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From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)

Scientific collections such as the U.S. National Museum (USNM) are critical to filling knowledge gaps in molecular systematics studies. The global taxonomic impediment has resulted in a reduction of expert taxonomists generating new collections of rare or understudied taxa and these large historic c...

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Autores principales: Andrade Justi, Silvia, Soghigian, John, Pecor, David B., Caicedo-Quiroga, Laura, Rutvisuttinunt, Wiriya, Li, Tao, Stevens, Lori, Dorn, Patricia L., Wiegmann, Brian, Linton, Yvonne-Marie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Public Library of Science 2021
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7906454/
https://www.ncbi.nlm.nih.gov/pubmed/33630885
http://dx.doi.org/10.1371/journal.pone.0247068
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author Andrade Justi, Silvia
Soghigian, John
Pecor, David B.
Caicedo-Quiroga, Laura
Rutvisuttinunt, Wiriya
Li, Tao
Stevens, Lori
Dorn, Patricia L.
Wiegmann, Brian
Linton, Yvonne-Marie
author_facet Andrade Justi, Silvia
Soghigian, John
Pecor, David B.
Caicedo-Quiroga, Laura
Rutvisuttinunt, Wiriya
Li, Tao
Stevens, Lori
Dorn, Patricia L.
Wiegmann, Brian
Linton, Yvonne-Marie
author_sort Andrade Justi, Silvia
collection PubMed
description Scientific collections such as the U.S. National Museum (USNM) are critical to filling knowledge gaps in molecular systematics studies. The global taxonomic impediment has resulted in a reduction of expert taxonomists generating new collections of rare or understudied taxa and these large historic collections may be the only reliable source of material for some taxa. Integrated systematics studies using both morphological examinations and DNA sequencing are often required for resolving many taxonomic issues but as DNA methods often require partial or complete destruction of a sample, there are many factors to consider before implementing destructive sampling of specimens within scientific collections. We present a methodology for the use of archive specimens that includes two crucial phases: 1) thoroughly documenting specimens destined for destructive sampling—a process called electronic vouchering, and 2) the pipeline used for whole genome sequencing of archived specimens, from extraction of genomic DNA to assembly of putative genomes with basic annotation. The process is presented for eleven specimens from two different insect subfamilies of medical importance to humans: Anophelinae (Diptera: Culicidae)—mosquitoes and Triatominae (Hemiptera: Reduviidae)—kissing bugs. Assembly of whole mitochondrial genome sequences of all 11 specimens along with the results of an ortholog search and BLAST against the NCBI nucleotide database are also presented.
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spelling pubmed-79064542021-03-03 From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae) Andrade Justi, Silvia Soghigian, John Pecor, David B. Caicedo-Quiroga, Laura Rutvisuttinunt, Wiriya Li, Tao Stevens, Lori Dorn, Patricia L. Wiegmann, Brian Linton, Yvonne-Marie PLoS One Research Article Scientific collections such as the U.S. National Museum (USNM) are critical to filling knowledge gaps in molecular systematics studies. The global taxonomic impediment has resulted in a reduction of expert taxonomists generating new collections of rare or understudied taxa and these large historic collections may be the only reliable source of material for some taxa. Integrated systematics studies using both morphological examinations and DNA sequencing are often required for resolving many taxonomic issues but as DNA methods often require partial or complete destruction of a sample, there are many factors to consider before implementing destructive sampling of specimens within scientific collections. We present a methodology for the use of archive specimens that includes two crucial phases: 1) thoroughly documenting specimens destined for destructive sampling—a process called electronic vouchering, and 2) the pipeline used for whole genome sequencing of archived specimens, from extraction of genomic DNA to assembly of putative genomes with basic annotation. The process is presented for eleven specimens from two different insect subfamilies of medical importance to humans: Anophelinae (Diptera: Culicidae)—mosquitoes and Triatominae (Hemiptera: Reduviidae)—kissing bugs. Assembly of whole mitochondrial genome sequences of all 11 specimens along with the results of an ortholog search and BLAST against the NCBI nucleotide database are also presented. Public Library of Science 2021-02-25 /pmc/articles/PMC7906454/ /pubmed/33630885 http://dx.doi.org/10.1371/journal.pone.0247068 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication.
spellingShingle Research Article
Andrade Justi, Silvia
Soghigian, John
Pecor, David B.
Caicedo-Quiroga, Laura
Rutvisuttinunt, Wiriya
Li, Tao
Stevens, Lori
Dorn, Patricia L.
Wiegmann, Brian
Linton, Yvonne-Marie
From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title_full From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title_fullStr From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title_full_unstemmed From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title_short From e-voucher to genomic data: Preserving archive specimens as demonstrated with medically important mosquitoes (Diptera: Culicidae) and kissing bugs (Hemiptera: Reduviidae)
title_sort from e-voucher to genomic data: preserving archive specimens as demonstrated with medically important mosquitoes (diptera: culicidae) and kissing bugs (hemiptera: reduviidae)
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7906454/
https://www.ncbi.nlm.nih.gov/pubmed/33630885
http://dx.doi.org/10.1371/journal.pone.0247068
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