Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing

Abstract The study of ancient DNA is revolutionizing our understanding of paleo-ecology and the evolutionary history of species. Insects are essential components in many ecosystems and constitute the most diverse group of animals. Yet they are largely neglected in ancient DNA studies. We report the...

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Autores principales:	Aaron D. Smith, Marcin J. Kamiński, Kojun Kanda, Andrew D. Sweet, Julio L. Betancourt, Camille A. Holmgren, Elisabeth Hempel, Federica Alberti, Michael Hofreiter
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/c4678f15b9b74a5da3567b8308466546
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spelling	oai:doaj.org-article:c4678f15b9b74a5da3567b83084665462021-12-02T17:24:10ZRecovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing10.1038/s41598-021-91896-82045-2322https://doaj.org/article/c4678f15b9b74a5da3567b83084665462021-06-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-91896-8https://doaj.org/toc/2045-2322Abstract The study of ancient DNA is revolutionizing our understanding of paleo-ecology and the evolutionary history of species. Insects are essential components in many ecosystems and constitute the most diverse group of animals. Yet they are largely neglected in ancient DNA studies. We report the results of the first targeted investigation of insect ancient DNA to positively identify subfossil insects to species, which includes the recovery of endogenous content from samples as old as ~ 34,355 ybp. Potential inhibitors currently limiting widespread research on insect ancient DNA are discussed, including the lack of closely related genomic reference sequences (decreased mapping efficiency) and the need for more extensive collaborations with insect taxonomists. The advantages of insect-based studies are also highlighted, especially in the context of understanding past climate change. In this regard, insect remains from ancient packrat middens are a rich and largely uninvestigated resource for exploring paleo-ecology and species dynamics over time.Aaron D. SmithMarcin J. KamińskiKojun KandaAndrew D. SweetJulio L. BetancourtCamille A. HolmgrenElisabeth HempelFederica AlbertiMichael HofreiterNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-11 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Aaron D. Smith Marcin J. Kamiński Kojun Kanda Andrew D. Sweet Julio L. Betancourt Camille A. Holmgren Elisabeth Hempel Federica Alberti Michael Hofreiter Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
description	Abstract The study of ancient DNA is revolutionizing our understanding of paleo-ecology and the evolutionary history of species. Insects are essential components in many ecosystems and constitute the most diverse group of animals. Yet they are largely neglected in ancient DNA studies. We report the results of the first targeted investigation of insect ancient DNA to positively identify subfossil insects to species, which includes the recovery of endogenous content from samples as old as ~ 34,355 ybp. Potential inhibitors currently limiting widespread research on insect ancient DNA are discussed, including the lack of closely related genomic reference sequences (decreased mapping efficiency) and the need for more extensive collaborations with insect taxonomists. The advantages of insect-based studies are also highlighted, especially in the context of understanding past climate change. In this regard, insect remains from ancient packrat middens are a rich and largely uninvestigated resource for exploring paleo-ecology and species dynamics over time.
format	article
author	Aaron D. Smith Marcin J. Kamiński Kojun Kanda Andrew D. Sweet Julio L. Betancourt Camille A. Holmgren Elisabeth Hempel Federica Alberti Michael Hofreiter
author_facet	Aaron D. Smith Marcin J. Kamiński Kojun Kanda Andrew D. Sweet Julio L. Betancourt Camille A. Holmgren Elisabeth Hempel Federica Alberti Michael Hofreiter
author_sort	Aaron D. Smith
title	Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
title_short	Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
title_full	Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
title_fullStr	Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
title_full_unstemmed	Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing
title_sort	recovery and analysis of ancient beetle dna from subfossil packrat middens using high-throughput sequencing
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/c4678f15b9b74a5da3567b8308466546
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Recovery and analysis of ancient beetle DNA from subfossil packrat middens using high-throughput sequencing

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