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      Behavioral and trophic segregations help the Tahiti petrel to cope with the abundance of wedge-tailed shearwater when foraging in oligotrophic tropical waters

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          Abstract

          Two species breeding in sympatry are more likely to coexist if their ecological niches are segregated either in time, space or in trophic habits. Here, we combined GPS-tracking, stable isotope analysis and DNA metabarcoding analysis to understand how the rare Tahiti petrel Pseudobulweria rostrata (TP) copes with the very abundant (i.e. 500,000 breeding pairs) wedge-tailed shearwater Ardenna pacifica (WTS) when breeding in sympatry in a tropical area. WTS foraged in restricted areas along their path, while TP predominantly foraged using extensive search behavior, suggesting a more opportunistic foraging strategy. Interspecific overlap of foraging areas was higher than intraspecific overlap. Breeding seasons largely overlap between species during the study, but TP seems to be asynchronous breeders. TP fed upon prey with higher δ 15N values than WTS, and their diet was mainly composed of deep-sea organisms. TP could feed upon dead prey floating at the surface while WTS preyed mainly upon fish species that generally move in schools. Our study highlights several segregating mechanisms (temporal, behavioral and trophic) that could facilitate the coexistence of the two species despite the predominant number of WTS, and provides the very first information on the foraging and trophic ecology of the poorly-known TP.

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          The ecology of individuals: incidence and implications of individual specialization.

          Most empirical and theoretical studies of resource use and population dynamics treat conspecific individuals as ecologically equivalent. This simplification is only justified if interindividual niche variation is rare, weak, or has a trivial effect on ecological processes. This article reviews the incidence, degree, causes, and implications of individual-level niche variation to challenge these simplifications. Evidence for individual specialization is available for 93 species distributed across a broad range of taxonomic groups. Although few studies have quantified the degree to which individuals are specialized relative to their population, between-individual variation can sometimes comprise the majority of the population's niche width. The degree of individual specialization varies widely among species and among populations, reflecting a diverse array of physiological, behavioral, and ecological mechanisms that can generate intrapopulation variation. Finally, individual specialization has potentially important ecological, evolutionary, and conservation implications. Theory suggests that niche variation facilitates frequency-dependent interactions that can profoundly affect the population's stability, the amount of intraspecific competition, fitness-function shapes, and the population's capacity to diversify and speciate rapidly. Our collection of case studies suggests that individual specialization is a widespread but underappreciated phenomenon that poses many important but unanswered questions.
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            obitools: a unix-inspired software package for DNA metabarcoding.

            DNA metabarcoding offers new perspectives in biodiversity research. This recently developed approach to ecosystem study relies heavily on the use of next-generation sequencing (NGS) and thus calls upon the ability to deal with huge sequence data sets. The obitools package satisfies this requirement thanks to a set of programs specifically designed for analysing NGS data in a DNA metabarcoding context. Their capacity to filter and edit sequences while taking into account taxonomic annotation helps to set up tailor-made analysis pipelines for a broad range of DNA metabarcoding applications, including biodiversity surveys or diet analyses. The obitools package is distributed as an open source software available on the following website: http://metabarcoding.org/obitools. A Galaxy wrapper is available on the GenOuest core facility toolshed: http://toolshed.genouest.org.
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              MiFish, a set of universal PCR primers for metabarcoding environmental DNA from fishes: detection of more than 230 subtropical marine species

              We developed a set of universal PCR primers (MiFish-U/E) for metabarcoding environmental DNA (eDNA) from fishes. Primers were designed using aligned whole mitochondrial genome (mitogenome) sequences from 880 species, supplemented by partial mitogenome sequences from 160 elasmobranchs (sharks and rays). The primers target a hypervariable region of the 12S rRNA gene (163–185 bp), which contains sufficient information to identify fishes to taxonomic family, genus and species except for some closely related congeners. To test versatility of the primers across a diverse range of fishes, we sampled eDNA from four tanks in the Okinawa Churaumi Aquarium with known species compositions, prepared dual-indexed libraries and performed paired-end sequencing of the region using high-throughput next-generation sequencing technologies. Out of the 180 marine fish species contained in the four tanks with reference sequences in a custom database, we detected 168 species (93.3%) distributed across 59 families and 123 genera. These fishes are not only taxonomically diverse, ranging from sharks and rays to higher teleosts, but are also greatly varied in their ecology, including both pelagic and benthic species living in shallow coastal to deep waters. We also sampled natural seawaters around coral reefs near the aquarium and detected 93 fish species using this approach. Of the 93 species, 64 were not detected in the four aquarium tanks, rendering the total number of species detected to 232 (from 70 families and 152 genera). The metabarcoding approach presented here is non-invasive, more efficient, more cost-effective and more sensitive than the traditional survey methods. It has the potential to serve as an alternative (or complementary) tool for biodiversity monitoring that revolutionizes natural resource management and ecological studies of fish communities on larger spatial and temporal scales.
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                Author and article information

                Contributors
                andreas.ravache@ird.fr
                Journal
                Sci Rep
                Sci Rep
                Scientific Reports
                Nature Publishing Group UK (London )
                2045-2322
                15 September 2020
                15 September 2020
                2020
                : 10
                : 15129
                Affiliations
                [1 ]GRID grid.452487.8, UMR ENTROPIE (IRD, Université de La Réunion, CNRS, Université de La Nouvelle-Calédonie, Ifremer), , Centre IRD Nouméa, ; BP A5, 98848 Nouméa, New Caledonia
                [2 ]GRID grid.452487.8, IMBE, Aix-Marseille Université, CNRS, IRD, , Avignon Université, Centre IRD Nouméa, ; BP A5, 98848 Nouméa Cedex, New Caledonia
                [3 ]Centres d’Etudes Biologiques de Chizé – CNRS, Villiers-en-Bois, France
                [4 ]GRID grid.9909.9, ISNI 0000 0004 1936 8403, School of Biology, , University of Leeds, ; Leeds, UK
                [5 ]GRID grid.463763.3, ISNI 0000 0004 0638 0577, IRD, Univ Brest, CNRS, Ifremer, , LEMAR, ; 29280 Plouzané, France
                [6 ]GRID grid.33997.37, ISNI 0000 0000 9500 7395, The Pacific Community (SPC), ; BP D5, 98848 Nouméa, New Caledonia
                [7 ]GRID grid.11698.37, ISNI 0000 0001 2169 7335, Littoral Environnement et Sociétés (LIENSs), UMR 7266, , CNRS - La Rochelle Université, ; 2 Rue Olympe de Gouges, 17000 La Rochelle, France
                [8 ]GRID grid.440891.0, ISNI 0000 0001 1931 4817, Institut Universitaire de France (IUF), ; 1 rue Descartes, 75005 Paris, France
                [9 ]GRID grid.1039.b, ISNI 0000 0004 0385 7472, Institute for Applied Ecology, , University of Canberra, ; Bruce, ACT Australia
                [10 ]GRID grid.9851.5, ISNI 0000 0001 2165 4204, Department of Ecology and Evolution, Biophore, , University of Lausanne, ; Lausanne, Switzerland
                [11 ]GRID grid.449988.0, ISNI 0000 0004 0647 1452, UMR ENTROPIE (IRD, Université de La Réunion, CNRS, Université de La Nouvelle-Calédonie, Ifremer), , Université de La Nouvelle-Calédonie, ; BP R4, 98851 Nouméa Cedex, New Caledonia
                Article
                72206
                10.1038/s41598-020-72206-0
                7492251
                32934324
                ce938480-a66e-42eb-9a22-d84376f6bdc6
                © The Author(s) 2020

                Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/.

                History
                : 14 April 2020
                : 25 August 2020
                Funding
                Funded by: European Union BEST 2.0 project “Biopelagos”
                Award ID: 1070–2015
                Funded by: Province Nord
                Award ID: 15C493
                Categories
                Article
                Custom metadata
                © The Author(s) 2020

                Uncategorized
                behavioural ecology,stable isotope analysis,conservation biology
                Uncategorized
                behavioural ecology, stable isotope analysis, conservation biology

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