The hemiptera (insecta) of Canada: constructing a reference library of DNA barcodes
DNA barcode reference libraries linked to voucher specimens create new opportunities for high-throughput identification and taxonomic re-evaluations. This study provides a DNA barcode library for about 45% of the recognized species of Canadian Hemiptera, and the publically available R workflow used...
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| Veröffentlicht in: | PloS one 2015-04, Vol.10 (4), p.e0125635-e0125635 |
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| creator | Gwiazdowski, Rodger A Foottit, Robert G Maw, H Eric L Hebert, Paul D N |
| description | DNA barcode reference libraries linked to voucher specimens create new opportunities for high-throughput identification and taxonomic re-evaluations. This study provides a DNA barcode library for about 45% of the recognized species of Canadian Hemiptera, and the publically available R workflow used for its generation. The current library is based on the analysis of 20,851 specimens including 1849 species belonging to 628 genera and 64 families. These individuals were assigned to 1867 Barcode Index Numbers (BINs), sequence clusters that often coincide with species recognized through prior taxonomy. Museum collections were a key source for identified specimens, but we also employed high-throughput collection methods that generated large numbers of unidentified specimens. Many of these specimens represented novel BINs that were subsequently identified by taxonomists, adding barcode coverage for additional species. Our analyses based on both approaches includes 94 species not listed in the most recent Canadian checklist, representing a potential 3% increase in the fauna. We discuss the development of our workflow in the context of prior DNA barcode library construction projects, emphasizing the importance of delineating a set of reference specimens to aid investigations in cases of nomenclatural and DNA barcode discordance. The identification for each specimen in the reference set can be annotated on the Barcode of Life Data System (BOLD), allowing experts to highlight questionable identifications; annotations can be added by any registered user of BOLD, and instructions for this are provided. |
| doi_str_mv | 10.1371/journal.pone.0125635 |
| format | Article |
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This study provides a DNA barcode library for about 45% of the recognized species of Canadian Hemiptera, and the publically available R workflow used for its generation. The current library is based on the analysis of 20,851 specimens including 1849 species belonging to 628 genera and 64 families. These individuals were assigned to 1867 Barcode Index Numbers (BINs), sequence clusters that often coincide with species recognized through prior taxonomy. Museum collections were a key source for identified specimens, but we also employed high-throughput collection methods that generated large numbers of unidentified specimens. Many of these specimens represented novel BINs that were subsequently identified by taxonomists, adding barcode coverage for additional species. Our analyses based on both approaches includes 94 species not listed in the most recent Canadian checklist, representing a potential 3% increase in the fauna. We discuss the development of our workflow in the context of prior DNA barcode library construction projects, emphasizing the importance of delineating a set of reference specimens to aid investigations in cases of nomenclatural and DNA barcode discordance. The identification for each specimen in the reference set can be annotated on the Barcode of Life Data System (BOLD), allowing experts to highlight questionable identifications; annotations can be added by any registered user of BOLD, and instructions for this are provided.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0125635</identifier><identifier>PMID: 25923328</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animals ; Annotations ; Bar codes ; Bins ; Canada ; Construction industry ; Data collection ; Deoxyribonucleic acid ; Diptera ; Discordance ; DNA ; DNA barcoding ; DNA Barcoding, Taxonomic ; Fauna ; Gene Library ; Gene sequencing ; Genera ; Genetic aspects ; Hemiptera ; Hemiptera - classification ; Hemiptera - genetics ; Hemipterans ; Heteroptera ; Hymenoptera ; Identification and classification ; Identification methods ; Insecta ; Nezara ; Project engineering ; Species ; Species Specificity ; Taxonomy ; Workflow</subject><ispartof>PloS one, 2015-04, Vol.10 (4), p.e0125635-e0125635</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Gwiazdowski et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2015 Gwiazdowski et al 2015 Gwiazdowski et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c758t-df0e662fa231421e97373115b5118ca5046bb90a0632a0905659c8c7dc5af2893</citedby><cites>FETCH-LOGICAL-c758t-df0e662fa231421e97373115b5118ca5046bb90a0632a0905659c8c7dc5af2893</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4414572/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4414572/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,860,881,2096,2915,23845,27901,27902,53766,53768,79342,79343</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/25923328$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Gwiazdowski, Rodger A</creatorcontrib><creatorcontrib>Foottit, Robert G</creatorcontrib><creatorcontrib>Maw, H Eric L</creatorcontrib><creatorcontrib>Hebert, Paul D N</creatorcontrib><title>The hemiptera (insecta) of Canada: constructing a reference library of DNA barcodes</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>DNA barcode reference libraries linked to voucher specimens create new opportunities for high-throughput identification and taxonomic re-evaluations. This study provides a DNA barcode library for about 45% of the recognized species of Canadian Hemiptera, and the publically available R workflow used for its generation. The current library is based on the analysis of 20,851 specimens including 1849 species belonging to 628 genera and 64 families. These individuals were assigned to 1867 Barcode Index Numbers (BINs), sequence clusters that often coincide with species recognized through prior taxonomy. Museum collections were a key source for identified specimens, but we also employed high-throughput collection methods that generated large numbers of unidentified specimens. Many of these specimens represented novel BINs that were subsequently identified by taxonomists, adding barcode coverage for additional species. Our analyses based on both approaches includes 94 species not listed in the most recent Canadian checklist, representing a potential 3% increase in the fauna. We discuss the development of our workflow in the context of prior DNA barcode library construction projects, emphasizing the importance of delineating a set of reference specimens to aid investigations in cases of nomenclatural and DNA barcode discordance. 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This study provides a DNA barcode library for about 45% of the recognized species of Canadian Hemiptera, and the publically available R workflow used for its generation. The current library is based on the analysis of 20,851 specimens including 1849 species belonging to 628 genera and 64 families. These individuals were assigned to 1867 Barcode Index Numbers (BINs), sequence clusters that often coincide with species recognized through prior taxonomy. Museum collections were a key source for identified specimens, but we also employed high-throughput collection methods that generated large numbers of unidentified specimens. Many of these specimens represented novel BINs that were subsequently identified by taxonomists, adding barcode coverage for additional species. Our analyses based on both approaches includes 94 species not listed in the most recent Canadian checklist, representing a potential 3% increase in the fauna. 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| issn | 1932-6203 1932-6203 |
| language | eng |
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| subjects | Animals Annotations Bar codes Bins Canada Construction industry Data collection Deoxyribonucleic acid Diptera Discordance DNA DNA barcoding DNA Barcoding, Taxonomic Fauna Gene Library Gene sequencing Genera Genetic aspects Hemiptera Hemiptera - classification Hemiptera - genetics Hemipterans Heteroptera Hymenoptera Identification and classification Identification methods Insecta Nezara Project engineering Species Species Specificity Taxonomy Workflow |
| title | The hemiptera (insecta) of Canada: constructing a reference library of DNA barcodes |
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