Literature DB >> 33767248

Successful extraction of insect DNA from recent copal inclusions: limits and perspectives.

Alessandra Modi1, Chiara Vergata2, Cristina Zilli3, Chiara Vischioni4, Stefania Vai2, Guidantonio Malagoli Tagliazucchi5, Martina Lari2, David Caramelli2, Cristian Taccioli6.   

Abstract

Insects entombed in copal, the sub-fossilized resin precursor of amber, represent a potential source of genetic data for extinct and extant, but endangered or elusive, species. Despite several studies demonstrated that it is not possible to recover endogenous DNA from insect inclusions, the preservation of biomolecules in fossilized resins samples is still under debate. In this study, we tested the possibility of obtaining endogenous ancient DNA (aDNA) molecules from insects preserved in copal, applying experimental protocols specifically designed for aDNA recovery. We were able to extract endogenous DNA molecules from one of the two samples analyzed, and to identify the taxonomic status of the specimen. Even if the sample was found well protected from external contaminants, the recovered DNA was low concentrated and extremely degraded, compared to the sample age. We conclude that it is possible to obtain genomic data from resin-entombed organisms, although we discourage aDNA analysis because of the destructive method of extraction protocols and the non-reproducibility of the results.

Entities:  

Year:  2021        PMID: 33767248     DOI: 10.1038/s41598-021-86058-9

Source DB:  PubMed          Journal:  Sci Rep        ISSN: 2045-2322            Impact factor:   4.379


  55 in total

1.  Complete mitochondrial genome sequence of a Middle Pleistocene cave bear reconstructed from ultrashort DNA fragments.

Authors:  Jesse Dabney; Michael Knapp; Isabelle Glocke; Marie-Theres Gansauge; Antje Weihmann; Birgit Nickel; Cristina Valdiosera; Nuria García; Svante Pääbo; Juan-Luis Arsuaga; Matthias Meyer
Journal:  Proc Natl Acad Sci U S A       Date:  2013-09-09       Impact factor: 11.205

2.  Neanderthal behaviour, diet, and disease inferred from ancient DNA in dental calculus.

Authors:  Laura S Weyrich; Sebastian Duchene; Julien Soubrier; Luis Arriola; Bastien Llamas; James Breen; Alan G Morris; Kurt W Alt; David Caramelli; Veit Dresely; Milly Farrell; Andrew G Farrer; Michael Francken; Neville Gully; Wolfgang Haak; Karen Hardy; Katerina Harvati; Petra Held; Edward C Holmes; John Kaidonis; Carles Lalueza-Fox; Marco de la Rasilla; Antonio Rosas; Patrick Semal; Arkadiusz Soltysiak; Grant Townsend; Donatella Usai; Joachim Wahl; Daniel H Huson; Keith Dobney; Alan Cooper
Journal:  Nature       Date:  2017-03-08       Impact factor: 49.962

3.  Coprolites reveal ecological interactions lost with the extinction of New Zealand birds.

Authors:  Alexander P Boast; Laura S Weyrich; Jamie R Wood; Jessica L Metcalf; Rob Knight; Alan Cooper
Journal:  Proc Natl Acad Sci U S A       Date:  2018-02-13       Impact factor: 11.205

4.  Comparison of extraction methods for recovering ancient microbial DNA from paleofeces.

Authors:  Richard W Hagan; Courtney A Hofman; Alexander Hübner; Karl Reinhard; Stephanie Schnorr; Cecil M Lewis; Krithivasan Sankaranarayanan; Christina G Warinner
Journal:  Am J Phys Anthropol       Date:  2019-11-30       Impact factor: 2.868

5.  Sequencing ancient calcified dental plaque shows changes in oral microbiota with dietary shifts of the Neolithic and Industrial revolutions.

Authors:  Christina J Adler; Keith Dobney; Laura S Weyrich; John Kaidonis; Alan W Walker; Wolfgang Haak; Corey J A Bradshaw; Grant Townsend; Arkadiusz Sołtysiak; Kurt W Alt; Julian Parkhill; Alan Cooper
Journal:  Nat Genet       Date:  2013-02-17       Impact factor: 38.330

6.  Neandertal and Denisovan DNA from Pleistocene sediments.

Authors:  Viviane Slon; Charlotte Hopfe; Clemens L Weiß; Fabrizio Mafessoni; Marco de la Rasilla; Carles Lalueza-Fox; Antonio Rosas; Marie Soressi; Monika V Knul; Rebecca Miller; John R Stewart; Anatoly P Derevianko; Zenobia Jacobs; Bo Li; Richard G Roberts; Michael V Shunkov; Henry de Lumley; Christian Perrenoud; Ivan Gušić; Željko Kućan; Pavao Rudan; Ayinuer Aximu-Petri; Elena Essel; Sarah Nagel; Birgit Nickel; Anna Schmidt; Kay Prüfer; Janet Kelso; Hernán A Burbano; Svante Pääbo; Matthias Meyer
Journal:  Science       Date:  2017-04-27       Impact factor: 47.728

7.  Pathogens and host immunity in the ancient human oral cavity.

Authors:  Christina Warinner; João F Matias Rodrigues; Rounak Vyas; Christian Trachsel; Natallia Shved; Jonas Grossmann; Anita Radini; Y Hancock; Raul Y Tito; Sarah Fiddyment; Camilla Speller; Jessica Hendy; Sophy Charlton; Hans Ulrich Luder; Domingo C Salazar-García; Elisabeth Eppler; Roger Seiler; Lars H Hansen; José Alfredo Samaniego Castruita; Simon Barkow-Oesterreicher; Kai Yik Teoh; Christian D Kelstrup; Jesper V Olsen; Paolo Nanni; Toshihisa Kawai; Eske Willerslev; Christian von Mering; Cecil M Lewis; Matthew J Collins; M Thomas P Gilbert; Frank Rühli; Enrico Cappellini
Journal:  Nat Genet       Date:  2014-02-23       Impact factor: 38.330

8.  DNA sequences from the quagga, an extinct member of the horse family.

Authors:  R Higuchi; B Bowman; M Freiberger; O A Ryder; A C Wilson
Journal:  Nature       Date:  1984 Nov 15-21       Impact factor: 49.962

9.  Comparing Ancient DNA Preservation in Petrous Bone and Tooth Cementum.

Authors:  Henrik B Hansen; Peter B Damgaard; Ashot Margaryan; Jesper Stenderup; Niels Lynnerup; Eske Willerslev; Morten E Allentoft
Journal:  PLoS One       Date:  2017-01-27       Impact factor: 3.240

10.  The York Gospels: a 1000-year biological palimpsest.

Authors:  Matthew D Teasdale; Sarah Fiddyment; Jiří Vnouček; Valeria Mattiangeli; Camilla Speller; Annelise Binois; Martin Carver; Catherine Dand; Timothy P Newfield; Christopher C Webb; Daniel G Bradley; Matthew J Collins
Journal:  R Soc Open Sci       Date:  2017-10-25       Impact factor: 2.963

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  1 in total

1.  Rapid and zero-cost DNA extraction from soft-bodied insects for routine PCR-based applications.

Authors:  Sumit Jangra; Amalendu Ghosh
Journal:  PLoS One       Date:  2022-07-15       Impact factor: 3.752

  1 in total

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