Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies

Transcriptome-wide targeted genotyping is highly attractive for evolutionary and ecological studies but, until recently, accomplishing this goal presented a major technical barrier for the study of non-model organisms. Our group has recently developed a high-throughput targeted genotyping approach (...

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Autores principales: Zhu, Xuan, Wang, Jing, Lv, Jia, Liu, Pingping, Zhang, Lingling, Jiao, Wenqian, Ma, Cen, Bao, Zhenmin, Wang, Shi
Formato: Online Artículo Texto
Lenguaje:English
Publicado: SAGE Publications 2019
Materias:
Commentary
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6413421/
https://www.ncbi.nlm.nih.gov/pubmed/30886517
http://dx.doi.org/10.1177/1176934319836074
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author Zhu, Xuan
Wang, Jing
Lv, Jia
Liu, Pingping
Zhang, Lingling
Jiao, Wenqian
Ma, Cen
Bao, Zhenmin
Wang, Shi
author_facet Zhu, Xuan
Wang, Jing
Lv, Jia
Liu, Pingping
Zhang, Lingling
Jiao, Wenqian
Ma, Cen
Bao, Zhenmin
Wang, Shi
author_sort Zhu, Xuan
collection PubMed
description Transcriptome-wide targeted genotyping is highly attractive for evolutionary and ecological studies but, until recently, accomplishing this goal presented a major technical barrier for the study of non-model organisms. Our group has recently developed a high-throughput targeted genotyping approach (called HD-Marker) based on the high specificity and accuracy of oligo extension-ligation assays that facilitates the design of assays tailored to meet specific genotyping needs. HD-Marker allows for targeted genotyping of over 10 000 genes in a single tube, with strikingly high capture rate (98%-99%) and genotyping accuracy (97%-99%). With the remarkable advantages of cost-effectiveness and flexibility, we envision that HD-Marker has broad application potential in evolutionary and ecological studies.
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spelling pubmed-64134212019-03-18 Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies Zhu, Xuan Wang, Jing Lv, Jia Liu, Pingping Zhang, Lingling Jiao, Wenqian Ma, Cen Bao, Zhenmin Wang, Shi Evol Bioinform Online Commentary Transcriptome-wide targeted genotyping is highly attractive for evolutionary and ecological studies but, until recently, accomplishing this goal presented a major technical barrier for the study of non-model organisms. Our group has recently developed a high-throughput targeted genotyping approach (called HD-Marker) based on the high specificity and accuracy of oligo extension-ligation assays that facilitates the design of assays tailored to meet specific genotyping needs. HD-Marker allows for targeted genotyping of over 10 000 genes in a single tube, with strikingly high capture rate (98%-99%) and genotyping accuracy (97%-99%). With the remarkable advantages of cost-effectiveness and flexibility, we envision that HD-Marker has broad application potential in evolutionary and ecological studies. SAGE Publications 2019-03-11 /pmc/articles/PMC6413421/ /pubmed/30886517 http://dx.doi.org/10.1177/1176934319836074 Text en © The Author(s) 2019 http://creativecommons.org/licenses/by-nc/4.0/ This article is distributed under the terms of the Creative Commons Attribution-NonCommercial 4.0 License (http://www.creativecommons.org/licenses/by-nc/4.0/) which permits non-commercial use, reproduction and distribution of the work without further permission provided the original work is attributed as specified on the SAGE and Open Access pages (https://us.sagepub.com/en-us/nam/open-access-at-sage).
spellingShingle Commentary
Zhu, Xuan
Wang, Jing
Lv, Jia
Liu, Pingping
Zhang, Lingling
Jiao, Wenqian
Ma, Cen
Bao, Zhenmin
Wang, Shi
Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title_full Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title_fullStr Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title_full_unstemmed Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title_short Sequencing-Based Transcriptome-Wide Targeted Genotyping for Evolutionary and Ecological Studies
title_sort sequencing-based transcriptome-wide targeted genotyping for evolutionary and ecological studies
topic Commentary
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6413421/
https://www.ncbi.nlm.nih.gov/pubmed/30886517
http://dx.doi.org/10.1177/1176934319836074
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