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      Origin, diversity, and biogeography of Antarctic scale worms (Polychaeta: Polynoidae): a wide‐scale barcoding approach

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          Abstract

          The Antarctic marine environment hosts diversified and highly endemic benthos owing to its unique geologic and climatic history. Current warming trends have increased the urgency of understanding Antarctic species history to predict how environmental changes will impact ecosystem functioning. Antarctic benthic lineages have traditionally been examined under three hypotheses: (1) high endemism and local radiation, (2) emergence of deep‐sea taxa through thermohaline circulation, and (3) species migrations across the Polar Front. In this study, we investigated which hypotheses best describe benthic invertebrate origins by examining Antarctic scale worms (Polynoidae). We amassed 691 polynoid sequences from the Southern Ocean and neighboring areas: the Kerguelen and Tierra del Fuego (South America) archipelagos, the Indian Ocean, and waters around New Zealand. We performed phylogenetic reconstructions to identify lineages across geographic regions, aided by mitochondrial markers cytochrome c oxidase subunit I (Cox1) and 16S ribosomal RNA (16S). Additionally, we produced haplotype networks at the species scale to examine genetic diversity, biogeographic separations, and past demography. The Cox1 dataset provided the most illuminating insights into the evolution of polynoids, with a total of 36 lineages identified. Eunoe sp. was present at Tierra del Fuego and Kerguelen, in favor of the latter acting as a migration crossroads. Harmothoe fuligineum, widespread around the Antarctic continent, was also present but isolated at Kerguelen, possibly resulting from historical freeze–thaw cycles. The genus Polyeunoa appears to have diversified prior to colonizing the continent, leading to the co‐occurrence of at least three cryptic species around the Southern and Indian Oceans. Analyses identified that nearly all populations are presently expanding following a bottleneck event, possibly caused by habitat reduction from the last glacial episodes. Findings support multiple origins for contemporary Antarctic polynoids, and some species investigated here provide information on ancestral scenarios of (re)colonization. First, it is apparent that species collected from the Antarctic continent are endemic, as the absence of closely related species in the Kerguelen and Tierra del Fuego datasets for most lineages argues in favor of Hypothesis 1 of local origin. Next, Eunoe sp. and H. fuligineum, however, support the possibility of Kerguelen and other sub‐Antarctic islands acting as a crossroads for larvae of some species, in support of Hypothesis 3. Finally, the genus Polyeunoa, conversely, is found at depths greater than 150 m and may have a deep origin, in line with Hypothesis 2. These “non endemic” groups, nevertheless, have a distribution that is either north or south of the Antarctic Polar Front, indicating that there is still a barrier to dispersal, even in the deep sea .

          Abstract

          We used scale worms as a representative group for Antarctic marine benthic animals to better understand their evolutionary history, and possibly predict how  they could respond to warming temperatures. Using genetic barcode data from over 600 scale worms, we were able to comprehend the history of this group during past warming and cooling geological periods. These events had profound effects on the genetic diversity of scale worms that are still detectable in present populations. For one, the geographic separation made by the Antarctic Circumpolar Current identified that northern animals are unlikely to colonize waters off of the Antarctic continent, raising concerns for the future of colder biological communities in times of warming.

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          Geneious Basic: An integrated and extendable desktop software platform for the organization and analysis of sequence data

          Summary: The two main functions of bioinformatics are the organization and analysis of biological data using computational resources. Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types. It integrates numerous industry-standard discovery analysis tools, with interactive visualizations to generate publication-ready images. One key contribution to researchers in the life sciences is the Geneious public application programming interface (API) that affords the ability to leverage the existing framework of the Geneious Basic software platform for virtually unlimited extension and customization. The result is an increase in the speed and quality of development of computation tools for the life sciences, due to the functionality and graphical user interface available to the developer through the public API. Geneious Basic represents an ideal platform for the bioinformatics community to leverage existing components and to integrate their own specific requirements for the discovery, analysis and visualization of biological data. Availability and implementation: Binaries and public API freely available for download at http://www.geneious.com/basic, implemented in Java and supported on Linux, Apple OSX and MS Windows. The software is also available from the Bio-Linux package repository at http://nebc.nerc.ac.uk/news/geneiousonbl. Contact: peter@biomatters.com
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            popart: full-feature software for haplotype network construction

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              Statistical method for testing the neutral mutation hypothesis by DNA polymorphism.

              F Tajima (1989)
              The relationship between the two estimates of genetic variation at the DNA level, namely the number of segregating sites and the average number of nucleotide differences estimated from pairwise comparison, is investigated. It is found that the correlation between these two estimates is large when the sample size is small, and decreases slowly as the sample size increases. Using the relationship obtained, a statistical method for testing the neutral mutation hypothesis is developed. This method needs only the data of DNA polymorphism, namely the genetic variation within population at the DNA level. A simple method of computer simulation, that was used in order to obtain the distribution of a new statistic developed, is also presented. Applying this statistical method to the five regions of DNA sequences in Drosophila melanogaster, it is found that large insertion/deletion (greater than 100 bp) is deleterious. It is suggested that the natural selection against large insertion/deletion is so weak that a large amount of variation is maintained in a population.
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                Author and article information

                Contributors
                hourdez@obs-banyuls.fr
                Journal
                Ecol Evol
                Ecol Evol
                10.1002/(ISSN)2045-7758
                ECE3
                Ecology and Evolution
                John Wiley and Sons Inc. (Hoboken )
                2045-7758
                17 July 2022
                July 2022
                : 12
                : 7 ( doiID: 10.1002/ece3.v12.7 )
                : e9093
                Affiliations
                [ 1 ] Department of Evolution, Ecology, and Behavior University of Illinois at Urbana – Champaign Urbana Illinois USA
                [ 2 ] Company for Open Ocean Observations and Logging (COOOL) La Réunion France
                [ 3 ] Department of Earth, Environmental and Life Science (DiSTAV) University of Genoa Genoa Italy
                [ 4 ] Italian National Antarctic Museum (MNA, Section of Genoa) University of Genoa Genoa Italy
                [ 5 ] CNRS UMR 7144 ‘Adaptation et Diversité en Milieux Marins’ (AD2M) Team ‘Dynamique de la Diversité Marine’ (DyDiv), Station Biologique de Roscoff Sorbonne Université Roscoff France
                [ 6 ] Laboratoire d'Ecogéochimie des Environnements Benthiques (LECOB), Observatoire Océanologique de Banyuls UMR 8222 CNRS‐Sorbonne Université Banyuls‐sur‐mer France
                Author notes
                [*] [* ] Correspondence

                CNRS UMR 7144 ‘Adaptation et Diversité en Milieux Marins’ (AD2M), Team ‘Dynamique de la Diversité Marine’ (DyDiv), Station Biologique de Roscoff, Sorbonne Université, 29688 Roscoff Cedex, France.

                Email: hourdez@ 123456obs-banyuls.fr

                Author information
                https://orcid.org/0000-0002-2581-0355
                https://orcid.org/0000-0001-6418-3887
                Article
                ECE39093 ECE-2021-08-01391.R2
                10.1002/ece3.9093
                9288932
                35866013
                f65f4cea-d252-4043-962b-bddc20953fc8
                © 2022 The Authors. Ecology and Evolution 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
                : 06 May 2022
                : 24 August 2021
                : 23 May 2022
                Page count
                Figures: 7, Tables: 2, Pages: 17, Words: 13169
                Funding
                Funded by: Census of Antarctic Marine Life (CAML)
                Funded by: Centre National de la Recherche Scientifique , doi 10.13039/501100004794;
                Funded by: Italian National Antarctic Research Program
                Funded by: University of Illinois at Urbana‐Champaign , doi 10.13039/100005302;
                Categories
                Biogeography
                Research Article
                Research Articles
                Custom metadata
                2.0
                July 2022
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.1.7 mode:remove_FC converted:17.07.2022

                Evolutionary Biology
                antarctic biogeography,benthic invertebrate,dna barcoding,gene flow,polynoid,southern ocean,species connectivity

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