Benthic Microbial Community in Marine and Coastal Environment

A special issue of Journal of Marine Science and Engineering (ISSN 2077-1312). This special issue belongs to the section "Marine Biology".

Deadline for manuscript submissions: closed (29 February 2024) | Viewed by 3722

Special Issue Editor

1. School of Marine Science and Ocean Engineering, University of New Hampshire, Durham, NH, USA
2. Marine Microverse Institute, Kittery, ME, USA
Interests: marine ecology; molecular source technology; biogeochemistry and microbial biodiversity with applications to the blue economy
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Special Issue Information

Dear Colleagues,

The oceans harbor a remarkable diversity of marine microorganisms. The sediment seafloor of the coastal shelf and deep-sea habitat, including the microbial community, covers nearly 70% of the Earth's surface. However, further study is needed regarding this extensive, lesser-known ecosystem's structure, diversity, function, and biochemical processes. The need to understand the impact of climate-related events such as acidification, pollution, hypoxia, and marine heat waves is becoming more urgent. The marine microbial habitat regulates marine ecosystem functioning, including energy transport, and carbon and nitrogen cycling across the sediment–water interface. Sediment microbial metabolic activities influence marine environments through organic matter deposition, recycling, and decomposition across seafloor regions. Compared to the water column microbial sphere, the sediment microbial community is unique as this habitat processes myriad life forms, including prokaryotes, archaea, and microphytobenthos. Many organisms demonstrate outstanding potential for natural products and medicinal compound discovery. Elucidating the interactions between components of the benthic microbiota and characterizing the implications of biodiversity changes for ecosystem functions, particularly in response to anthropogenic disturbance, remain continuing challenges.

There is a critical need to better understand and discover undocumented species of archaea, bacteria, micro-eukaryotes, and viruses. With the advances in marine genomics, culturing techniques, and bioinformatics, we can improve our understanding of the functional groups that drive critical biogeochemical cycles and offer the prospect of medicinal compounds from natural products.

This Special Issue aims to explore the diversity of coastal and deep-sea benthic microbial communities, from prokaryotes to macrofauna, and the linkages that impact community metabolism, biogeochemical fluxes, ecosystem services, and coupled natural–human systems. For example, there is a need to investigate microbial community adaptation concerning the co-occurrence of pathogens and pollution in relation to environmental change. The scope may also include the kinetics of vital metabolic processes such as remineralization. Understanding how marine sediments play a role in the global cycle to sequester carbon and recycle nutrients is imperative. The social and ecological factors associated with marine protected areas may also be considered. This issue will highlight studies across various geographic systems, investigating biodiversity, biochemical mechanisms, and techniques pertaining to microbial natural products with human health impacts.

Dr. John P. Bucci
Guest Editor

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Published Papers (2 papers)

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Research

17 pages, 5375 KiB  
Article
Streptomyces hygroscopicus and rapamycinicus Evaluated from a U.S. Marine Sanctuary: Biosynthetic Gene Clusters Encode Antibiotic and Chemotherapeutic Secondary Metabolites
by Hannah R. Flaherty, Semra A. Aytur and John P. Bucci
J. Mar. Sci. Eng. 2024, 12(11), 2076; https://doi.org/10.3390/jmse12112076 - 17 Nov 2024
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Abstract
Cancer remains a leading cause of death worldwide. Also threatening the public is the emergence of antibiotic resistance to existing medicines. Despite the challenge to produce viable natural products to market, there continues to be a need within public health to provide new [...] Read more.
Cancer remains a leading cause of death worldwide. Also threatening the public is the emergence of antibiotic resistance to existing medicines. Despite the challenge to produce viable natural products to market, there continues to be a need within public health to provide new chemotherapeutic drugs such as those exhibiting cytotoxicity and tumor cell growth-inhibitory properties. As marine genomic research advances, it is apparent that marine-derived sediment harbors uniquely potent bioactive compounds compared to their terrestrial counterparts. The Streptomyces genus in particular produces more than 30% of all secondary metabolites currently approved for human health, thus harboring unexplored reservoirs of chemotherapeutic and antibiotic agents to combat emerging disease. The present study identifies the presence of Streptomyces hygroscopicus and rapamycinicus in environmental sediment at locations within the U.S. Stellwagen Bank National Marine Sanctuary (SBNMS) from 2017 to 2022. Sequencing and bioinformatics methods catalogued biosynthetic gene clusters (BGCs) that drive cytotoxic and antibiotic biochemical processes in samples collected from sites permittable and protected to fishing activity. Poisson regression models confirmed that Sites 1 and 3 had significantly higher occurrences of rapamycinicus than other sites (p < 0.01). Poisson regression models confirmed that Sites 1, 2 and 3 had significantly higher occurrence for Streptomyces hygroscopicus across sites (p < 0.05). Interestingly, permitted fishing sites showed a greater prevalence of both species. Statistical analyses showed a significant difference in aligned hits with polyketide synthases (PKSs) and non-ribosomal peptide synthetases (NRPSs) by site and between species with hygroscopicus showing a greater quantity than rapamycinicus among Streptomyces spp. (p < 0.05; F = 4.7 > F crit). Full article
(This article belongs to the Special Issue Benthic Microbial Community in Marine and Coastal Environment)
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17 pages, 2211 KiB  
Article
Composition and Distribution of Microeukaryotic Communities in the Surface Sediments of Five Geographic Regions of Bohai Sea Based on 18S rDNA Amplicon Sequencing
by Wenquan Zhang, Huameng Ge, Chengbing Song, Chengcheng Li and Shenghao Liu
J. Mar. Sci. Eng. 2024, 12(3), 410; https://doi.org/10.3390/jmse12030410 - 26 Feb 2024
Cited by 2 | Viewed by 1493
Abstract
The Bohai Sea is a semi-enclosed shallow water that is influenced by both natural and anthropogenic stressors. However, the microeukaryotic communities and environmental factors that affect them in different regions remain largely unclear. We investigated microeukaryotic communities in surface sediments from five geographic [...] Read more.
The Bohai Sea is a semi-enclosed shallow water that is influenced by both natural and anthropogenic stressors. However, the microeukaryotic communities and environmental factors that affect them in different regions remain largely unclear. We investigated microeukaryotic communities in surface sediments from five geographic regions using high-throughput sequencing of the 18S rDNA gene. The Miaodao Archipelago, Yellow River Estuary, and Central Bohai Sea had the highest Shannon and Simpson indices of the eukaryotic communities, while the Yellow River Estuary exhibited the highest Chao1 index. The microeukaryotic communities in surface sediments were mainly composed of Dinoflagellata, Bacillariophyta, Ciliophora, Cercozoa, and Protalveolata. Thalassiosira has a relatively high abundance at the Liaodong Bay and Central Bohai Sea, possessing the proportion of 41.70% and 38.10%, respectively, while Gonyaulax was the most abundant taxa in the Bohai Bay, occupying a proportion of 57.77%. Moreover, a negative correlation between diatoms and dinoflagellates was observed. Phosphorus, nitrogen, salinity, temperature, and silicate were major environmental determinants of microeukaryotic composition. Microeukaryotic communities in the surface sediments, especially for the composition and ratio of diatoms to dinoflagellates, reflected the environmental quality of marine ecosystems. Overall, these microeukaryotic community compositions provide a reliable indicator for monitoring the level of marine eutrophication in the Bohai Sea. Full article
(This article belongs to the Special Issue Benthic Microbial Community in Marine and Coastal Environment)
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