Towards high–throughput analyses of fecal samples from wildlife
Towards high–throughput analyses of fecal samples from wildlife. High–throughput sequencing offers new possibilities in molecular ecology and conservation studies. However, its potential has not yet become fully exploited for noninvasive studies of free–ranging animals, such as those based on feces....
Published in: | Animal Biodiversity and Conservation |
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Museo de Ciencias Naturales (Barcelona)
2020
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Online Access: | http://hdl.handle.net/10261/217728 https://doi.org/10.32800/abc.2020.43.0271 |
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ftcsic:oai:digital.csic.es:10261/217728 2024-02-11T10:02:49+01:00 Towards high–throughput analyses of fecal samples from wildlife Sarabia, C. Salado, I. Cornellas, Anna Fernández-Gil, Alberto Vilà, Carles Leonard, Jennifer A. 2020 http://hdl.handle.net/10261/217728 https://doi.org/10.32800/abc.2020.43.0271 en eng Museo de Ciencias Naturales (Barcelona) Publisher's version https://doi.org/10.32800/abc.2020.43.0271 Sí Animal Biodiversity and Conservation, 43(2). 2020 http://hdl.handle.net/10261/217728 doi:10.32800/abc.2020.43.0271 open artículo http://purl.org/coar/resource_type/c_6501 2020 ftcsic https://doi.org/10.32800/abc.2020.43.0271 2024-01-16T10:56:52Z Towards high–throughput analyses of fecal samples from wildlife. High–throughput sequencing offers new possibilities in molecular ecology and conservation studies. However, its potential has not yet become fully exploited for noninvasive studies of free–ranging animals, such as those based on feces. High–throughput sequencing allows sequencing of short DNA fragments and could allow simultaneous genotyping of a very large number of samples and markers at a low cost. The application of high throughput genotyping to fecal samples from wildlife has been hindered by several labor–intensive steps. We evaluate alternative protocols which could allow higher throughput for two of these steps: sample collection and DNA extraction. Two different field sampling and seven different DNA extraction methods are tested here on grey wolf (Canis lupus) feces. There was high variation in genotyping success rates. The field sampling method based on surface swabbing performed much worse than the extraction from a fecal fragment. In addition, there is a lot of room for improvement in the DNA extraction step. Optimization of protocols can lead to very much more efficient, cheaper and higher throughput noninvasive monitoring. Selection of appropriate markers is still of paramount importance to increase genotyping success. Hacia análisis genéticos de alto rendimiento de muestras fecales de fauna silvestre. La secuenciación de alto rendimiento ofrece nuevas posibilidades en ecología molecular y biología de la conservación. Sin embargo, el potencial de esta técnica no ha sido totalmente explotado para estudios no invasivos, a partir de muestras fecales, de fauna en libertad. La secuenciación de alto rendimiento permite la secuenciación de fragmentos de ADN cortos y podría permitir el genotipado simultáneo de un gran número de muestras y marcadores a un bajo coste. La aplicación de estas técnicas a muestras fecales de fauna silvestre ha sido obstaculizada por la gran cantidad de trabajo requerido en varios pasos, desde la recolección de ... Article in Journal/Newspaper Canis lupus Digital.CSIC (Spanish National Research Council) Libertad ENVELOPE(-55.817,-55.817,-63.000,-63.000) Animal Biodiversity and Conservation 171 183 |
institution |
Open Polar |
collection |
Digital.CSIC (Spanish National Research Council) |
op_collection_id |
ftcsic |
language |
English |
description |
Towards high–throughput analyses of fecal samples from wildlife. High–throughput sequencing offers new possibilities in molecular ecology and conservation studies. However, its potential has not yet become fully exploited for noninvasive studies of free–ranging animals, such as those based on feces. High–throughput sequencing allows sequencing of short DNA fragments and could allow simultaneous genotyping of a very large number of samples and markers at a low cost. The application of high throughput genotyping to fecal samples from wildlife has been hindered by several labor–intensive steps. We evaluate alternative protocols which could allow higher throughput for two of these steps: sample collection and DNA extraction. Two different field sampling and seven different DNA extraction methods are tested here on grey wolf (Canis lupus) feces. There was high variation in genotyping success rates. The field sampling method based on surface swabbing performed much worse than the extraction from a fecal fragment. In addition, there is a lot of room for improvement in the DNA extraction step. Optimization of protocols can lead to very much more efficient, cheaper and higher throughput noninvasive monitoring. Selection of appropriate markers is still of paramount importance to increase genotyping success. Hacia análisis genéticos de alto rendimiento de muestras fecales de fauna silvestre. La secuenciación de alto rendimiento ofrece nuevas posibilidades en ecología molecular y biología de la conservación. Sin embargo, el potencial de esta técnica no ha sido totalmente explotado para estudios no invasivos, a partir de muestras fecales, de fauna en libertad. La secuenciación de alto rendimiento permite la secuenciación de fragmentos de ADN cortos y podría permitir el genotipado simultáneo de un gran número de muestras y marcadores a un bajo coste. La aplicación de estas técnicas a muestras fecales de fauna silvestre ha sido obstaculizada por la gran cantidad de trabajo requerido en varios pasos, desde la recolección de ... |
format |
Article in Journal/Newspaper |
author |
Sarabia, C. Salado, I. Cornellas, Anna Fernández-Gil, Alberto Vilà, Carles Leonard, Jennifer A. |
spellingShingle |
Sarabia, C. Salado, I. Cornellas, Anna Fernández-Gil, Alberto Vilà, Carles Leonard, Jennifer A. Towards high–throughput analyses of fecal samples from wildlife |
author_facet |
Sarabia, C. Salado, I. Cornellas, Anna Fernández-Gil, Alberto Vilà, Carles Leonard, Jennifer A. |
author_sort |
Sarabia, C. |
title |
Towards high–throughput analyses of fecal samples from wildlife |
title_short |
Towards high–throughput analyses of fecal samples from wildlife |
title_full |
Towards high–throughput analyses of fecal samples from wildlife |
title_fullStr |
Towards high–throughput analyses of fecal samples from wildlife |
title_full_unstemmed |
Towards high–throughput analyses of fecal samples from wildlife |
title_sort |
towards high–throughput analyses of fecal samples from wildlife |
publisher |
Museo de Ciencias Naturales (Barcelona) |
publishDate |
2020 |
url |
http://hdl.handle.net/10261/217728 https://doi.org/10.32800/abc.2020.43.0271 |
long_lat |
ENVELOPE(-55.817,-55.817,-63.000,-63.000) |
geographic |
Libertad |
geographic_facet |
Libertad |
genre |
Canis lupus |
genre_facet |
Canis lupus |
op_relation |
Publisher's version https://doi.org/10.32800/abc.2020.43.0271 Sí Animal Biodiversity and Conservation, 43(2). 2020 http://hdl.handle.net/10261/217728 doi:10.32800/abc.2020.43.0271 |
op_rights |
open |
op_doi |
https://doi.org/10.32800/abc.2020.43.0271 |
container_title |
Animal Biodiversity and Conservation |
container_start_page |
171 |
op_container_end_page |
183 |
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1790598891113021440 |