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      Microplastics in feed cause sublethal changes in the intestinal microbiota and a non-specific immune response indicator of the freshwater crayfish Procambarus clarkii (Decapoda: Cambaridae)

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          Abstract

          Microplastics (MP) are a hazardous pollutant of global concern that threatens aquatic ecosystems and public health. We used the invasive, cosmopolitan, and environmentally versatile red swamp crayfish Procambarus clarkii as a model to study the effects of MP on the intestinal microbiome. Crayfish collected from the environment were compared with specimens exposed to recycled Polyethylene terephthalate (rPET) MP in feed (30%) for 96 h in the laboratory and a control group. We analyzed the 16S rRNA of the intestinal bacteria by PCR-DGGE and high-throughput sequencing. MP exposure caused dysbiosis of the intestinal microbiota, with an increase in Alphaproteobacteria and Actinobacteria. We detected higher abundance of opportunistic genera such as Klebsiella, Acinetobacter, Hydromonas, Pseudomonas, Gemmobacter, and Enterobacter on MP fed organisms. Moreover, MP exposure reduced the abundance of Clostridia and Bateroidetes, which are important for immune system development and pathogen prevention. Furthermore, MP exposure decreased the phenoloxidase (PO) immune response in crayfish. There was a significant difference in the richness of intestinal bacterial communities after consumption of food contaminated with MP, likely increasing the abundance of opportunistic bacteria in the intestinal microbiota. Our results suggest that MP alter the gut microbial composition and impair the health of P. clarkii.

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          A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding

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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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              The SILVA ribosomal RNA gene database project: improved data processing and web-based tools

              SILVA (from Latin silva, forest, http://www.arb-silva.de) is a comprehensive web resource for up to date, quality-controlled databases of aligned ribosomal RNA (rRNA) gene sequences from the Bacteria, Archaea and Eukaryota domains and supplementary online services. The referred database release 111 (July 2012) contains 3 194 778 small subunit and 288 717 large subunit rRNA gene sequences. Since the initial description of the project, substantial new features have been introduced, including advanced quality control procedures, an improved rRNA gene aligner, online tools for probe and primer evaluation and optimized browsing, searching and downloading on the website. Furthermore, the extensively curated SILVA taxonomy and the new non-redundant SILVA datasets provide an ideal reference for high-throughput classification of data from next-generation sequencing approaches.
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                Author and article information

                Contributors
                Journal
                Front Microbiol
                Front Microbiol
                Front. Microbiol.
                Frontiers in Microbiology
                Frontiers Media S.A.
                1664-302X
                18 July 2023
                2023
                : 14
                : 1197312
                Affiliations
                [1] 1Escuela de Biología, Universidad de Costa Rica , San José, Costa Rica
                [2] 2Escuela de Biología, Instituto Tecnológico de Costa Rica , Cartago, Costa Rica
                [3] 3Laboratorio ECOTOX, Instituto Regional de Estudios en Sustancias Tóxicas (IRET), Universidad Nacional , Heredia, Costa Rica
                [4] 4Centro de Investigación en Ciencias del Mar y Limnología (CIMAR), Universidad de Costa Rica , San José, Costa Rica
                [5] 5Centro de Investigación en Biodiversidad y Ecología Tropical (CIBET), Universidad de Costa Rica , San José, Costa Rica
                Author notes

                Edited by: Francesca Di Pippo, National Research Council (CNR), Italy

                Reviewed by: Hailong Zhou, Hainan University, China; Dilip Kumar Jha, National Institute of Ocean Technology, India

                *Correspondence: Maria Arias-Andres, maria.arias.andres@ 123456una.cr

                These authors share first authorship

                Article
                10.3389/fmicb.2023.1197312
                10390773
                25063ecd-28a5-47ed-8668-16924f0a3b79
                Copyright © 2023 Guillén-Watson, Arias-Andres, Rojas-Jimenez and Wehrtmann.

                This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

                History
                : 30 March 2023
                : 28 June 2023
                Page count
                Figures: 3, Tables: 0, Equations: 0, References: 119, Pages: 13, Words: 11886
                Categories
                Microbiology
                Original Research
                Custom metadata
                Systems Microbiology

                Microbiology & Virology
                gut microbiota,crayfish,microplastics,freshwater,dysbiosis
                Microbiology & Virology
                gut microbiota, crayfish, microplastics, freshwater, dysbiosis

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