| Title | Metabarcoding to monitor the crustacean zooplankton of a lake improves when using a reference DNA library from local samples |
| Abstract | Biodiversity surveys through morphology provide invaluable data to inform biological monitoring efforts, involving specialised taxonomic skills that are not always available. The revolution brought by the advent of metabarcoding associated to massive sequencing is currently seen as a potential advance, even if different approaches may often provide different results. Here we test if reliable results from metabarcoding can be obtained by i) basing the analyses on a detailed knowledge of the local diversity from morphology, ii) applying tools from DNA taxonomy to create a local reference library, ii) developing custom primers, taking as example the crustacean zooplankton of a subalpine lake in Northern Italy, Lake Maggiore. We support the idea that occurrences from metabarcoding can be reliable, especially with targeted primers, but we confirm that read numbers from massive sequencing could not be related to abundance of individuals in our analyses. Data from metabarcoding can thus be used to reliably monitor species occurrence in the lake, but not changes in abundance. |
| Source | Journal of limnology (Online) 82 (1) |
| Keywords | zooplanktonmetabarcoding |
| Journal | Journal of limnology (Online) |
| Editor | Istituto per lo Studio degli Ecosistemi, Pavia, Italia |
| Year | 2023 |
| Type | Articolo in rivista |
| DOI | 10.4081/jlimnol.2023.2087 |
| Authors | Giuseppe Garlaschè, Giulia Borgomaneiro, Roberta Piscia, Marina Manca, Ester M. Eckert, Diego Fontaneto |
| Text | 477630 2023 10.4081/jlimnol.2023.2087 zooplankton metabarcoding Metabarcoding to monitor the crustacean zooplankton of a lake improves when using a reference DNA library from local samples Giuseppe Garlasche, Giulia Borgomaneiro, Roberta Piscia, Marina Manca, Ester M. Eckert, Diego Fontaneto National Research Council, Water Research Institute CNR IRSA , Largo Tonolli 50, 28922 Verbania Pallanza, Italy Departement de Biologie Chimie et Geographie, Universite du Quebec a Rimouski, 300 Allee des Ursulines, Rimouski, QC G5L 3A1, Canada National Biodiversity Future Center NBFC , 90133 Palermo, Italy Biodiversity surveys through morphology provide invaluable data to inform biological monitoring efforts, involving specialised taxonomic skills that are not always available. The revolution brought by the advent of metabarcoding associated to massive sequencing is currently seen as a potential advance, even if different approaches may often provide different results. Here we test if reliable results from metabarcoding can be obtained by i basing the analyses on a detailed knowledge of the local diversity from morphology, ii applying tools from DNA taxonomy to create a local reference library, ii developing custom primers, taking as example the crustacean zooplankton of a subalpine lake in Northern Italy, Lake Maggiore. We support the idea that occurrences from metabarcoding can be reliable, especially with targeted primers, but we confirm that read numbers from massive sequencing could not be related to abundance of individuals in our analyses. Data from metabarcoding can thus be used to reliably monitor species occurrence in the lake, but not changes in abundance. 82 Published version https //www.jlimnol.it/index.php/jlimnol/article/view/2087 garla 2023_JLimnol_Garlasche et al.pdf Articolo in rivista Istituto per lo Studio degli Ecosistemi 1723 8633 Journal of limnology Online Journal of limnology Online J. limnol. Online Journal of limnology. Online marinamarcella.manca MANCA MARINA MARCELLA BORGOMANEIRO GIULIA roberta.piscia PISCIA ROBERTA diego.fontaneto FONTANETO DIEGO estermaria.eckert ECKERT ESTER MARIA DTA.AD002.698.001 CIPAIS I CH INDAGINI LIMNOLOGICHE 2022 2024 SAC.AD002.173.047 Progetti@CNR SOS Acque IRSA PRR.AP005.006.001 NBFC_SPOKE3_ ASSESSING AND MONITORING TERRESTRIAL AND FRESHWATER BIODIVERSITY AND ITS EVOLUTION FROM TAXONOMY TO GENOMICS AND CITIZEN SCIENCE_IRSA |
