Diversity Distribution, Driving Factors and Assembly Mechanisms of Free-Living and Particle-Associated Bacterial Communities at a Subtropical Marginal Sea

Yuan, Huatao; Li, Tangcheng; Li, Hongfei; Li, Ling; Lin, Xin; Lin, Senjie

doi:10.3390/microorganisms9122445

Cited by 16 publications

(9 citation statements)

References 79 publications

(121 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…This was because FL bacteria may have greater motility capability in YBH and were influenced more by environmental factors including temperature and salinity, which were deterministic processes. The stochastic processes played a greater influence on PA bacteria, and this was in accordance with previous findings in a subtropical riverbay system (Wang et al, 2020), but was quite different from previous studies in the marginal sea (Yuan et al, 2021). It was suggested that the bacterial assembly processes in different environments showed different results.…”

Section: A B Figuresupporting

confidence: 74%

Unique bacterial communities and lifestyles in deep ocean blue holes: Insights from the Yongle Blue Hole (South China Sea)

et al. 2023

View full text Add to dashboard Cite

Deep ocean blue holes possess steep physicochemical gradients, especially low dissolved oxygen concentration, which shape the extraordinary microbial communities. However, the environmental responses of microorganisms with different lifestyles and knowledge of culturable microorganisms in the blue holes are still unknown. Here, we investigated the bacterial community structure with different lifestyles of the world’s deepest blue hole - the Yongle Blue Hole (YBH) in the South China Sea using both culture-dependent and -independent methods. YBH can be divided by oxygen content into an oxic zone, a suboxic zone and two anoxic zones. The abundance of bacteria, archaea, genes dsrB and soxB were all higher in the free-living (FL) lifestyle than in the particle-associated (PA) lifestyle, yet the diversity and richness of PA bacteria were higher than that of FL bacteria. More Gammaproteobacteria and less Alphaproteobacteria, Chloroflexi and Nitrospinae were observed within the FL fraction than within the PA fraction. The relative abundance of sulfur-oxidizing bacteria (SOB) was dominant between 100-140 m (anoxic zone I) in YBH, with a maximum of 90.0% (140 m FL fraction). The SOB in YBH were mainly colorless sulfur bacteria and purple non-sulfur bacteria, of which Thiomicrorhabdus and Sulfurimonas were the main representatives. In addition, a total of 294 bacterial strains were isolated on a variety of media and culture conditions, and 22.2% (18/81) of anaerobic strains were identified as potential novel species. Our study reveals a distinction between FL and PA bacteria in YBH. It contributes to further understanding of the bacterial community in deep ocean blue holes, and provides bacterial resources for subsequent studies on their adaptation to extreme marine environments.

show abstract

Section: A B Figuresupporting

confidence: 74%

Unique bacterial communities and lifestyles in deep ocean blue holes: Insights from the Yongle Blue Hole (South China Sea)

et al. 2023

View full text Add to dashboard Cite

show abstract

“…PCR was carried out in 25 μL under the thermal cycle of 95°C for 3 min, 30 cycles of 45 s at 95°C, 45 s at 56°C and 45 s at 72°C, followed by 72°C for 10 min. All the amplicons from both the sediment trap and the water column samples were subjected to high‐throughput sequencing, and the full reports of the results of the water column samples have been published (T. Li et al., 2021; H. Yuan et al., 2021).…”

Section: Methodsmentioning

confidence: 99%

Sediment Trap Study Reveals Dominant Contribution of Metazoans and Dinoflagellates to Carbon Export and Dynamic Impacts of Microbes in a Subtropical Marginal Sea

Yuan

et al. 2022

JGR Biogeosciences

Self Cite

View full text Add to dashboard Cite

Flux and efficiency of carbon export in the ocean has been widely studied using sediment traps, but due to limitations of traditional methods, differential contribution of different organisms is poorly understood. Here, we used DNA metabarcoding to document taxonomic composition for sediment traps deployed at a continental shelf (C6) and a continental slope (C9) site in the South China Sea. The results indicated that metazoans (mainly copepods) and dinoflagellates were the most dominant contributors overall, while dinoflagellates, diatoms, and haptophytes dominated the photosynthetic assemblage. For prokaryotes, Gammaproteobacteria dominated all samples. Furthermore, comparing the trap flora to overlying plankton revealed that metazoans and Polycystinea from Eukaryota and Gammaproteobacteria and Bacteroidetes from Prokaryota were enriched in the trap at both stations whereas haptophytes and Dinophyceae were consistently attenuated during sinking. In addition, Oceanospirillaceae and Rhodobacteraceae exhibited negative correlations with dinoflagellates, and based on overlying plankton metatranscriptomes, were most transcriptionally active lineages for metabolizing labile and semi‐labile organic carbon, potentially contributing to the Martin's decay of sinking particulate organic carbon. Using DNA and RNA sequencing technologies, this study provides novel insights into the lineage‐specific contribution and dynamic impacts of microbes to carbon export in a subtropical marginal sea.

show abstract

“…In these examples, the assembly processes associated with these two lifestyles were identified as different in Lake Taihu (Zhao et al, 2017b) and in the South China Sea (Yuan et al, 2021), and thus seem to be reflected in the differing BCC of each.…”

Section: Introductionmentioning

confidence: 97%

“…Aquatic bacterial communities can be classified as either particle-attached (PA) or free-living (FL) depending on their functional lifestyle ( Grossart, 2010 ). Ecological studies of the relationships between these two bacterial groups have focused mainly on communities found in marine systems ( Lapoussiere et al, 2011 ; Yuan et al, 2021 ) and in both deep ( Parveen et al, 2011 ; Roesel et al, 2012 ) and shallow lakes ( Tang et al, 2015 ; Zhao et al, 2017a , b ; Xu et al, 2018 ). In these studies, the bacterial diversity of PA was frequently found to be higher than that of FL bacteria ( Crespo et al, 2013 ; Ortega-Retuerta et al, 2013 ; Zhao et al, 2017b ).…”

Section: Introductionmentioning

confidence: 99%

“…For example, PA and FL lifestyles differed significantly in BCC in Lake Taihu ( Zhao et al, 2017b ) and in some open sea communities ( Ortega-Retuerta et al, 2013 ), while being nearly identical in some rivers ( Ortega-Retuerta et al, 2013 ). In these examples, the assembly processes associated with these two lifestyles were identified as different in Lake Taihu ( Zhao et al, 2017b ) and in the South China Sea ( Yuan et al, 2021 ), and thus seem to be reflected in the differing BCC of each.…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Spatiotemporal variations, assembly processes, and co-occurrence patterns of particle-attached and free-living bacteria in a large drinking water reservoir in China

Xie

Shen

et al. 2023

Front. Microbiol.

View full text Add to dashboard Cite

Particle-attached (PA) and free-living (FL) bacterial communities are sensitive to pollutant concentrations and play an essential role in biogeochemical processes and water quality maintenance in aquatic ecosystems. However, the spatiotemporal variations, assembly processes, co-occurrence patterns, and environmental interactions of PA and FL bacteria in drinking water reservoirs remain as yet unexplored. To bridge this gap, we collected samples from 10 sites across four seasons in Lake Tianmu, a large drinking water reservoir in China. Analysis of 16S rRNA gene libraries demonstrated spatiotemporal variations in bacterial diversity and identified differences in bacterial community composition (BCC) between PA and FL lifestyles. Capacity for nitrogen respiration, nitrogen fixation, and nitrate denitrification was enriched in the PA lifestyle, while photosynthesis, methylotrophy, and methanol oxidation were enriched in the FL lifestyle. Deterministic processes, including interspecies interactions and environmental filtration, dominated the assembly of both PA and FL bacterial communities. The influence of environmental filtration on the FL community was stronger than that on the PA community, indicating that bacteria in the FL lifestyle were more sensitive to environmental variation. Co-occurrence patterns and keystone taxa differed between PA and FL lifestyles. The ecological functions of keystone taxa in the PA lifestyle were associated with the supply and recycling of nutrients, while those in FL were associated with the degradation of complex pollutants. PA communities were more stable than FL communities in the face of changing environmental conditions. Nutrients (e.g., TDN and NO3–) and abiotic and biotic factors (e.g., WT and Chl-a) exerted positive and negative effects, respectively, on the co-occurrence networks of both lifestyles. These results improve our understanding of assembly processes, co-occurrence patterns, and environmental interactions within PA and FL communities in a drinking water reservoir.

show abstract

Diversity Distribution, Driving Factors and Assembly Mechanisms of Free-Living and Particle-Associated Bacterial Communities at a Subtropical Marginal Sea

Cited by 16 publications

References 79 publications

Unique bacterial communities and lifestyles in deep ocean blue holes: Insights from the Yongle Blue Hole (South China Sea)

Unique bacterial communities and lifestyles in deep ocean blue holes: Insights from the Yongle Blue Hole (South China Sea)

Sediment Trap Study Reveals Dominant Contribution of Metazoans and Dinoflagellates to Carbon Export and Dynamic Impacts of Microbes in a Subtropical Marginal Sea

Spatiotemporal variations, assembly processes, and co-occurrence patterns of particle-attached and free-living bacteria in a large drinking water reservoir in China

Contact Info

Product

Resources

About