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      Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis

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          Abstract

          Background

          The gutless marine worm Olavius algarvensis has a completely reduced digestive and excretory system, and lives in an obligate nutritional symbiosis with bacterial symbionts. While considerable knowledge has been gained of the symbionts, the host has remained largely unstudied. Here, we generated transcriptomes and proteomes of O. algarvensis to better understand how this annelid worm gains nutrition from its symbionts, how it adapted physiologically to a symbiotic lifestyle, and how its innate immune system recognizes and responds to its symbiotic microbiota.

          Results

          Key adaptations to the symbiosis include (i) the expression of gut-specific digestive enzymes despite the absence of a gut, most likely for the digestion of symbionts in the host's epidermal cells; (ii) a modified hemoglobin that may bind hydrogen sulfide produced by two of the worm’s symbionts; and (iii) the expression of a very abundant protein for oxygen storage, hemerythrin, that could provide oxygen to the symbionts and the host under anoxic conditions. Additionally, we identified a large repertoire of proteins involved in interactions between the worm's innate immune system and its symbiotic microbiota, such as peptidoglycan recognition proteins, lectins, fibrinogen-related proteins, Toll and scavenger receptors, and antimicrobial proteins.

          Conclusions

          We show how this worm, over the course of evolutionary time, has modified widely-used proteins and changed their expression patterns in adaptation to its symbiotic lifestyle and describe expressed components of the innate immune system in a marine oligochaete. Our results provide further support for the recent realization that animals have evolved within the context of their associations with microbes and that their adaptive responses to symbiotic microbiota have led to biological innovations.

          Electronic supplementary material

          The online version of this article (doi:10.1186/s12864-016-3293-y) contains supplementary material, which is available to authorized users.

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          Most cited references111

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          Recognition of microorganisms and activation of the immune response.

          The mammalian immune system has innate and adaptive components, which cooperate to protect the host against microbial infections. The innate immune system consists of functionally distinct 'modules' that evolved to provide different forms of protection against pathogens. It senses pathogens through pattern-recognition receptors, which trigger the activation of antimicrobial defences and stimulate the adaptive immune response. The adaptive immune system, in turn, activates innate effector mechanisms in an antigen-specific manner. The connections between the various immune components are not fully understood, but recent progress brings us closer to an integrated view of the immune system and its function in host defence.
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            Large-scale analysis of the yeast proteome by multidimensional protein identification technology.

            We describe a largely unbiased method for rapid and large-scale proteome analysis by multidimensional liquid chromatography, tandem mass spectrometry, and database searching by the SEQUEST algorithm, named multidimensional protein identification technology (MudPIT). MudPIT was applied to the proteome of the Saccharomyces cerevisiae strain BJ5460 grown to mid-log phase and yielded the largest proteome analysis to date. A total of 1,484 proteins were detected and identified. Categorization of these hits demonstrated the ability of this technology to detect and identify proteins rarely seen in proteome analysis, including low-abundance proteins like transcription factors and protein kinases. Furthermore, we identified 131 proteins with three or more predicted transmembrane domains, which allowed us to map the soluble domains of many of the integral membrane proteins. MudPIT is useful for proteome analysis and may be specifically applied to integral membrane proteins to obtain detailed biochemical information on this unwieldy class of proteins.
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              Symbiotic bacteria direct expression of an intestinal bactericidal lectin.

              The mammalian intestine harbors complex societies of beneficial bacteria that are maintained in the lumen with minimal penetration of mucosal surfaces. Microbial colonization of germ-free mice triggers epithelial expression of RegIIIgamma, a secreted C-type lectin. RegIIIgamma binds intestinal bacteria but lacks the complement recruitment domains present in other microbe-binding mammalian C-type lectins. We show that RegIIIgamma and its human counterpart, HIP/PAP, are directly antimicrobial proteins that bind their bacterial targets via interactions with peptidoglycan carbohydrate. We propose that these proteins represent an evolutionarily primitive form of lectin-mediated innate immunity, and that they reveal intestinal strategies for maintaining symbiotic host-microbial relationships.
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                Author and article information

                Contributors
                +49 (421) 2028-907 , jwippler@mpi-bremen.de
                +1 (403) 210-6617 , manuel.kleiner@ucalgary.ca
                c.lott@hydra-institute.com
                agruhl@mpi-bremen.de
                abrahampe@ornl.gov
                giannonerj@ornl.gov
                jcyoung@saul.com
                hettichrl@ornl.gov
                ndubilie@mpi-bremen.de
                Journal
                BMC Genomics
                BMC Genomics
                BMC Genomics
                BioMed Central (London )
                1471-2164
                21 November 2016
                21 November 2016
                2016
                : 17
                : 942
                Affiliations
                [1 ]Symbiosis Department, Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359 Bremen, Germany
                [2 ]Energy Bioengineering and Geomicrobiology Research Group, University of Calgary, Calgary, T2N 1N4 AB Canada
                [3 ]HYDRA Institute for Marine Sciences, Elba Field Station, Via del Forno 80, 57034 Campo nell’ Elba, (LI) Italy
                [4 ]Oak Ridge National Laboratory, Chemical Sciences Division, Oak Ridge, Tennessee, 1 Bethel Valley Rd, Oak Ridge, TN 37831 USA
                [5 ]Present Address: Saul Ewing LLP, 1500 Market Street, 37th Floor, Philadelphia, PA 19102-2186 USA
                [6 ]Symbiosis Department, Max Planck Institute for Marine Microbiology, Celsiusstr. 1, D-28359 Bremen, Germany
                Author information
                http://orcid.org/0000-0002-0452-5053
                Article
                3293
                10.1186/s12864-016-3293-y
                5117596
                27871231
                e6324045-ba31-4896-a3c1-11ccea3492c5
                © The Author(s). 2016

                Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License ( http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.

                History
                : 4 June 2016
                : 15 November 2016
                Funding
                Funded by: FundRef http://dx.doi.org/10.13039/501100004189, Max-Planck-Gesellschaft;
                Funded by: FundRef http://dx.doi.org/10.13039/100000936, Gordon and Betty Moore Foundation;
                Award ID: GBMF3811
                Award Recipient :
                Funded by: FundRef http://dx.doi.org/10.13039/501100004350, Studienstiftung des Deutschen Volkes;
                Funded by: FundRef http://dx.doi.org/10.13039/501100002790, Canadian Network for Research and Innovation in Machining Technology, Natural Sciences and Engineering Research Council of Canada;
                Funded by: FundRef http://dx.doi.org/10.13039/501100004189, Max-Planck-Gesellschaft;
                Funded by: FundRef http://dx.doi.org/10.13039/501100004189, Max-Planck-Gesellschaft;
                Categories
                Research Article
                Custom metadata
                © The Author(s) 2016

                Genetics
                rna-seq,annelida,oligochaeta,phallodrilinae,pgrp,frep,srcr,respiratory pigment,carbon monoxide,immunology,chemosynthetic symbiosis

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