2018
DOI: 10.1186/s40851-018-0088-9
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DNA metabarcoding of spiders, insects, and springtails for exploring potential linkage between above- and below-ground food webs

Abstract: BackgroundUnderstanding feedback between above- and below-ground processes of biological communities is a key to the effective management of natural and agricultural ecosystems. However, as above- and below-ground food webs are often studied separately, our knowledge of material flow and community dynamics in terrestrial ecosystems remains limited.ResultsWe developed a high-throughput sequencing method for examining how spiders link above- and below-ground food webs as generalist predators. To overcome problem… Show more

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Cited by 56 publications
(60 citation statements)
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“…() reads were clustered at 95% identity to determine variants, a more conservative clustering method than the 98% used in our study. Different numbers of ITS2 variants have also been found in different species of spiders (Toju and Baba, ) where a 97% identity clustering method was used. In both of the previously mentioned studies, the clustering threshold appears to have been chosen arbitrarily.…”
Section: Discussionmentioning
confidence: 99%
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“…() reads were clustered at 95% identity to determine variants, a more conservative clustering method than the 98% used in our study. Different numbers of ITS2 variants have also been found in different species of spiders (Toju and Baba, ) where a 97% identity clustering method was used. In both of the previously mentioned studies, the clustering threshold appears to have been chosen arbitrarily.…”
Section: Discussionmentioning
confidence: 99%
“…In both of the previously mentioned studies, the clustering threshold appears to have been chosen arbitrarily. Toju and Baba () removed clusters with fewer than 10 reads based on the assumption that these may be potential PCR/sequencing errors; however, Batovska et al . () did not state whether they removed clusters with low numbers of reads.…”
Section: Discussionmentioning
confidence: 99%
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“…Because read abundance is a count of DNA barcodes belonging to each taxon, RRA counts ecological interactions in the same way regardless of interaction type. DNA meta‐barcoding is particularly relevant to trophic interactions and even difficult‐to‐describe interactions such as intra‐guild predation can feasibly be studied (Toju & Baba, ). Non‐trophic interactions require additional study to identify how they might be estimated with DNA barcoding.…”
Section: Inter‐layer Edges: Why When Howmentioning
confidence: 99%
“…Alternatively, interaction frequency has been used as a proxy for per capita interaction strength (Vázquez, Morris, & Jordano, 2005 difficult-to-describe interactions such as intra-guild predation can feasibly be studied (Toju & Baba, 2018…”
Section: Additional Considerations When Describing Quantifying Andmentioning
confidence: 99%