DNA barcodes enable higher taxonomic assignments in the Acari

Abstract Although mites (Acari) are abundant in many terrestrial and freshwater ecosystems, their diversity is poorly understood. Since most mite species can be distinguished by variation in the DNA barcode region of cytochrome c oxidase I, the Barcode Index Number (BIN) system provides a reliable s...

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Autores principales:	Monica R. Young, Jeremy R. deWaard, Paul D. N. Hebert
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/bb42d6e04b804789866cd82523e18b59
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spelling	oai:doaj.org-article:bb42d6e04b804789866cd82523e18b592021-12-02T17:06:31ZDNA barcodes enable higher taxonomic assignments in the Acari10.1038/s41598-021-95147-82045-2322https://doaj.org/article/bb42d6e04b804789866cd82523e18b592021-08-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-95147-8https://doaj.org/toc/2045-2322Abstract Although mites (Acari) are abundant in many terrestrial and freshwater ecosystems, their diversity is poorly understood. Since most mite species can be distinguished by variation in the DNA barcode region of cytochrome c oxidase I, the Barcode Index Number (BIN) system provides a reliable species proxy that facilitates large-scale surveys. Such analysis reveals many new BINs that can only be identified as Acari until they are examined by a taxonomic specialist. This study demonstrates that the Barcode of Life Datasystem’s identification engine (BOLD ID) generally delivers correct ordinal and family assignments from both full-length DNA barcodes and their truncated versions gathered in metabarcoding studies. This result was demonstrated by examining BOLD ID’s capacity to assign 7021 mite BINs to their correct order (4) and family (189). Identification success improved with sequence length and taxon coverage but varied among orders indicating the need for lineage-specific thresholds. A strict sequence similarity threshold (86.6%) prevented all ordinal misassignments and allowed the identification of 78.6% of the 7021 BINs. However, higher thresholds were required to eliminate family misassignments for Sarcoptiformes (89.9%), and Trombidiformes (91.4%), consequently reducing the proportion of BINs identified to 68.6%. Lineages with low barcode coverage in the reference library should be prioritized for barcode library expansion to improve assignment success.Monica R. YoungJeremy R. deWaardPaul D. N. HebertNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-13 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Monica R. Young Jeremy R. deWaard Paul D. N. Hebert DNA barcodes enable higher taxonomic assignments in the Acari
description	Abstract Although mites (Acari) are abundant in many terrestrial and freshwater ecosystems, their diversity is poorly understood. Since most mite species can be distinguished by variation in the DNA barcode region of cytochrome c oxidase I, the Barcode Index Number (BIN) system provides a reliable species proxy that facilitates large-scale surveys. Such analysis reveals many new BINs that can only be identified as Acari until they are examined by a taxonomic specialist. This study demonstrates that the Barcode of Life Datasystem’s identification engine (BOLD ID) generally delivers correct ordinal and family assignments from both full-length DNA barcodes and their truncated versions gathered in metabarcoding studies. This result was demonstrated by examining BOLD ID’s capacity to assign 7021 mite BINs to their correct order (4) and family (189). Identification success improved with sequence length and taxon coverage but varied among orders indicating the need for lineage-specific thresholds. A strict sequence similarity threshold (86.6%) prevented all ordinal misassignments and allowed the identification of 78.6% of the 7021 BINs. However, higher thresholds were required to eliminate family misassignments for Sarcoptiformes (89.9%), and Trombidiformes (91.4%), consequently reducing the proportion of BINs identified to 68.6%. Lineages with low barcode coverage in the reference library should be prioritized for barcode library expansion to improve assignment success.
format	article
author	Monica R. Young Jeremy R. deWaard Paul D. N. Hebert
author_facet	Monica R. Young Jeremy R. deWaard Paul D. N. Hebert
author_sort	Monica R. Young
title	DNA barcodes enable higher taxonomic assignments in the Acari
title_short	DNA barcodes enable higher taxonomic assignments in the Acari
title_full	DNA barcodes enable higher taxonomic assignments in the Acari
title_fullStr	DNA barcodes enable higher taxonomic assignments in the Acari
title_full_unstemmed	DNA barcodes enable higher taxonomic assignments in the Acari
title_sort	dna barcodes enable higher taxonomic assignments in the acari
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/bb42d6e04b804789866cd82523e18b59
work_keys_str_mv	AT monicaryoung dnabarcodesenablehighertaxonomicassignmentsintheacari AT jeremyrdewaard dnabarcodesenablehighertaxonomicassignmentsintheacari AT pauldnhebert dnabarcodesenablehighertaxonomicassignmentsintheacari
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DNA barcodes enable higher taxonomic assignments in the Acari

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