17
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Probing planetary biodiversity with DNA barcodes: The Noctuoidea of North America

      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

          This study reports the assembly of a DNA barcode reference library for species in the lepidopteran superfamily Noctuoidea from Canada and the USA. Based on the analysis of 69,378 specimens, the library provides coverage for 97.3% of the noctuoid fauna (3565 of 3664 species). In addition to verifying the strong performance of DNA barcodes in the discrimination of these species, the results indicate close congruence between the number of species analyzed (3565) and the number of sequence clusters (3816) recognized by the Barcode Index Number (BIN) system. Distributional patterns across 12 North American ecoregions are examined for the 3251 species that have GPS data while BIN analysis is used to quantify overlap between the noctuoid faunas of North America and other zoogeographic regions. This analysis reveals that 90% of North American noctuoids are endemic and that just 7.5% and 1.8% of BINs are shared with the Neotropics and with the Palearctic, respectively. One third (29) of the latter species are recent introductions and, as expected, they possess low intraspecific divergences.

          Related collections

          Most cited references45

          • Record: found
          • Abstract: not found
          • Article: not found

          An inexpensive, automation-friendly protocol for recovering high-quality DNA

            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            DNA barcodes distinguish species of tropical Lepidoptera.

            Although central to much biological research, the identification of species is often difficult. The use of DNA barcodes, short DNA sequences from a standardized region of the genome, has recently been proposed as a tool to facilitate species identification and discovery. However, the effectiveness of DNA barcoding for identifying specimens in species-rich tropical biotas is unknown. Here we show that cytochrome c oxidase I DNA barcodes effectively discriminate among species in three Lepidoptera families from Area de Conservación Guanacaste in northwestern Costa Rica. We found that 97.9% of the 521 species recognized by prior taxonomic work possess distinctive cytochrome c oxidase I barcodes and that the few instances of interspecific sequence overlap involve very similar species. We also found two or more barcode clusters within each of 13 supposedly single species. Covariation between these clusters and morphological and/or ecological traits indicates overlooked species complexes. If these results are general, DNA barcoding will significantly aid species identification and discovery in tropical settings.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: not found

              Problems with mitochondrial DNA as a marker in population, phylogeographic and phylogenetic studies: the effects of inherited symbionts.

              Mitochondrial DNA (mtDNA) has been a marker of choice for reconstructing historical patterns of population demography, admixture, biogeography and speciation. However, it has recently been suggested that the pervasive nature of direct and indirect selection on this molecule renders any conclusion derived from it ambiguous. We review here the evidence for indirect selection on mtDNA in arthropods arising from linkage disequilibrium with maternally inherited symbionts. We note first that these symbionts are very common in arthropods and then review studies that reveal the extent to which they shape mtDNA evolution. mtDNA diversity patterns are compatible with neutral expectations for an uninfected population in only 2 of 19 cases. The remaining 17 studies revealed cases of symbiont-driven reduction in mtDNA diversity, symbiont-driven increases in diversity, symbiont-driven changes in mtDNA variation over space and symbiont-associated paraphyly of mtDNA. We therefore conclude that these elements often confound the inference of an organism's evolutionary history from mtDNA data and that mtDNA on its own is an unsuitable marker for the study of recent historical events in arthropods. We also discuss the impact of these studies on the current programme of taxonomy based on DNA bar-coding.
                Bookmark

                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                1 June 2017
                2017
                : 12
                : 6
                : e0178548
                Affiliations
                [1 ]Canadian Food Inspection Agency, Ottawa Plant Laboratory, Entomology Unit, Ottawa, Ontario, Canada
                [2 ]Centre for Biodiversity Genomics, Biodiversity Institute of Ontario, University of Guelph, Guelph, Ontario, Canada
                [3 ]Agriculture and Agri-Food Canada, Biodiversity Program, Canadian National Collection of Insects, Arachnids, and Nematodes, Ottawa, Ontario, Canada
                National Center for Biotechnology Information, UNITED STATES
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                • Conceptualization: RZ PDNH BCS JDL.

                • Data curation: RZ BCS JDL.

                • Formal analysis: RZ JRd.

                • Funding acquisition: PDNH.

                • Investigation: RZ JDL BCS JRd EVZ PDNH.

                • Methodology: RZ JDL PDNH.

                • Project administration: RZ PDNH.

                • Resources: RZ JDL BCS.

                • Software: RZ.

                • Supervision: PDNH.

                • Validation: JDL BCS RZ.

                • Visualization: RZ.

                • Writing – original draft: RZ.

                • Writing – review & editing: RZ JDL BCS JRd EVZ PDNH.

                Author information
                http://orcid.org/0000-0001-6274-6973
                Article
                PONE-D-16-50300
                10.1371/journal.pone.0178548
                5453547
                28570635
                c8a9ab7d-0740-446c-bad7-e5b2d9f01fb8
                © 2017 Zahiri et al

                This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 20 December 2016
                : 15 May 2017
                Page count
                Figures: 2, Tables: 5, Pages: 18
                Funding
                This research was supported by a Natural Sciences and Engineering Research Council of Canada (NSERC) Discovery grant to PDNH and by funding from the government of Canada through Genome Canada and Ontario Genomics in support of the International Barcode of Life project. This is a contribution from the Food For Though Research program supported by the Canada First Research Excellence Fund.
                Categories
                Research Article
                Biology and Life Sciences
                Ecology
                Ecosystems
                Forests
                Temperate Forests
                Ecology and Environmental Sciences
                Ecology
                Ecosystems
                Forests
                Temperate Forests
                Ecology and Environmental Sciences
                Terrestrial Environments
                Forests
                Temperate Forests
                Ecology and Environmental Sciences
                Terrestrial Environments
                Temperate Forests
                Biology and life sciences
                Molecular biology
                Molecular biology techniques
                DNA barcoding
                Research and analysis methods
                Molecular biology techniques
                DNA barcoding
                Biology and life sciences
                Evolutionary biology
                Evolutionary systematics
                Molecular systematics
                DNA barcoding
                Biology and life sciences
                Taxonomy
                Evolutionary systematics
                Molecular systematics
                DNA barcoding
                Computer and information sciences
                Data management
                Taxonomy
                Evolutionary systematics
                Molecular systematics
                DNA barcoding
                Biology and Life Sciences
                Ecology
                Ecosystems
                Forests
                Ecology and Environmental Sciences
                Ecology
                Ecosystems
                Forests
                Ecology and Environmental Sciences
                Terrestrial Environments
                Forests
                Biology and Life Sciences
                Evolutionary Biology
                Evolutionary Systematics
                Phylogenetics
                Phylogenetic Analysis
                Biology and Life Sciences
                Taxonomy
                Evolutionary Systematics
                Phylogenetics
                Phylogenetic Analysis
                Computer and Information Sciences
                Data Management
                Taxonomy
                Evolutionary Systematics
                Phylogenetics
                Phylogenetic Analysis
                Ecology and Environmental Sciences
                Species Colonization
                Invasive Species
                People and places
                Geographical locations
                North America
                Biology and Life Sciences
                Organisms
                Animals
                Invertebrates
                Arthropoda
                Insects
                Moths and Butterflies
                Research and analysis methods
                Database and informatics methods
                Bioinformatics
                Sequence analysis
                DNA sequence analysis
                Custom metadata
                Details on all barcoded specimens (e.g., voucher codes, higher taxonomy, repository institutions, voucher images, sequence length, collection dates, and collection data) are provided in S1 Dataset. Residual DNA extracts are stored in the DNA Archive at the Centre for Biodiversity Genomics. GenBank accession numbers for all new sequences are also available in S2 Dataset. Specimen data including images, details on the voucher repositories, GPS coordinates for collection sites, sequence records, trace files, and GenBank accession numbers are available in the Barcode of Life Data Systems (BOLD, www.boldsystems.org) in eight public datasets: DS-NAMNOC1 ( dx.doi.org/10.5883/DS-NAMNOC1), DS-NAMNOC2 ( dx.doi.org/10.5883/DS-NAMNOC2), DS-NAMNOC3 ( dx.doi.org/10.5883/DS-NAMNOC3), DS-NAMNOC4 ( dx.doi.org/10.5883/DS-NAMNOC4), DS-NAMNOC5 ( dx.doi.org/10.5883/DS-NAMNOC5), DS-NAMNOC6 ( dx.doi.org/10.5883/DS-NAMNOC6), DS-NAMNOC7 ( dx.doi.org/10.5883/DS-NAMNOC7) and DS-NAMNOC8 ( dx.doi.org/10.5883/DS-NAMNOC8).

                Uncategorized
                Uncategorized

                Comments

                Comment on this article