Seasonal succession of microbes in different size-fractions and their modular structures determined by both macro- and micro-environmental filtering in dynamic coastal waters

Chun, Seong-Jun; Cui, Yingshun; Baek, Seung Ho; Ahn, Chi‐Yong; Oh, Hee‐Mock

doi:10.1016/j.scitotenv.2021.147046

Cited by 24 publications

(27 citation statements)

References 95 publications

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“…These groups are also found to attach to plastic debris (Lee et al, 2008;Jain and Krishnan, 2017). In addition, in Korean coastal waters, Chun et al (2021) reported an increase of Bacteroidia during diatom (e.g., Chaetoceros, Pseudo-nitzschia, Leptocylindrus, Thalassiosira, and Skeletonema) blooms, probably related to their ability in degradation of phytoplankton-derived organic matter, which are further used by other bacteria as carbon sources (Williams et al, 2013). Our results support these observations, confirming the ecological role of Bacteroidia as an important group in the PA fraction of coastal areas, especially in the presence of diatom blooms.…”

Section: Discussionmentioning

confidence: 97%

Diversity of Free-Living and Particle-Attached Prokaryotes in a River-Influenced Coastal Area of the Northern Adriatic Sea

Trano

Piredda²,

Balestra³

et al. 2022

Front. Mar. Sci.

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The Northern Adriatic Sea is a key area of the Mediterranean Sea, strongly affected by freshwater inputs, mainly from the Po River, which bring high amounts of nutrients as well as organic and inorganic particles. Free-living and particle-attached prokaryotes were characterized by 16S rRNA gene amplicon sequencing of size-fractionated samples collected during a diatom bloom in this area. The diversity of free-living and particle-attached prokaryotic assemblages was investigated with the aim to understand how the microbial communities are structured in the two fractions and whether specific microbial groups are associated to one lifestyle or the other. The results highlight a diverse prokaryotic community dominated by Proteobacteria, Bacteroidetes, and, remarkably, Firmicutes. Taxa within Firmicutes and Alphaproteobacteria are identified as the main particle-attached indicators by LEfSe, while members of Bacteroidetes and Gammaproteobacteria were representative of the free-living lifestyle, although they were also usually found as particle-attached. Collectively, the results suggest that both the free-living and the particle-attached lifestyles are a complex combination of specialization and adaptation to local conditions.

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Section: Discussionmentioning

confidence: 97%

Diversity of Free-Living and Particle-Attached Prokaryotes in a River-Influenced Coastal Area of the Northern Adriatic Sea

Trano

Piredda²,

Balestra³

et al. 2022

Front. Mar. Sci.

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show abstract

“…Thioglobaceae (SUP05 cluster) and Beijerinckiaceae ( Methylocystis ) were abundant in the surface water samples at Lease 1 and have been previously reported in aquaculture sites (Fan et al, 2019; Haro-Moreno et al, 2020). The former is capable of nitrate reduction and dark sulphide oxidation processes found below the photic zone in marine environments (Reji et al, 2020; Chun et al, 2021) while the latter is methanotrophic (i.e., methane oxidizing bacteria) (Fan et al, 2019). Methanotrophic bacteria participate in the nitrogen cycle by linking methane oxidation when under hypoxic conditions and performing denitrification when exposed to nitrate (Kits et al, 2015).…”

Section: Discussionmentioning

confidence: 99%

Composition and functionality of bacterioplankton communities in marine coastal zones adjacent to finfish aquaculture

Silva¹,

White²,

Bowman³

et al. 2022

Preprint

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Finfish aquaculture is one of the fastest-growing primary industries globally and is increasingly common in coastal ecosystems demanding effective impact monitoring tools. Bacterioplankton is ubiquitous in marine environment and its rapid response to environmental change makes them a potential bioindicator for environmental impacts. This study aims to verify the use of the taxonomic and functional profiles of bacterioplankton using high-throughput amplicon sequencing. Water was sampled along a distance gradient in three different depths from two lease areas and three control sites in a low-oxygen, highly stratified marine embayment. Our results revealed a vertical variation in bacterioplankton community strongly associated to NOx, conductivity, salinity, temperature and PO4. The overall shift in the taxonomic profile (ASVs) were more noticeable than in the functional profile. Despite depth stratification, ASVs and functional annotations were detected as potential bioindicators for aquaculture activity. Differentially abundant bacteria found in lease areas were associated with nutrient enrichment (e.g., Desulfovibrionaceae, Psychromonadaceae, and Fusibacter) or are known as potential pathogens (e.g., Pseudomonas, Vibrio and Aliivibrio) and members of the fish gut microbiome (e.g., Leptotrichiaceae, Enterobacterales and Pseudomonadales). Differences in the predicted functional profile were strongest in the bottom waters near leases, where pathways assigned to organic compounds and vitamin degradation, fermentation, methanogenesis and antibiotic resistance were detected. Overall, our findings indicated that the use of 16S rRNA sequencing of bacterioplankton communities are a promising and alternative method for detecting variations along an aquaculture gradient in the water column.

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“…), Flavobacteriaceae (NS5 marine group) and γ-proteobacteria SAR86 clade. As signi cant free-living or particle-associated constituents found in coastal and/or openocean waters throughout the world, and whose populations are well known to vary temporally [89, 90,91],…”

Section: Discussionmentioning

confidence: 99%

Host species and environment shape the gut microbiota of cohabiting marine bivalves

Wos‐Oxley¹,

Catalano²,

Hassan³

et al. 2022

Preprint

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Pacific oysters (Crassostrea gigas) and Mediterranean mussels (Mytilus galloprovincialis) are commercially important marine bivalves that frequently coexist and have overlapping feeding ecologies. Like other invertebrates, their gut microbiota is thought to play an important role in supporting their health and nutrition. Yet, little is known regarding the role of the host and environment in driving these communities. Here, bacterial assemblages were surveyed from seawater and gut aspirates of farmed C. gigas and co-occurring wild M. galloprovincialis in summer and winter using Illumina 16S rRNA gene sequencing. Unlike seawater, which was dominated by Proteobacteria, bivalve samples largely consisted of Tenericutes (Mollicutes), and accounted for >50% of the total OTU abundance. Despite large numbers of common (core) bacterial taxa, bivalve-specific species (OTUs) were also evident and predominantly associated with Mycoplasamataceae (notably Mycoplasma). An increase in diversity (though with varied taxonomic evenness) was observed in winter for both bivalves, and was associated with changes in the abundance of core and bivalve-specific taxa, including several representing host-associated and environmental (free-living or particle-diet associated) organisms. Our findings highlight the contribution of the environment and the host in defining the composition of the gut microbiota in cohabiting, intergeneric bivalve populations.

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Seasonal succession of microbes in different size-fractions and their modular structures determined by both macro- and micro-environmental filtering in dynamic coastal waters

Cited by 24 publications

References 95 publications

Diversity of Free-Living and Particle-Attached Prokaryotes in a River-Influenced Coastal Area of the Northern Adriatic Sea

Diversity of Free-Living and Particle-Attached Prokaryotes in a River-Influenced Coastal Area of the Northern Adriatic Sea

Composition and functionality of bacterioplankton communities in marine coastal zones adjacent to finfish aquaculture

Host species and environment shape the gut microbiota of cohabiting marine bivalves

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