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2b-RAD genotyping for population genomic studies of Chagas disease vectors: Rhodnius ecuadoriensis in Ecuador

Hernandez-Castro, Luis E ; Paterno, Marta ; Villacís, Anita G ; Andersson, Björn ; Costales, Jaime A ; De Noia, Michele ; Ocaña-Mayorga, Sofía ; Yumiseva, Cesar A ; Grijalva, Mario J ; Llewellyn, Martin S Ghedin, Elodie

PLoS neglected tropical diseases, 2017-07, Vol.11 (7), p.e0005710-e0005710 [Periódico revisado por pares]

United States: Public Library of Science

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Título:
2b-RAD genotyping for population genomic studies of Chagas disease vectors: Rhodnius ecuadoriensis in Ecuador
Autor: Hernandez-Castro, Luis E ; Paterno, Marta ; Villacís, Anita G ; Andersson, Björn ; Costales, Jaime A ; De Noia, Michele ; Ocaña-Mayorga, Sofía ; Yumiseva, Cesar A ; Grijalva, Mario J ; Llewellyn, Martin S
Ghedin, Elodie
Assuntos: Adults ; Animals ; Arthropoda ; Arthropods ; Bayesian analysis ; Biodiversity ; Biology and Life Sciences ; Care and treatment ; Chagas disease ; Clustering ; Coastal environments ; Cost-Benefit Analysis ; Deoxyribonucleic acid ; Disease ; Diseases ; DNA ; Ecuador ; Entomologists ; Enzymes ; Epidemiology ; Funding ; Genetics, Population ; Genomes ; Genomic analysis ; Genomics ; Genotype ; Genotyping ; Genotyping Techniques - economics ; Genotyping Techniques - methods ; High resolution ; Insect Vectors - classification ; Insect Vectors - genetics ; Laboratories ; Medicin och hälsovetenskap ; Medicine and Health Sciences ; Nuclear electric power generation ; Nucleotides ; People and places ; Performance evaluation ; Polymorphism ; Population genetics ; Population studies ; Probability theory ; Protocols ; Research and Analysis Methods ; Resolution ; Rhodnius - classification ; Rhodnius - genetics ; Sequencing ; Single nucleotide polymorphisms ; Single-nucleotide polymorphism ; Software ; Stacks ; Studies ; Submarine pipelines ; Trends ; Tropical diseases ; Trypanosomiasis ; Vector-borne diseases ; Vectors ; Vectors (Biology)
É parte de: PLoS neglected tropical diseases, 2017-07, Vol.11 (7), p.e0005710-e0005710
Notas: new_version
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MJG and MSL also contributed equally to this work.
The authors have declared that no competing interests exist.
Descrição: Rhodnius ecuadoriensis is the main triatomine vector of Chagas disease, American trypanosomiasis, in Southern Ecuador and Northern Peru. Genomic approaches and next generation sequencing technologies have become powerful tools for investigating population diversity and structure which is a key consideration for vector control. Here we assess the effectiveness of three different 2b restriction site-associated DNA (2b-RAD) genotyping strategies in R. ecuadoriensis to provide sufficient genomic resolution to tease apart microevolutionary processes and undertake some pilot population genomic analyses. The 2b-RAD protocol was carried out in-house at a non-specialized laboratory using 20 R. ecuadoriensis adults collected from the central coast and southern Andean region of Ecuador, from June 2006 to July 2013. 2b-RAD sequencing data was performed on an Illumina MiSeq instrument and analyzed with the STACKS de novo pipeline for loci assembly and Single Nucleotide Polymorphism (SNP) discovery. Preliminary population genomic analyses (global AMOVA and Bayesian clustering) were implemented. Our results showed that the 2b-RAD genotyping protocol is effective for R. ecuadoriensis and likely for other triatomine species. However, only BcgI and CspCI restriction enzymes provided a number of markers suitable for population genomic analysis at the read depth we generated. Our preliminary genomic analyses detected a signal of genetic structuring across the study area. Our findings suggest that 2b-RAD genotyping is both a cost effective and methodologically simple approach for generating high resolution genomic data for Chagas disease vectors with the power to distinguish between different vector populations at epidemiologically relevant scales. As such, 2b-RAD represents a powerful tool in the hands of medical entomologists with limited access to specialized molecular biological equipment.
Editor: United States: Public Library of Science
Idioma: Inglês

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2b-RAD genotyping for population genomic studies of Chagas disease vectors: Rhodnius ecuadoriensis in Ecuador

Hernandez-Castro, Luis E ; Paterno, Marta ; Villacís, Anita G ; Andersson, Björn ; Costales, Jaime A ; De Noia, Michele ; Ocaña-Mayorga, Sofía ; Yumiseva, Cesar A ; Grijalva, Mario J ; Llewellyn, Martin S Ghedin, Elodie

United States: Public Library of Science

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