng et al 2018).…”