Abstract
AbstractWith increased application of DNA metabarcoding in fast and high-resolution biodiversity assessment, various laboratory protocols have been optimised in recent years and their further evaluation is subject of current research. Homogenisation of bulk samples and subsequent DNA extraction from destructed tissue is one way of starting the metabarcoding process. This essential step in the protocol can either be conducted from wet sample material (e.g. bulk insect samples) soaked in fixative or from completely dried individuals. While the latter method appears to produce more consistent results, it is time consuming and more prone to cross-contamination. We tested both homogenisation approaches with regard to time efficiency and biodiversity assessment of complex arthropod bulk samples, in particular how the amount of processed tissue affects taxon recovery. Both approaches reveal similar taxa compositions and detect a similar total OTU diversity in a single extraction reaction. Increased amounts of tissue used in DNA extraction improved OTU diversity detection and recovered particularly specific low-biomass taxa, making this approach valuable for samples with high biomass and/or diversity. Due to less handling time and lower vulnerability for cross-contamination we recommend the processing of wet material when sample homogenisation is applied.
Publisher
Cold Spring Harbor Laboratory
Reference55 articles.
1. Andrews, S. , Krueger, F. , Segonds-Pichon, A. , Biggins, L. , Krueger, C. , Wingett, S. , 2012. FastQC. Babraham, UK.
2. Andújar, C. , Creedy, T.J. , Arribas, P. , López, H. , Salces-Castellano, A. , Pérez-Delgado, A. , Vogler, A.P. , Emerson, B.C. , 2020. Validated removal of nuclear pseudogenes and sequencing artefacts from mitochondrial metabarcode data. bioRxiv 2020.06.17.157347. https://doi.org/10.1101/2020.06.17.157347
3. Connecting high-throughput biodiversity inventories: Opportunities for a site-based genomic framework for global integration and synthesis;Mol. Ecol,2021
4. Effective mosquito and arbovirus surveillance using metabarcoding;Mol. Ecol. Resour,2018
5. Batovska, J. , Piper, A. , Valenzuela, 2021. Developing a Non-destructive Metabarcoding Protocol for Detection of Pest Insects in Bulk Trap Catches.
Cited by
5 articles.
订阅此论文施引文献
订阅此论文施引文献,注册后可以免费订阅5篇论文的施引文献,订阅后可以查看论文全部施引文献