Literature DB >> 33441696

A pilot study of eDNA metabarcoding to estimate plant biodiversity by an alpine glacier core (Adamello glacier, North Italy).

Claudio Varotto1, Massimo Pindo1, Elena Bertoni2, Christian Casarotto3, Federica Camin1, Matteo Girardi1, Valter Maggi4, Antonella Cristofori5.   

Abstract

Current biodiversity loss is a major concern and thus biodiversity assessment of modern ecosystems is compelling and needs to be contextualized on a longer timescale. High Throughput Sequencing (HTS) is progressively becoming a major source of data on biodiversity time series. In this multi proxy study, we tested, for the first time, the potential of HTS to estimate plant biodiversity archived in the surface layers of a temperate alpine glacier, amplifying the trnL barcode for vascular plants from eDNA of firn samples. A 573 cm long core was drilled by the Adamello glacier and cut into sections; produced samples were analyzed for physical properties, stable isotope ratio, and plant biodiversity by eDNA metabarcoding and conventional light microscopy analysis. Results highlighted the presence of pollen and plant remains within the distinct layers of snow, firn and ice. While stable isotope ratio showed a scarcely informative pattern, DNA metabarcoding described distinct plant species composition among the different samples, with a broad taxonomic representation of the biodiversity of the catchment area and a high-ranking resolution. New knowledge on climate and plant biodiversity changes of large catchment areas can be obtained by this novel approach, relevant for future estimates of climate change effects.

Entities:  

Year:  2021        PMID: 33441696      PMCID: PMC7807053          DOI: 10.1038/s41598-020-79738-5

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


  31 in total

Review 1.  What is natural? The need for a long-term perspective in biodiversity conservation.

Authors:  K J Willis; H J B Birks
Journal:  Science       Date:  2006-11-24       Impact factor: 47.728

Review 2.  Environmental DNA Time Series in Ecology.

Authors:  Miklós Bálint; Markus Pfenninger; Hans-Peter Grossart; Pierre Taberlet; Mark Vellend; Mathew A Leibold; Göran Englund; Diana Bowler
Journal:  Trends Ecol Evol       Date:  2018-10-09       Impact factor: 17.712

3.  Pollen of Broussonetia papyrifera: An emerging aeroallergen associated with allergic illness in Taiwan.

Authors:  Pei-Chih Wu; Huey-Jen Su; Shih-Chun Candice Lung; Mu-Jean Chen; Wei-Ping Lin
Journal:  Sci Total Environ       Date:  2018-11-22       Impact factor: 7.963

4.  Rate of depurination of native deoxyribonucleic acid.

Authors:  T Lindahl; B Nyberg
Journal:  Biochemistry       Date:  1972-09-12       Impact factor: 3.162

5.  Ancient biomolecules from deep ice cores reveal a forested southern Greenland.

Authors:  Eske Willerslev; Enrico Cappellini; Wouter Boomsma; Rasmus Nielsen; Martin B Hebsgaard; Tina B Brand; Michael Hofreiter; Michael Bunce; Hendrik N Poinar; Dorthe Dahl-Jensen; Sigfus Johnsen; Jørgen Peder Steffensen; Ole Bennike; Jean-Luc Schwenninger; Roger Nathan; Simon Armitage; Cees-Jan de Hoog; Vasily Alfimov; Marcus Christl; Juerg Beer; Raimund Muscheler; Joel Barker; Martin Sharp; Kirsty E H Penkman; James Haile; Pierre Taberlet; M Thomas P Gilbert; Antonella Casoli; Elisa Campani; Matthew J Collins
Journal:  Science       Date:  2007-07-06       Impact factor: 47.728

6.  Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding.

Authors:  Pierre Taberlet; Eric Coissac; François Pompanon; Ludovic Gielly; Christian Miquel; Alice Valentini; Thierry Vermat; Gérard Corthier; Christian Brochmann; Eske Willerslev
Journal:  Nucleic Acids Res       Date:  2006-12-14       Impact factor: 16.971

Review 7.  Advances in DNA metabarcoding for food and wildlife forensic species identification.

Authors:  Martijn Staats; Alfred J Arulandhu; Barbara Gravendeel; Arne Holst-Jensen; Ingrid Scholtens; Tamara Peelen; Theo W Prins; Esther Kok
Journal:  Anal Bioanal Chem       Date:  2016-05-13       Impact factor: 4.142

8.  Plant DNA metabarcoding of lake sediments: How does it represent the contemporary vegetation.

Authors:  Inger Greve Alsos; Youri Lammers; Nigel Giles Yoccoz; Tina Jørgensen; Per Sjögren; Ludovic Gielly; Mary E Edwards
Journal:  PLoS One       Date:  2018-04-17       Impact factor: 3.240

9.  Estimating species richness using environmental DNA.

Authors:  Brett P Olds; Christopher L Jerde; Mark A Renshaw; Yiyuan Li; Nathan T Evans; Cameron R Turner; Kristy Deiner; Andrew R Mahon; Michael A Brueseke; Patrick D Shirey; Michael E Pfrender; David M Lodge; Gary A Lamberti
Journal:  Ecol Evol       Date:  2016-05-30       Impact factor: 2.912

10.  Experimental quantification of pollen with DNA metabarcoding using ITS1 and trnL.

Authors:  Sandra Baksay; André Pornon; Monique Burrus; Jérôme Mariette; Christophe Andalo; Nathalie Escaravage
Journal:  Sci Rep       Date:  2020-03-06       Impact factor: 4.379

View more
  3 in total

1.  A detailed workflow to develop QIIME2-formatted reference databases for taxonomic analysis of DNA metabarcoding data.

Authors:  Benjamin Dubois; Frédéric Debode; Louis Hautier; Julie Hulin; Gilles San Martin; Alain Delvaux; Eric Janssen; Dominique Mingeot
Journal:  BMC Genom Data       Date:  2022-07-08

Review 2.  A Critical Assessment of the Congruency between Environmental DNA and Palaeoecology for the Biodiversity Monitoring and Palaeoenvironmental Reconstruction.

Authors:  Shahnawaz Hassan; Zulaykha Khurshid; Bikram Singh Bali; Bashir Ah Ganai; R Z Sayyed; Peter Poczai; Muzafar Zaman
Journal:  Int J Environ Res Public Health       Date:  2022-08-01       Impact factor: 4.614

3.  Airborne environmental DNA metabarcoding detects more diversity, with less sampling effort, than a traditional plant community survey.

Authors:  Mark D Johnson; Mohamed Fokar; Robert D Cox; Matthew A Barnes
Journal:  BMC Ecol Evol       Date:  2021-12-06
  3 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.