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Tytuł pozycji:

Assessing the efficacy of eDNA metabarcoding for measuring microbial biodiversity within forest ecosystems.

Tytuł :
Assessing the efficacy of eDNA metabarcoding for measuring microbial biodiversity within forest ecosystems.
Autorzy :
Ladin ZS; Department of Plant and Soil Sciences, University of Delaware, 264 Townsend Hall, Newark, DE, 19716, USA. .
Ferrell B; Department of Plant and Soil Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE, 19716, USA.
Dums JT; Biotechnology Program, North Carolina State University, Raleigh, NC, 27695, USA.
Moore RM; Department of Plant and Soil Sciences, Delaware Biotechnology Institute, University of Delaware, Newark, DE, 19716, USA.
Levia DF; Department of Entomology and Wildlife Ecology, University of Delaware, 250 Townsend Hall, Newark, DE, 19716, USA.
Shriver WG; Departments of Geography and Spatial Sciences and Plant and Soil Sciences, University of Delaware, 216C Pearson Hall, Newark, DE, 19716, USA.
D'Amico V; US Forest Service, Northern Research Station, Newark, DE, USA.
Trammell TLE; Department of Plant and Soil Sciences, University of Delaware, 264 Townsend Hall, Newark, DE, 19716, USA.
Setubal JC; Instituto de Química, University of Sao Paulo, São Paulo, SP, 05508-000, Brazil.
Wommack KE; Department of Plant and Soil Sciences, University of Delaware, 264 Townsend Hall, Newark, DE, 19716, USA.
Pokaż więcej
Źródło :
Scientific reports [Sci Rep] 2021 Jan 15; Vol. 11 (1), pp. 1629. Date of Electronic Publication: 2021 Jan 15.
Typ publikacji :
Journal Article
Język :
English
Imprint Name(s) :
Original Publication: London : Nature Publishing Group, copyright 2011-
References :
Proc Biol Sci. 2019 Nov 20;286(1915):20191409. (PMID: 31744434)
Sci Adv. 2016 Apr 22;2(4):e1501630. (PMID: 27152346)
Mol Ecol Resour. 2010 Nov;10(6):1009-18. (PMID: 21565110)
Ecol Lett. 2011 Jan;14(1):19-28. (PMID: 21070562)
Appl Environ Microbiol. 2010 Nov;76(21):7004-12. (PMID: 20817798)
Environ Microbiol. 2010 Nov;12(11):2885-93. (PMID: 20545741)
Ecol Evol. 2017 Dec 03;8(1):688-695. (PMID: 29321905)
Biol Lett. 2008 Aug 23;4(4):423-5. (PMID: 18400683)
Environ Microbiol. 2016 May;18(5):1403-14. (PMID: 26271760)
Environ Int. 2020 Jan;134:105230. (PMID: 31704569)
Mol Ecol. 2012 Apr;21(8):1794-805. (PMID: 22486820)
Proc Natl Acad Sci U S A. 2018 Nov 27;115(48):12229-12234. (PMID: 30420511)
Genes (Basel). 2019 Mar 01;10(3):. (PMID: 30832286)
Forensic Sci Int Genet. 2014 Nov;13:176-84. (PMID: 25151602)
Genomics Inform. 2019 Mar;17(1):e6. (PMID: 30929407)
Phys Rev Lett. 2012 Sep 14;109(11):118102. (PMID: 23005679)
PLoS One. 2013;8(2):e56802. (PMID: 23463502)
Science. 2016 Oct 14;354(6309):. (PMID: 27738143)
Mol Ecol Resour. 2017 Nov;17(6):e63-e75. (PMID: 28603873)
Environ Sci Technol. 2014;48(3):1819-27. (PMID: 24422450)
Nat Rev Genet. 2006 Jul;7(7):510-23. (PMID: 16778835)
Ecol Evol. 2017 Jun 12;7(14):5435-5453. (PMID: 28770080)
Front Microbiol. 2017 Nov 15;8:2224. (PMID: 29187837)
Bioinformatics. 2018 Sep 1;34(17):i884-i890. (PMID: 30423086)
Trends Ecol Evol. 2014 Jun;29(6):358-67. (PMID: 24821515)
Lett Appl Microbiol. 2002;34(3):162-7. (PMID: 11874535)
mBio. 2016 Mar 31;7(2):e01395. (PMID: 27034283)
Sci Rep. 2020 Feb 4;10(1):1765. (PMID: 32020033)
PLoS One. 2017 Jun 7;12(6):e0178124. (PMID: 28591215)
Biometrics. 2015 Dec;71(4):1042-9. (PMID: 26038228)
Bioinformatics. 2011 Nov 1;27(21):2957-63. (PMID: 21903629)
Microb Ecol. 2018 Jul;76(1):52-63. (PMID: 25796498)
Nat Rev Microbiol. 2012 Dec;10(12):828-40. (PMID: 23154261)
PeerJ. 2018 Apr 18;6:e4652. (PMID: 29682424)
Nature. 2017 Jul 27;547(7664):441-444. (PMID: 28723892)
Ann N Y Acad Sci. 1948 Oct 13;50(Art 4):221-46. (PMID: 18886382)
Environ Microbiol Rep. 2019 Apr;11(2):173-184. (PMID: 30507072)
Conserv Biol. 2017 Oct;31(5):1173-1182. (PMID: 28221696)
mSystems. 2015 Dec 22;1(1):. (PMID: 27822518)
PeerJ. 2016 Oct 18;4:e2584. (PMID: 27781170)
PLoS One. 2017 Sep 5;12(9):e0183347. (PMID: 28873426)
Mol Ecol Resour. 2020 May;20(3):. (PMID: 32107858)
PLoS Comput Biol. 2017 Feb 21;13(2):e1005404. (PMID: 28222096)
Glob Chang Biol. 2014 Feb;20(2):341-51. (PMID: 24399753)
ISME J. 2008 May;2(5):561-70. (PMID: 18273066)
Bioinformatics. 2015 Nov 1;31(21):3476-82. (PMID: 26139637)
Mol Ecol. 2017 Nov;26(21):5872-5895. (PMID: 28921802)
Sci Rep. 2020 Apr 21;10(1):6729. (PMID: 32317664)
Gigascience. 2019 Sep 1;8(9):. (PMID: 31544212)
Ecol Lett. 2010 May;13(5):627-42. (PMID: 20337695)
Curr Opin Insect Sci. 2020 Apr;38:26-33. (PMID: 32087411)
Philos Trans R Soc Lond B Biol Sci. 2020 May 11;375(1798):20190244. (PMID: 32200739)
PLoS One. 2019 Nov 20;14(11):e0225262. (PMID: 31747439)
PeerJ. 2018 Aug 8;6:e5364. (PMID: 30123705)
Front Microbiol. 2019 Oct 23;10:2407. (PMID: 31708888)
FEMS Microbiol Lett. 2020 Apr 1;367(7):. (PMID: 32189002)
Q Rev Biol. 2010 Jun;85(2):183-206. (PMID: 20565040)
mSystems. 2016 Mar 29;1(2):. (PMID: 27822520)
FEMS Microbiol Rev. 2017 Mar 1;41(2):109-130. (PMID: 27856492)
Pest Manag Sci. 2016 Oct;72(10):1854-61. (PMID: 26732613)
Trends Ecol Evol. 2006 Apr;21(4):178-85. (PMID: 16701083)
Mol Ecol Resour. 2017 Nov;17(6):1223-1230. (PMID: 28296353)
PLoS One. 2014 Apr 22;9(4):e95567. (PMID: 24755918)
New Phytol. 2017 Apr;214(1):11-18. (PMID: 27901268)
PeerJ. 2018 Jun 12;6:e5030. (PMID: 29910992)
Entry Date(s) :
Date Created: 20210116 Latest Revision: 20210122
Update Code :
20210210
PubMed Central ID :
PMC7811025
DOI :
10.1038/s41598-020-80602-9
PMID :
33452291
Czasopismo naukowe
We investigated the nascent application and efficacy of sampling and sequencing environmental DNA (eDNA) in terrestrial environments using rainwater that filters through the forest canopy and understory vegetation (i.e., throughfall). We demonstrate the utility and potential of this method for measuring microbial communities and forest biodiversity. We collected pure rainwater (open sky) and throughfall, successfully extracted DNA, and generated over 5000 unique amplicon sequence variants. We found that several taxa including Mycoplasma sp., Spirosoma sp., Roseomonas sp., and Lactococcus sp. were present only in throughfall samples. Spiroplasma sp., Methylobacterium sp., Massilia sp., Pantoea sp., and Sphingomonas sp. were found in both types of samples, but more abundantly in throughfall than in rainwater. Throughfall samples contained Gammaproteobacteria that have been previously found to be plant-associated, and may contribute to important functional roles. We illustrate how this novel method can be used for measuring microbial biodiversity in forest ecosystems, foreshadowing the utility for quantifying both prokaryotic and eukaryotic lifeforms. Leveraging these methods will enhance our ability to detect extant species, describe new species, and improve our overall understanding of ecological community dynamics in forest ecosystems.
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