Abundance estimation with DNA metabarcoding - recent advancements for terrestrial arthropods

被引:3
|
作者
Sickel, Wiebke [1 ]
Zizka, Vera [2 ]
Scherges, Alice [2 ]
Bourlat, Sarah J. [2 ]
Dieker, Petra [1 ,3 ]
机构
[1] Thunen Inst Biodivers, Bundesallee 65, D-38116 Braunschweig, Germany
[2] Museum Koenig Bonn, Leibniz Inst Anal Biodivers Change, Adenauerallee 127, D-53113 Bonn, Germany
[3] Natl Monitoring Ctr Biodivers, Alte Messe 6, D-04103 Leipzig, Germany
关键词
abundance; biodiversity monitoring; COI; insects; metabarcoding; spike-ins; POPULATION-SIZE; QUANTIFICATION; COMMUNITIES; EFFICIENT; DECLINES; PROTOCOL; TRENDS;
D O I
10.3897/mbmg.7.112290
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Biodiversity is declining at alarming rates worldwide and large-scale monitoring is urgently needed to understand changes and their drivers. While classical taxonomic identification of species is time and labour intensive, the combination with DNA -based meth - ods could upscale monitoring activities to achieve larger spatial coverage and increased sampling effort. However, challenges remain for DNA -based methods when the number of individuals per species and/or biomass estimates are required. Several methodolog - ical advancements exist to improve the potential of DNA metabarcoding for abundance analysis, which however need further evaluation. Here, we discuss laboratory, as well as some bioinformatic adjustments to DNA metabarcoding workflows regarding their po - tential to achieve species abundance estimation from arthropod community samples. Our review includes pre -laboratory processing methods such as specimen photogra - phy, laboratory methods such as the use of spike -in DNA as an internal standard and bioinformatic advancements like correction factors. We conclude that specimen pho - tography coupled with DNA metabarcoding currently promises the greatest potential to achieve estimates of the number of individuals per species and biomass estimates, but that approaches such as spike -ins and correction factors are promising methods to pursue further.
引用
收藏
页码:305 / 337
页数:33
相关论文
共 50 条
  • [1] Validation of COI metabarcoding primers for terrestrial arthropods
    Elbrecht, Vasco
    Braukrnann, Thomas W. A.
    Ivanova, Natalia, V
    Prosser, Sean W. J.
    Hajibabaei, Mehrdad
    Wright, Michael
    Zakharov, Evgeny, V
    Hebert, Paul D. N.
    Steinke, Dirk
    [J]. PEERJ, 2019, 7
  • [2] Environmental DNA metabarcoding of wild flowers reveals diverse communities of terrestrial arthropods
    Thomsen, Philip Francis
    Sigsgaard, Eva E.
    [J]. ECOLOGY AND EVOLUTION, 2019, 9 (04): : 1665 - 1679
  • [4] Estimating belowground plant abundance with DNA metabarcoding
    Matesanz, Silvia
    Pescador, David S.
    Pias, Beatriz
    Sanchez, Ana M.
    Chacon-Labella, Julia
    Illuminati, Angela
    de la Cruz, Marcelino
    Lopez-Angulo, Jesus
    Mari-Mena, Neus
    Vizcaino, Anton
    Escudero, Adrian
    [J]. MOLECULAR ECOLOGY RESOURCES, 2019, 19 (05) : 1265 - 1277
  • [5] Pitfalls in relative abundance estimation using eDNA metabarcoding
    Fonseca, Vera G.
    [J]. MOLECULAR ECOLOGY RESOURCES, 2018, 18 (05) : 923 - 926
  • [6] Composition, abundance and biodiversity of terrestrial arthropods in pastures and their relationship with landscaping plants
    Eo, Jinu
    Kim, Myung-Hyun
    Choi, Soon-Kun
    Bang, Hea-Son
    [J]. INTERNATIONAL JOURNAL OF AGRICULTURE AND NATURAL RESOURCES, 2023, 50 (01): : 12 - 22
  • [7] DNA Metabarcoding for the Characterization of Terrestrial Microbiota-Pitfalls and Solutions
    Francioli, Davide
    Lentendu, Guillaume
    Lewin, Simon
    Kolb, Steffen
    [J]. MICROORGANISMS, 2021, 9 (02) : 1 - 29
  • [8] Environmental DNA Metabarcoding: A Novel Contrivance for Documenting Terrestrial Biodiversity
    Hassan, Shahnawaz
    Sabreena
    Poczai, Peter
    Ganai, Bashir Ah
    Almalki, Waleed Hassan
    Gafur, Abdul
    Sayyed, R. Z.
    [J]. BIOLOGY-BASEL, 2022, 11 (09):
  • [9] DNA metabarcoding uncovers dispersal-constrained arthropods in a highly fragmented restoration setting
    Contos, Peter
    Gibb, Heloise
    Jellinek, Sacha
    Murphy, Nicholas P.
    [J]. RESTORATION ECOLOGY, 2024, 32 (03)
  • [10] Propylene glycol-based antifreeze is an effective preservative for DNA metabarcoding of benthic arthropods
    Robinson, Chloe V.
    Porter, Teresita M.
    Wright, Michael T. G.
    Hajibabaei, Mehrdad
    [J]. FRESHWATER SCIENCE, 2021, 40 (01) : 77 - 87