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      Could the gut microbiota community in the coral trout Plectropomus leopardus (Lacepède, 1802) be affected by antibiotic bath administration?

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          Abstract

          Gut microbiota in fish plays an important role in the nutrient digestion, immune responses and disease resistance. To understand the effect of fluoroquinolone antibiotic bath administration on fish gut microbiota, the gut microbiota community in the coral trout Plectropomus leopardus (Lacepède, 1802) was studied after enrofloxacin bathing treatment at two concentrations (5 and 10 mg/L) and 0 mg/L as control. A total of 90 fish were used in this study, and three replicates were used for each treatment. After a 24‐hr bath, the gut bacterial composition was analyzed using high‐throughput Illumina sequencing. The results indicated that the richness, diversity and the dominant bacterial taxa of P. leopardus gut bacteria were not affected by enrofloxacin bathing ( p > .05). Proteobacteria and Firmicutes were the dominant phyla, and Exiguobacterium, Citrobacter, Vibrio, Acinetobacter, Pseudomonas were the dominant genus. The findings in the present study provide an understanding on the relationship between fish gut bacteria community and antibiotic bath administration. The findings of this study are instructive on the antibiotic bath administration applied for the management of P. leopardus health in aquaculture.

          Abstract

          The gut microbiota community in the coral trout Plectropomus leopardus (Lacepède, 1802) was studied after enrofloxacin bathing treatment at two concentrations (5 and 10 mg/L) and 0 mg/L as control. After a 24‐hr bath, the gut bacterial composition was analyzed using high‐throughput Illumina sequencing. The results indicated that the richness, diversity and the dominant bacterial taxa of P. leopardus gut bacteria were not affected by enrofloxacin bathing ( p > .05).

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          Most cited references29

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          Enzyme-producing bacteria isolated from fish gut: a review

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            Environmental and physiological factors shape the gut microbiota of Atlantic salmon parr (Salmo salar L.)

            Gut microbes are key players in host immune system priming, protection and development, as well as providing nutrients to the host that would be otherwise unavailable. Due to this importance, studies investigating the link between host and microbe are being initiated in farmed fish. The establishment, maintenance and subsequent changes of the intestinal microbiota are central to define fish physiology and nutrition in the future. In fish, unlike mammals, acquiring intestinal microbes is believed to occur around the time of first feeding mainly from the water surrounding them and their microbial composition over time is shaped therefore by their habitat. Here we compare the distal intestine microbiota of Atlantic salmon parr reared in a recirculating laboratory aquarium with that of age matched parr maintained in cage culture in an open freshwater loch environment of a commercial fish farm to establish the microbial profiles in the gut at the freshwater stage and investigate if there is a stable subset of bacteria present regardless of habitat type. We used deep sequencing across two variable regions of the 16S rRNA gene, with a mean read depth of 180,144 ± 12,096 raw sequences per sample. All individual fish used in this study had a minimum of 30,000 quality controlled reads, corresponding to an average of 342 ± 19 Operational Taxonomic Units (OTUs) per sample, which predominantly mapped to the phyla Firmicutes, Proteobacteria, and Tenericutes. The results indicate that species richness is comparable between both treatment groups, however, significant differences were found in the compositions of the gut microbiota between the rearing groups. Furthermore, a core microbiota of 19 OTUs was identified, shared by all samples regardless of treatment group, mainly consisting of members of the phyla Proteobacteria, Bacteroidetes and Firmicutes. Core microbiotas of the individual rearing groups were determined (aquarium fish: 19 + 4 (total 23) OTUs, loch fish: 19 + 13 (total 32) OTUs), indicating that microbe acquisition or loss is occurring differently in the two habitats, but also that selective forces are acting within the host, offering niches to specific bacterial taxa. The new information gathered in this study by the Illumina MiSeq approach will be useful to understand and define the gut microbiota of healthy Atlantic salmon in freshwater and expand on previous studies using DGGE, TGGE and T-RFPL. Monitoring deviations from these profiles, especially the core microbes which are present regardless of habitat type, might be used in the future as early indicator for intestinal health issues caused by sub optimal feed or infectious diseases in the farm setting. Statement of relevance The Microbiome is central to gut health, local immune function and nutrient up take. We have used deep sequencing approach to show differences in rearing conditions of Atlantic salmon. This work is of interest to aquaculture nutritionists.
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              Metagenomic pyrosequencing and microbial identification.

              The Human Microbiome Project has ushered in a new era for human metagenomics and high-throughput next-generation sequencing strategies. This review describes evolving strategies in metagenomics, with a special emphasis on the core technology of DNA pyrosequencing. The challenges of microbial identification in the context of microbial populations are discussed. The development of next-generation pyrosequencing strategies and the technical hurdles confronting these methodologies are addressed. Bioinformatics-related topics include taxonomic systems, sequence databases, sequence-alignment tools, and classifiers. DNA sequencing based on 16S rRNA genes or entire genomes is summarized with respect to potential pyrosequencing applications. Both the approach of 16S rDNA amplicon sequencing and the whole-genome sequencing approach may be useful for human metagenomics, and numerous bioinformatics tools are being deployed to tackle such vast amounts of microbiological sequence diversity. Metagenomics, or genetic studies of microbial communities, may ultimately contribute to a more comprehensive understanding of human health, disease susceptibilities, and the pathophysiology of infectious and immune-mediated diseases.
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                Author and article information

                Contributors
                zhenhua.ma@hotmail.com
                Journal
                Vet Med Sci
                Vet Med Sci
                10.1002/(ISSN)2053-1095
                VMS3
                Veterinary Medicine and Science
                John Wiley and Sons Inc. (Hoboken )
                2053-1095
                19 April 2020
                August 2020
                : 6
                : 3 ( doiID: 10.1002/vms3.v6.3 )
                : 649-657
                Affiliations
                [ 1 ] Tropical Aquaculture Research and Development Center South China Sea Fisheries Research Institute Chinese Academy of Fishery Sciences Sanya China
                [ 2 ] Ocean College Hainan University Haikou P. R. China
                [ 3 ] Key Laboratory of South China Sea Fishery Resources Exploitation and Utilization Ministry of Agriculture Guangzhou P. R. China
                [ 4 ] College of Science and Engineering Flinders University Adelaide SA Australia
                Author notes
                [*] [* ] Correspondence

                Zhenhua Ma, Tropical Aquaculture Research and Development Center, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Sanya 572018, China.

                Email: zhenhua.ma@ 123456hotmail.com

                Author information
                https://orcid.org/0000-0002-3097-2025
                Article
                VMS3267
                10.1002/vms3.267
                7397917
                32307901
                86fc80ef-9d87-4cb7-9f88-258864bbe263
                © 2020 The Authors. Veterinary Medicine and Science Published by John Wiley & Sons Ltd

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 29 January 2019
                : 03 January 2020
                : 24 March 2020
                Page count
                Figures: 6, Tables: 1, Pages: 9, Words: 4883
                Funding
                Funded by: Guangxi Innovation Driven Development Special Fund Project
                Award ID: Guike AA18242031
                Funded by: Financial Project of Ministry of Agriculture of China
                Categories
                Original Article
                Original Articles
                Custom metadata
                2.0
                August 2020
                Converter:WILEY_ML3GV2_TO_JATSPMC version:5.8.6 mode:remove_FC converted:03.08.2020

                bath administration,fluoroquinolone antibiotic,gut microbiota,plectropomus leopardus

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