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Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA
Specimens should be examined as much as possible to obtain a precise estimate of the proportion of resistance alleles in agricultural fields. Monitoring traps that use semiochemicals on sticky sheets are helpful in this regard. However, insects captured by such traps are ordinarily left in the field...
Autores principales: | , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Pesticide Science Society of Japan
2021
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9641237/ https://www.ncbi.nlm.nih.gov/pubmed/36380969 http://dx.doi.org/10.1584/jpestics.D20-064 |
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author | Sudo, Masaaki Yamamura, Kohji Sonoda, Shoji Yamanaka, Takehiko |
author_facet | Sudo, Masaaki Yamamura, Kohji Sonoda, Shoji Yamanaka, Takehiko |
author_sort | Sudo, Masaaki |
collection | PubMed |
description | Specimens should be examined as much as possible to obtain a precise estimate of the proportion of resistance alleles in agricultural fields. Monitoring traps that use semiochemicals on sticky sheets are helpful in this regard. However, insects captured by such traps are ordinarily left in the field until collection. Owing to DNA degradation, the amount of DNA greatly varies among insects, causing serious problems in obtaining maximum likelihood estimates and confidence intervals of the proportion of the resistance alleles. We propose a statistical procedure that can circumvent this degradation issue. R scripts for the calculation are provided for readers. We also propose the utilization of a Sanger sequencer. We demonstrate these procedures using field samples of diamide-resistant strains of the diamondback moth, Plutella xylostella (Lepidoptera: Plutellidae). The validity of the assumptions used in the statistical analysis is examined using the same data. |
format | Online Article Text |
id | pubmed-9641237 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2021 |
publisher | Pesticide Science Society of Japan |
record_format | MEDLINE/PubMed |
spelling | pubmed-96412372022-11-14 Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA Sudo, Masaaki Yamamura, Kohji Sonoda, Shoji Yamanaka, Takehiko J Pestic Sci Regular Article Specimens should be examined as much as possible to obtain a precise estimate of the proportion of resistance alleles in agricultural fields. Monitoring traps that use semiochemicals on sticky sheets are helpful in this regard. However, insects captured by such traps are ordinarily left in the field until collection. Owing to DNA degradation, the amount of DNA greatly varies among insects, causing serious problems in obtaining maximum likelihood estimates and confidence intervals of the proportion of the resistance alleles. We propose a statistical procedure that can circumvent this degradation issue. R scripts for the calculation are provided for readers. We also propose the utilization of a Sanger sequencer. We demonstrate these procedures using field samples of diamide-resistant strains of the diamondback moth, Plutella xylostella (Lepidoptera: Plutellidae). The validity of the assumptions used in the statistical analysis is examined using the same data. Pesticide Science Society of Japan 2021-05-20 /pmc/articles/PMC9641237/ /pubmed/36380969 http://dx.doi.org/10.1584/jpestics.D20-064 Text en © 2021 Pesticide Science Society of Japan https://creativecommons.org/licenses/by-nc-nd/4.0/This is an open access article distributed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) License. |
spellingShingle | Regular Article Sudo, Masaaki Yamamura, Kohji Sonoda, Shoji Yamanaka, Takehiko Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title | Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title_full | Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title_fullStr | Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title_full_unstemmed | Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title_short | Estimating the proportion of resistance alleles from bulk Sanger sequencing, circumventing the variability of individual DNA |
title_sort | estimating the proportion of resistance alleles from bulk sanger sequencing, circumventing the variability of individual dna |
topic | Regular Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9641237/ https://www.ncbi.nlm.nih.gov/pubmed/36380969 http://dx.doi.org/10.1584/jpestics.D20-064 |
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