Inviting an author to review:
Find an author and click ‘Invite to review selected article’ near their name.
Search for authorsSearch for similar articles
2
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Migratory behaviour is positively associated with genetic diversity in butterflies

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Migration is typically associated with risk and uncertainty at the population level, but little is known about its cost–benefit trade‐offs at the species level. Migratory insects in particular often exhibit strong demographic fluctuations due to local bottlenecks and outbreaks. Here, we use genomic data to investigate levels of heterozygosity and long‐term population size dynamics in migratory insects, as an alternative to classical local and short‐term approaches such as regional field monitoring. We analyse whole‐genome sequences from 97 Lepidoptera species and show that individuals of migratory species have significantly higher levels of genome‐wide heterozygosity, a proxy for effective population size, than do nonmigratory species. Also, we contribute whole‐genome data for one of the most emblematic insect migratory species, the painted lady butterfly ( Vanessa cardui), sampled across its worldwide distributional range. This species exhibits one of the highest levels of genomic heterozygosity described in Lepidoptera (2.95 ± 0.15%). Coalescent modelling (PSMC) shows historical demographic stability in V. cardui, and high effective population size estimates of 2–20 million individuals 10,000 years ago. The study reveals that the high risks associated with migration and local environmental fluctuations do not seem to decrease overall genetic diversity and demographic stability in migratory Lepidoptera. We propose a “compensatory” demographic model for migratory r‐strategist organisms in which local bottlenecks are counterbalanced by reproductive success elsewhere within their typically large distributional ranges. Our findings highlight that the boundaries of populations are substantially different for sedentary and migratory insects, and that, in the latter, local and even regional field monitoring results may not reflect whole population dynamics. Genomic diversity patterns may elucidate key aspects of an insect's migratory nature and population dynamics at large spatiotemporal scales.

          Related collections

          Most cited references111

          • Record: found
          • Abstract: found
          • Article: found
          Is Open Access

          Fast and accurate short read alignment with Burrows–Wheeler transform

          Motivation: The enormous amount of short reads generated by the new DNA sequencing technologies call for the development of fast and accurate read alignment programs. A first generation of hash table-based methods has been developed, including MAQ, which is accurate, feature rich and fast enough to align short reads from a single individual. However, MAQ does not support gapped alignment for single-end reads, which makes it unsuitable for alignment of longer reads where indels may occur frequently. The speed of MAQ is also a concern when the alignment is scaled up to the resequencing of hundreds of individuals. Results: We implemented Burrows-Wheeler Alignment tool (BWA), a new read alignment package that is based on backward search with Burrows–Wheeler Transform (BWT), to efficiently align short sequencing reads against a large reference sequence such as the human genome, allowing mismatches and gaps. BWA supports both base space reads, e.g. from Illumina sequencing machines, and color space reads from AB SOLiD machines. Evaluations on both simulated and real data suggest that BWA is ∼10–20× faster than MAQ, while achieving similar accuracy. In addition, BWA outputs alignment in the new standard SAM (Sequence Alignment/Map) format. Variant calling and other downstream analyses after the alignment can be achieved with the open source SAMtools software package. Availability: http://maq.sourceforge.net Contact: rd@sanger.ac.uk
            Bookmark
            • Record: found
            • Abstract: found
            • Article: found
            Is Open Access

            BEDTools: a flexible suite of utilities for comparing genomic features

            Motivation: Testing for correlations between different sets of genomic features is a fundamental task in genomics research. However, searching for overlaps between features with existing web-based methods is complicated by the massive datasets that are routinely produced with current sequencing technologies. Fast and flexible tools are therefore required to ask complex questions of these data in an efficient manner. Results: This article introduces a new software suite for the comparison, manipulation and annotation of genomic features in Browser Extensible Data (BED) and General Feature Format (GFF) format. BEDTools also supports the comparison of sequence alignments in BAM format to both BED and GFF features. The tools are extremely efficient and allow the user to compare large datasets (e.g. next-generation sequencing data) with both public and custom genome annotation tracks. BEDTools can be combined with one another as well as with standard UNIX commands, thus facilitating routine genomics tasks as well as pipelines that can quickly answer intricate questions of large genomic datasets. Availability and implementation: BEDTools was written in C++. Source code and a comprehensive user manual are freely available at http://code.google.com/p/bedtools Contact: aaronquinlan@gmail.com; imh4y@virginia.edu Supplementary information: Supplementary data are available at Bioinformatics online.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.

              Genomics has revolutionized biological research, but quality assessment of the resulting assembled sequences is complicated and remains mostly limited to technical measures like N50.
                Bookmark

                Author and article information

                Contributors
                gerard.talavera@csic.es
                Journal
                Mol Ecol
                Mol Ecol
                10.1111/(ISSN)1365-294X
                MEC
                Molecular Ecology
                John Wiley and Sons Inc. (Hoboken )
                0962-1083
                1365-294X
                23 November 2022
                February 2023
                : 32
                : 3 ( doiID: 10.1111/mec.v32.3 )
                : 560-574
                Affiliations
                [ 1 ] Institut Botànic de Barcelona (IBB) CSIC‐Ajuntament de Barcelona Barcelona Catalonia Spain
                [ 2 ] Department of Ecology and Genetics, Program of Evolutionary Biology Uppsala University Uppsala Sweden
                [ 3 ] Institut de Biologia Evolutiva (CSIC‐Univ. Pompeu Fabra) Barcelona Spain
                [ 4 ] Novel Bacteria and Drug Discovery Research Group (NBDD) and Microbiome and Bioresource Research Strength (MBRS), Jeffrey Cheah School of Medicine and Health Sciences Monash University Malaysia Selangor Darul Ehsan Malaysia
                [ 5 ] Division of Genetics and Molecular Biology Institute of Biological Sciences, University of Malaya Kuala Lumpur Malaysia
                [ 6 ] Swedish Collegium for Advanced Study Uppsala Sweden
                [ 7 ] International Genome Centre Jiangsu University Zhenjiang China
                [ 8 ] Guangdong Provincial Key Laboratory of Marine Biology Institute of Marine Sciences, Shantou University Shantou China
                [ 9 ] Department of Organismic and Evolutionary Biology and Museum of Comparative Zoology Harvard University Cambridge Massachusetts USA
                Author notes
                [*] [* ] Correspondence

                Gerard Talavera, Institut Botànic de Barcelona (IBB), CSIC‐Ajuntament de Barcelona, Barcelona, Catalonia, Spain.

                Email: gerard.talavera@ 123456csic.es

                Author information
                https://orcid.org/0000-0002-2419-2516
                https://orcid.org/0000-0003-2653-6770
                https://orcid.org/0000-0002-2447-4388
                https://orcid.org/0000-0002-3489-9056
                https://orcid.org/0000-0002-1145-9226
                https://orcid.org/0000-0002-1883-1115
                https://orcid.org/0000-0003-3366-1625
                https://orcid.org/0000-0002-0961-8427
                https://orcid.org/0000-0003-1112-1345
                Article
                MEC16770 MEC-22-0602.R1
                10.1111/mec.16770
                10100375
                36336800
                4de174a5-9ee7-4118-946d-c8d6d813d21a
                © 2022 The Authors. Molecular Ecology published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by-nc/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.

                History
                : 30 September 2022
                : 17 March 2021
                : 02 November 2022
                Page count
                Figures: 3, Tables: 2, Pages: 15, Words: 11137
                Funding
                Funded by: Agencia Española de Investigación
                Award ID: PID2019‐107078GB‐I00
                Award ID: PID2020‐117739GA‐I00
                Funded by: Consejo Superior de Investigaciones Científicas , doi 10.13039/501100003339;
                Award ID: LINKA20399
                Funded by: Generalitat de Catalunya , doi 10.13039/501100002809;
                Award ID: 2017‐SGR‐991
                Funded by: Ministerio de Universidades
                Award ID: FPU19/01593
                Funded by: Museum of Comparative Zoology, Harvard University , doi 10.13039/100010952;
                Funded by: National Geographic Society , doi 10.13039/100006363;
                Award ID: WW1‐300R‐18
                Funded by: National Science Foundation (NSF ‐ USA) , doi 10.13039/501100008982;
                Award ID: DEB‐1541560
                Funded by: Svenska Forskningsrådet Formas , doi 10.13039/501100001862;
                Award ID: 2019‐00670
                Funded by: Universiti Malaya , doi 10.13039/501100004386;
                Award ID: H50001‐A‐000027
                Categories
                Original Article
                ORIGINAL ARTICLES
                Population and Conservation Genetics
                Custom metadata
                2.0
                February 2023
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.2.7 mode:remove_FC converted:13.04.2023

                Ecology
                demography,effective population size,genetic diversity,insect migration,migratory connectivity,outbreaks,population bottlenecks,psmc,vanessa cardui

                Comments

                Comment on this article