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      Geographical distribution and driving force of micro-eukaryotes in the seamount sediments along the island arc of the Yap and Mariana trenches

      research-article
      1 , 2 , 3 , 4 , 1 , 1 , , 1 , 3 , 4 ,
      Microbiology Spectrum
      American Society for Microbiology
      micro-eukaryote, driving force, trophic state, seamount

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          ABSTRACT

          The specific topographic characteristics and complex hydrodynamics of seamounts could directly or indirectly affect the distribution and trophic status of microbes. However, little is known about the distribution patterns and associated driving forces of micro-eukaryotes in the deep seamounts. Micro-eukaryotes in the seamount sediments along the island arc of the Yap and Mariana trenches were investigated using high-throughput sequencing and quantitative PCR based on the 18S rRNA gene. Micro-eukaryotic communities from seamounts were clustered together and distinct from those of the depression, which showed comparatively lower diversity, gene abundance, endemic species, and higher proportions of decomposers and parasites. This clear geographical distribution pattern was mainly shaped by the deterministic process, especially environmental (61.63%) and biotic (mainly the unexplained 30.05%) factors, potentially reflecting the seamount effect along the horizontal dimension very likely caused by enclosed circulation cells. Varied community connectivity existed along the summit, flank, and base of different seamounts, and this seamount effect along the vertical dimension might be attributed to the upwelling/downwelling water flows. Prevalence of parasitism and predation for the trophic relationships among micro-eukaryotes would be helpful for adaptation, diversification, and maintaining the ecological balance in this extreme biosphere. This study provides insights into the ecological patterns, assembling processes, and species interactions underlying the dynamics of micro-eukaryotic communities across a series of seamounts with a comparison of the depression and would expand our understanding of seamount effects on the deep-sea ecosystems.

          IMPORTANCE

          A distinct distribution pattern was shaped by a deterministic process. Enhanced vertical connectivity expanded the previous understanding of seamount effects. Parasitism and predation were prevalent in the seamounts.

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          Most cited references69

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          DADA2: High resolution sample inference from Illumina amplicon data

          We present DADA2, a software package that models and corrects Illumina-sequenced amplicon errors. DADA2 infers sample sequences exactly, without coarse-graining into OTUs, and resolves differences of as little as one nucleotide. In several mock communities DADA2 identified more real variants and output fewer spurious sequences than other methods. We applied DADA2 to vaginal samples from a cohort of pregnant women, revealing a diversity of previously undetected Lactobacillus crispatus variants.
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            QIIME allows analysis of high-throughput community sequencing data.

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              Quantifying community assembly processes and identifying features that impose them.

              Spatial turnover in the composition of biological communities is governed by (ecological) Drift, Selection and Dispersal. Commonly applied statistical tools cannot quantitatively estimate these processes, nor identify abiotic features that impose these processes. For interrogation of subsurface microbial communities distributed across two geologically distinct formations of the unconfined aquifer underlying the Hanford Site in southeastern Washington State, we developed an analytical framework that advances ecological understanding in two primary ways. First, we quantitatively estimate influences of Drift, Selection and Dispersal. Second, ecological patterns are used to characterize measured and unmeasured abiotic variables that impose Selection or that result in low levels of Dispersal. We find that (i) Drift alone consistently governs ∼25% of spatial turnover in community composition; (ii) in deeper, finer-grained sediments, Selection is strong (governing ∼60% of turnover), being imposed by an unmeasured but spatially structured environmental variable; (iii) in shallower, coarser-grained sediments, Selection is weaker (governing ∼30% of turnover), being imposed by vertically and horizontally structured hydrological factors;(iv) low levels of Dispersal can govern nearly 30% of turnover and be caused primarily by spatial isolation resulting from limited exchange between finer and coarser-grain sediments; and (v) highly permeable sediments are associated with high levels of Dispersal that homogenize community composition and govern over 20% of turnover. We further show that our framework provides inferences that cannot be achieved using preexisting approaches, and suggest that their broad application will facilitate a unified understanding of microbial communities.
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                Author and article information

                Contributors
                Role: Data curationRole: Writing – original draft
                Role: Writing – review and editing
                Role: Methodology
                Role: Supervision
                Role: Supervision
                Role: Editor
                Journal
                Microbiol Spectr
                Microbiol Spectr
                spectrum
                Microbiology Spectrum
                American Society for Microbiology (1752 N St., N.W., Washington, DC )
                2165-0497
                Nov-Dec 2023
                09 November 2023
                09 November 2023
                : 11
                : 6
                : e02069-23
                Affiliations
                [1 ] CAS Key Lab for Experimental Study under Deep-sea Extreme Conditions, Institute of Deep-sea Science and Engineering, Chinese Academy of Sciences; , Sanya, China
                [2 ] Department of Ocean Science, The Hong Kong University of Science and Technology, Clear Water Bay; , Kowloon, Hong Kong, China
                [3 ] Southern Marine Science and Engineering Guangdong Laboratory; , Zhuhai, China
                [4 ] HKUST-CAS Sanya Joint Laboratory of Marine Science Research, Chinese Academy of Sciences; , Sanya, China
                Chinese Academy of Sciences; , Beijing, China
                Author notes
                Address correspondence to Hongmei Jing, hmjing@ 123456idsse.ac.cn
                Address correspondence to Xiaotong Peng, xtpeng@ 123456idsse.ac.cn

                The authors declare no conflict of interest.

                Author information
                https://orcid.org/0000-0001-7535-8806
                https://orcid.org/0000-0002-3184-2898
                Article
                02069-23 spectrum.02069-23
                10.1128/spectrum.02069-23
                10714776
                37943079
                d9af6490-513a-4879-a5f1-edd26c209edb
                Copyright © 2023 Zhang et al.

                This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.

                History
                : 16 May 2023
                : 26 September 2023
                Page count
                supplementary-material: 4, authors: 5, Figures: 6, Tables: 1, References: 69, Pages: 16, Words: 8404
                Funding
                Funded by: MOST | National Key Research and Development Program of China (NKPs);
                Award ID: 2022YFC2805505
                Award Recipient :
                Funded by: MOST | National Key Research and Development Program of China (NKPs);
                Award ID: 2022YFC2805304
                Award Recipient :
                Funded by: Hainan province science and technology special fund;
                Award ID: ZDKJ2021036
                Award Recipient :
                Funded by: Hainan provide science and technology special fund;
                Award ID: ZDKJ2019011
                Award Recipient :
                Categories
                Research Article
                environmental-microbiology, Environmental Microbiology
                Custom metadata
                November/December 2023

                micro-eukaryote,driving force,trophic state,seamount
                micro-eukaryote, driving force, trophic state, seamount

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