Diversity, composition and potential roles of sedimentary microbial communities in different coastal substrates around subtropical Okinawa Island, Japan

Environmental Microbiome, Год журнала: 2024, Номер 19(1)

Опубликована: Июль 30, 2024

Abstract Background Marine benthic prokaryotic communities play crucial roles in material recycling within coastal environments, including coral reefs. Coastal sedimentary microbiomes are particularly important as potential reservoirs of symbiotic, beneficial, and pathogenic bacteria reef therefore presumably a core role local ecosystem functioning. However, there is lack studies comparing different environments with multiple sites on the island scale, focusing communities, previous investigations have focused mainly single site or specific environmental conditions. In our study, we collected sediments from seven around Okinawa Island, Japan, three types; sandy bottoms, seagrass meadows, hard substratum living scleractinian corals. We then used metabarcoding to identify compositions estimate enzymes encoded by genes infer their functions. Results The results showed that substrata had significantly compositions. Seagrass meadow exhibited higher alpha-diversity compared bottom sites. ANCOM analysis revealed bacterial orders were differentially abundant each substratum. At sites, putative disease- thermal stress-related opportunistic such Rhodobacterales , Verrucomicrobiales Cytophagales comparatively abundant, while abundantly harbored Desulfobacterales Steroidobacterales Chromatiales which common meadows. According gene-coded enzyme analyses numbers highest Notably, superoxide dismutase, an for anti-oxidative stress tissue, was at Our provide list prokaryotes look into substrate, further emphasize importance considering microbiome, especially when conservation. Conclusion findings prove capable capturing compositional differences diversity microbial environments. Furthermore, several taxa suggested be more enzymic also possible ecological Further combination field observations temporal sampling, key achieving better understanding interactions between microbiome surrounding community.

Язык: Английский

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Metagenomics insights into microbial diversity shifts among seagrass sediments

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Янв. 15, 2024

Seagrasses are important in marine ecosystems by providing food and shelter for animals, storing carbon, reducing sulfide methane emissions. Previous studies found variations the microbiomes of seagrass both above below sediment surface, with certain microbes serving as indicators health. Despite numerous on bacterial communities specific species, little is known about mixed beds. This study used metagenomics to investigate microbial diversity bare seagrass-associated sediments, across seven species combinations. The findings revealed higher alpha bacteria archaea upper layers, whereas eukaryotes were more diverse lower layers. Significant taxonomic differences between among species. Several metagenome-assembled genomes reconstructed, primarily from Pseudomonadota Thermodesulfobacteriota. improves our understanding complex interactions seagrasses their associated laying a foundation efficient strategies management restoration ecosystems.

Язык: Английский

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Impacts of eutrophication on microbial community structure in sediment, seawater, and phyllosphere of seagrass ecosystems

Frontiers in Microbiology, Год журнала: 2024, Номер 15

Опубликована: Авг. 14, 2024

Introduction Seagrass-associated microbial communities play a crucial role in the growth and health of seagrasses. However, like seagrass meadows, seagrass-associated are often affected by eutrophication. It remains unclear how eutrophication influences composition function associated with different parts seagrass. Methods We employed prokaryotic 16S rRNA gene high-throughput sequencing combining community structure analysis co-occurrence network to investigate variances compositions, potential functions complexities across sediment, leaves, seawater within eutrophic areas two adjacent meadows on Hainan Island, China. Results Our results indicated that diversity leaves was significantly lower than sediment but higher seawater. Both phyllosphere showed no significant difference between highly less sites each lagoon. more lagoon, while Heavy increased relative abundance microorganisms potentially involved anaerobic metabolic processes, reducing those responsible for beneficial denitrification. The main factor affecting organic carbon high levels leading decreased diversity. revealed heavy notably reduced complexity internal connections comparison communities. Furthermore, ternary demonstrated diminished external Conclusion pronounced decrease biodiversity under conditions can lead greater functional loss, exacerbating decline. This study emphasizes significance compared conservation restoration conditions.

Язык: Английский

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Chitosan reduces naturally occurring plant pathogenic fungi and increases nematophagous fungusPurpureocilliumin field soil

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2024, Номер unknown

Опубликована: Июль 4, 2024

Abstract Chitosan reduced soil pH, conductivity (CE) and cation exchange capacity (CEC) in pots when applied at field capacity. However, chitosan did not affect these physicochemical properties, monthly to agricultural fields. respiration. Increases respiration found plots, especially spring-midsummer, were significant. Although, no differences mineral nitrogen found, influenced microbiota. Metabarcoding showed significantly modifies fungal genera composition of ecologically managed soil. On the contrary, caused significant bacterial taxa coacervates increase naturally occurring nematophagous fungus Purpureocillium respect solution treated untreated controls. Besides reduces inoculum plant pathogenic fungi Alternaria Fusarium Soil microbial co-occurrence network analysis clustering coefficient (CC) for ITS+V1-V2 regions show that Pochonia promoted into modules. In addition, CC ITS+V3-V4 nematode trapping-fungus Orbilia bacteria belonging Acidimicrobiales Cytophagales also contributed Our results microbiota both egg-parasites trapping-fungi help structure

Язык: Английский

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COVID-19 induced lockdown reduced metal concentration in the surface water and bottom sediment of Asia's largest lagoon

Marine Pollution Bulletin, Год журнала: 2024, Номер 209, С. 117127 - 117127

Опубликована: Окт. 19, 2024

Язык: Английский

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Spatio-temporal structuring and assembly of abundant and rare bacteria in the benthic compartment of a marginally eutrophic lagoon

Marine Pollution Bulletin, Год журнала: 2024, Номер 200, С. 116138 - 116138

Опубликована: Фев. 15, 2024

Язык: Английский

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Planktonic and Benthic Archaea in Brackish Coastal Lagoons; a Case Study using High-throughput Amplicon Sequencing from Chilika Lagoon, Odisha, India

Elsevier eBooks, Год журнала: 2024, Номер unknown, С. 147 - 169

Опубликована: Янв. 1, 2024

Язык: Английский

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Genomic approaches for the investigation of seagrass rhizosphere microbiome and bioprospecting potential: a field study from Chilika Lagoon, Odisha, India

Elsevier eBooks, Год журнала: 2024, Номер unknown, С. 201 - 234

Опубликована: Янв. 1, 2024

Язык: Английский

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Spatiotemporal distributions, co-occurrence networks, and assembly mechanisms of the bacterial community in sediments of the Yangtze River: comprehensive insights into abundant and rare taxa

Frontiers in Microbiology, Год журнала: 2024, Номер 15

Опубликована: Дек. 11, 2024

Sediments are key reservoirs for rare bacterial biospheres that provide broad ecological services and resilience in riverine ecosystems. Compared with planktons, there is a lack of knowledge regarding the differences between abundant taxa benthic bacteria along large river. Here, we offer comprehensive insights into spatiotemporal distributions, co-occurrence networks, assembly processes three divided categories namely always (ART), conditionally (CRT), (CRAT) sediments covering distance 4,300 km Yangtze River. Our study demonstrated ART/CRT contributed greatly to higher Chao-1 index, Shannon-Wiener phylogenetic alpha diversity autumn than spring. ART showed high overall beta diversity, CRT/CRAT exhibited more significant distance-decay patterns both seasons, mainly corresponding macroscopic landform types. CRT predominated nonrandom network, 97% keystone species mostly affiliated Acidobacteriota flourishing lower-reach plain. Two selection had greatest influences on (74.7–77.6%), whereas CRAT were driven primarily by dispersal limitation (74.9–86.8%) heterogeneous (33.9–48.5%) undominated stochasticity (32.7–36.5%). Natural factors such as river flow channel slope correlations community variation nutrients all groups, total organic carbon mediated balance among distinct seasons. Taken together, these results an improved understanding discrepancy biogeographic Asia’s largest

Язык: Английский

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Epiphytic and endophytic microbiome of the seagrassZostera marina: Do they contribute to pathogen reduction in seawater?

bioRxiv (Cold Spring Harbor Laboratory), Год журнала: 2023, Номер unknown

Опубликована: Авг. 22, 2023

Abstract Seagrass ecosystems provide crucial ecosystem services for coastal environments and were shown to reduce the abundance of pathogens linked infections in humans marine organisms. Among several potential drivers, seagrass phenolics released into seawater have been suggested play role pathogen suppression, but involvement microbiome such effect has not studied. Here we hypothesized that eelgrass Zostera marina , especially leaf epiphytes are at direct interface between host surrounding seawater, inhibit pathogenic microorganisms, hence, contribute their suppression. Using a culture-dependent approach, isolated 88 bacteria fungi associated with surfaces inner tissues leaves (healthy decaying) roots, plus 19 strains from sediment. We first assessed broad-spectrum antibiotic activity microbial extracts against large panel common aquatic, human (fecal) plant pathogens, finally mined metabolome most active extracts. The healthy epibiotic bacteria, particularly Streptomyces sp. strain 131, displayed potent superior some control drugs. Gram-negative abundant on surfaces, few endosphere-associated also showed remarkable antimicrobial activity. UPLC-MS/MS-based massive untargeted metabolomics analyses rich specialized metabolite repertoire low annotation rates, indicating presence many undescribed antimicrobials This study contributes our current understanding chemical ecology seagrasses, implying microbiome, epiphytes, reduction load seawater. Such is only beneficial health ocean, aquaculture sector, context climate change expected exacerbate all infectious diseases, may assist conservation management strategies.

Язык: Английский

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