<i>May</i>gen. n. (Araneae: Sparassidae): A Unique Lineage from Southern Africa Supported by Morphological and Molecular Features

Jäger, Peter; Krehenwinkel, Henrik

doi:10.5733/afin.056.0209

Cited by 12 publications

(3 citation statements)

References 18 publications

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“…In contrast to nuclear rDNA, COI is more variable and can distinguish even recently diverged species. While 18SrDNA and 28SrDNA performed well in our analysis, they may be too conserved for many barcoding applications 25 , 49 . Our study was mostly based on quite divergent taxa, which are still differentiated using conserved markers like nuclear rDNA.…”

Section: Discussionmentioning

confidence: 84%

Estimating and mitigating amplification bias in qualitative and quantitative arthropod metabarcoding

Krehenwinkel

Wolf

Lim

et al. 2017

Sci Rep

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249

262

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Amplicon based metabarcoding promises rapid and cost-efficient analyses of species composition. However, it is disputed whether abundance estimates can be derived from metabarcoding due to taxon specific PCR amplification biases. PCR-free approaches have been suggested to mitigate this problem, but come with considerable increases in workload and cost. Here, we analyze multilocus datasets of diverse arthropod communities, to evaluate whether amplification bias can be countered by (1) targeting loci with highly degenerate primers or conserved priming sites, (2) increasing PCR template concentration, (3) reducing PCR cycle number or (4) avoiding locus specific amplification by directly sequencing genomic DNA. Amplification bias is reduced considerably by degenerate primers or targeting amplicons with conserved priming sites. Surprisingly, a reduction of PCR cycles did not have a strong effect on amplification bias. The association of taxon abundance and read count was actually less predictable with fewer cycles. Even a complete exclusion of locus specific amplification did not exclude bias. Copy number variation of the target loci may be another explanation for read abundance differences between taxa, which would affect amplicon based and PCR free methods alike. As read abundance biases are taxon specific and predictable, the application of correction factors allows abundance estimates.

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Section: Discussionmentioning

confidence: 84%

Estimating and mitigating amplification bias in qualitative and quantitative arthropod metabarcoding

Krehenwinkel

Wolf

Lim

et al. 2017

Sci Rep

Self Cite

249

262

View full text Add to dashboard Cite

show abstract

“…We found that the use of multiple amplicons considerably improved taxon recovery and enabled more accurate diversity estimates. In particular, nuclear 28S ribosomal DNA emerged as a useful addition to mitochondrial COI 18,35,36 . Similar results were found in an analysis of diverse Malaise trap content using multiple COI primers 15 .…”

Section: Discussionmentioning

confidence: 99%

Rapid and cost-effective generation of single specimen multilocus barcoding data from whole arthropod communities by multiple levels of multiplexing

Kerdrel

Andersen

Kennedy

et al. 2020

Sci Rep

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In light of the current biodiversity crisis, molecular barcoding has developed into an irreplaceable tool. Barcoding has been considerably simplified by developments in high throughput sequencing technology, but still can be prohibitively expensive and laborious when community samples of thousands of specimens need to be processed. Here, we outline an Illumina amplicon sequencing approach to generate multilocus data from large collections of arthropods. We reduce cost and effort up to 50-fold, by combining multiplex PCRs and DNA extractions from pools of presorted and morphotyped specimens and using two levels of sample indexing. We test our protocol by generating a comprehensive, community wide dataset of barcode sequences for several thousand Hawaiian arthropods from 14 orders, which were collected across the archipelago using various trapping methods. We explore patterns of diversity across the Archipelago and compare the utility of different arthropod trapping methods for biodiversity explorations on Hawaii, highlighting undergrowth beating as highly efficient method. Moreover, we show the effects of barcode marker, taxonomy and relative biomass of the targeted specimens and sequencing coverage on taxon recovery. Our protocol enables rapid and inexpensive explorations of diversity patterns and the generation of multilocus barcode reference libraries across whole ecosystems.

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“…Epigyne wider than long, epigynal field without distinct anterior bands. Lateral lobes rounded at their posterio-lateral margin, protruding distinctly over epigastric furrow at about half of their length, with pockets between lateral parts and epigastric furrow; fused along the median line with indistinct external ledges and internal “fusion bubbles” (Jäger and Krehenwinkel 2015). Internal duct system with first winding bulging laterally, spermathecae situated postero-laterally.…”

Section: Resultsmentioning

confidence: 99%

An unexpected new species of the genus Pseudopoda (Araneae, Sparassidae, Heteropodinae) from the Western Ghats in India

Jäger¹,

Kulkarni²

2016

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Maygen. n. (Araneae: Sparassidae): A Unique Lineage from Southern Africa Supported by Morphological and Molecular Features

Abstract: BioOne Complete (complete.BioOne.org) is a full-text database of 200 subscribed and open-access titles in the biological, ecological, and environmental sciences published by nonprofit societies, associations, museums, institutions, and presses.

Cited by 12 publications

References 18 publications

Estimating and mitigating amplification bias in qualitative and quantitative arthropod metabarcoding

Estimating and mitigating amplification bias in qualitative and quantitative arthropod metabarcoding

Rapid and cost-effective generation of single specimen multilocus barcoding data from whole arthropod communities by multiple levels of multiplexing

An unexpected new species of the genus Pseudopoda (Araneae, Sparassidae, Heteropodinae) from the Western Ghats in India

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