Dr Camilo Chacon-Duque

Dr Juan Chacon-Duque

Postdoctoral Researcher, GCRF Colombia

Department: Earth Sciences
Division: ES Vertebrates and Anthropology Palaeobiology

Summary

I am an evolutionary geneticist who uses genetic data and statistical modelling to explore the demographic history and the evolution of different species. Previous work includes human Latin American populations. Currently, my research focuses on the characterization of spatial and temporal patterns of genetic diversity in mammals from Colombia (my home country). For this purpose, I apply ancient DNA (aDNA) and Next-generation sequencing (NGS) approaches to study specimens from museum collections, aiming to understand better the evolution and ecology of these species. As part of my role in the wider project (GROW Colombia, funded by GCRF), I am also involved in the training and mentoring of researchers in Colombia, mainly on the use of aDNA methods to study museum collections.

Qualifications

Degrees

PhD, University College London, London, 2013 - 2018

MSc, Universidad de Antioquia, Medellin, 2010 - 2013

BSc, Universidad de Antioquia, Medellin, 2004 - 2009

Employment history

Non-academic

Population Geneticist, Living DNA, R&D, United Kingdom, 2017 - 2018

Publications

Chacon-Duque J-C, Adhikari K, Fuentes-Guajardo M, Mendoza-Revilla J, Acuna-Alonzo V, Barquera R, Quinto-Sanchez M, Gomez-Valdes J, Everardo Martinez P, Villamil-Ramirez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Villena M, Vasquez R, Llop E, Sandoval JR, Salazar-Granara AA, Parolin M-L, Sandoval K, Penaloza-Espinosa RI, Rangel-Villalobos H, Winkler CA, Klitz W, Bravi C, Molina J, Corach D, Barrantes R, Gomes V, Resende C, Gusmao L, Amorim A, Xue Y, Dugoujon J-M, Moral P, Gonzalez-Jose R, Schuler-Faccini L, Salzano FM, Bortolini M-C, Canizales-Quinteros S, Poletti G, Gallo C, Bedoya G, Rothhammer F, Balding D, Hellenthal G, Ruiz-Linares A (2018) Latin Americans show wide-spread Converso ancestry and imprint of local Native ancestry on physical appearance. NATURE COMMUNICATIONS, 9 : doi: 10.1038/s41467-018-07748-z

Magnolia Useche Y, Ribeiro-Alves M, Restrepo B-N, Martha Salgado D, Fernando Narvaez C, Campo O, Avendano E, Martinez C, Chacon-Duque JC, Bedoya G (2018) Single-Nucleotide Polymorphisms in NOD1, RIPK2, MICB, PLCE1, TNF, and IKBKE Genes Associated with Symptomatic Dengue in Children from Colombia. VIRAL IMMUNOLOGY, 31 (9) : 613 - 623. doi: 10.1089/vim.2018.0028

Adhikari K, Chacón-Duque JC, Mendoza-Revilla J, Fuentes-Guajardo M, Ruiz-Linares A (2017) The Genetic Diversity of the Americas, In: null, null : 277 - 296.

Avendaño-Tamayo E, Campo O, Chacón-Duque JC, Ramírez R, Rojas W, Agudelo-Flórez P, Bedoya G, Restrepo BN (2017) Variants in the TNFA, IL6 and IFNG genes are associated with the dengue severity in a sample from Colombian population. Biomédica, 37 (4) : 486 - 486. doi: 10.7705/biomedica.v37i4.3305

Adhikari K, Mendoza-Revilla J, Chacón-Duque JC, Fuentes-Guajardo M, Ruiz-Linares A (2016) Admixture in Latin America. Current Opinion in Genetics & Development, 41 : 106 - 114. doi: 10.1016/j.gde.2016.09.003

Adhikari K, Fuentes-Guajardo M, Quinto-Sánchez M, Mendoza-Revilla J, Camilo Chacón-Duque J, Acuña-Alonzo V, Jaramillo C, Arias W, Lozano RB, Pérez GM, Gómez-Valdés J, Villamil-Ramírez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Gallo C, Poletti G, Schuler-Faccini L, Salzano FM, Bortolini MC, Canizales-Quinteros S, Cheeseman M, Rosique J, Bedoya G, Rothhammer F, Headon D, González-José R, Balding D, Ruiz-Linares A (2016) A genome-wide association scan implicates DCHS2, RUNX2, GLI3, PAX1 and EDAR in human facial variation. Nature Communications, 7 : 11616 - 11616. doi: 10.1038/ncomms11616

Adhikari K, Fontanil T, Cal S, Mendoza-Revilla J, Fuentes-Guajardo M, Chacón-Duque J-C, Al-Saadi F, Johansson JA, Quinto-Sanchez M, Acuña-Alonzo V, Jaramillo C, Arias W, Barquera Lozano R, Macín Pérez G, Gómez-Valdés J, Villamil-Ramírez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Gallo C, Poletti G, Schuler-Faccini L, Salzano FM, Bortolini M-C, Canizales-Quinteros S, Rothhammer F, Bedoya G, Gonzalez-José R, Headon D, López-Otín C, Tobin DJ, Balding D, Ruiz-Linares A (2016) A genome-wide association scan in admixed Latin Americans identifies loci influencing facial and scalp hair features. Nature Communications, 7 : 10815 - 10815. doi: 10.1038/ncomms10815

Chacón-Duque JC, Adhikari K, Avendaño E, Campo O, Ramirez R, Rojas W, Ruiz-Linares A, Restrepo BN, Bedoya G (2014) African genetic ancestry is associated with a protective effect on Dengue severity in colombian populations. Infection, Genetics and Evolution, 27 : 89 - 95. doi: 10.1016/j.meegid.2014.07.003

Introduction

Summary

I am an evolutionary geneticist who uses genetic data and statistical modelling to explore the demographic history and the evolution of different species. Previous work includes human Latin American populations. Currently, my research focuses on the characterization of spatial and temporal patterns of genetic diversity in mammals from Colombia (my home country). For this purpose, I apply ancient DNA (aDNA) and Next-generation sequencing (NGS) approaches to study specimens from museum collections, aiming to understand better the evolution and ecology of these species. As part of my role in the wider project (GROW Colombia, funded by GCRF), I am also involved in the training and mentoring of researchers in Colombia, mainly on the use of aDNA methods to study museum collections.

Qualifications

Degrees

PhD, University College London, London, 2013 - 2018

MSc, Universidad de Antioquia, Medellin, 2010 - 2013

BSc, Universidad de Antioquia, Medellin, 2004 - 2009

Employment history

Non-academic

Population Geneticist, Living DNA, R&D, United Kingdom, 2017 - 2018

Publications

Publications

Chacon-Duque J-C, Adhikari K, Fuentes-Guajardo M, Mendoza-Revilla J, Acuna-Alonzo V, Barquera R, Quinto-Sanchez M, Gomez-Valdes J, Everardo Martinez P, Villamil-Ramirez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Villena M, Vasquez R, Llop E, Sandoval JR, Salazar-Granara AA, Parolin M-L, Sandoval K, Penaloza-Espinosa RI, Rangel-Villalobos H, Winkler CA, Klitz W, Bravi C, Molina J, Corach D, Barrantes R, Gomes V, Resende C, Gusmao L, Amorim A, Xue Y, Dugoujon J-M, Moral P, Gonzalez-Jose R, Schuler-Faccini L, Salzano FM, Bortolini M-C, Canizales-Quinteros S, Poletti G, Gallo C, Bedoya G, Rothhammer F, Balding D, Hellenthal G, Ruiz-Linares A (2018) Latin Americans show wide-spread Converso ancestry and imprint of local Native ancestry on physical appearance. NATURE COMMUNICATIONS, 9 : doi: 10.1038/s41467-018-07748-z

Magnolia Useche Y, Ribeiro-Alves M, Restrepo B-N, Martha Salgado D, Fernando Narvaez C, Campo O, Avendano E, Martinez C, Chacon-Duque JC, Bedoya G (2018) Single-Nucleotide Polymorphisms in NOD1, RIPK2, MICB, PLCE1, TNF, and IKBKE Genes Associated with Symptomatic Dengue in Children from Colombia. VIRAL IMMUNOLOGY, 31 (9) : 613 - 623. doi: 10.1089/vim.2018.0028

Adhikari K, Chacón-Duque JC, Mendoza-Revilla J, Fuentes-Guajardo M, Ruiz-Linares A (2017) The Genetic Diversity of the Americas, In: null, null : 277 - 296.

Avendaño-Tamayo E, Campo O, Chacón-Duque JC, Ramírez R, Rojas W, Agudelo-Flórez P, Bedoya G, Restrepo BN (2017) Variants in the TNFA, IL6 and IFNG genes are associated with the dengue severity in a sample from Colombian population. Biomédica, 37 (4) : 486 - 486. doi: 10.7705/biomedica.v37i4.3305

Adhikari K, Mendoza-Revilla J, Chacón-Duque JC, Fuentes-Guajardo M, Ruiz-Linares A (2016) Admixture in Latin America. Current Opinion in Genetics & Development, 41 : 106 - 114. doi: 10.1016/j.gde.2016.09.003

Adhikari K, Fuentes-Guajardo M, Quinto-Sánchez M, Mendoza-Revilla J, Camilo Chacón-Duque J, Acuña-Alonzo V, Jaramillo C, Arias W, Lozano RB, Pérez GM, Gómez-Valdés J, Villamil-Ramírez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Gallo C, Poletti G, Schuler-Faccini L, Salzano FM, Bortolini MC, Canizales-Quinteros S, Cheeseman M, Rosique J, Bedoya G, Rothhammer F, Headon D, González-José R, Balding D, Ruiz-Linares A (2016) A genome-wide association scan implicates DCHS2, RUNX2, GLI3, PAX1 and EDAR in human facial variation. Nature Communications, 7 : 11616 - 11616. doi: 10.1038/ncomms11616

Adhikari K, Fontanil T, Cal S, Mendoza-Revilla J, Fuentes-Guajardo M, Chacón-Duque J-C, Al-Saadi F, Johansson JA, Quinto-Sanchez M, Acuña-Alonzo V, Jaramillo C, Arias W, Barquera Lozano R, Macín Pérez G, Gómez-Valdés J, Villamil-Ramírez H, Hunemeier T, Ramallo V, Silva de Cerqueira CC, Hurtado M, Villegas V, Granja V, Gallo C, Poletti G, Schuler-Faccini L, Salzano FM, Bortolini M-C, Canizales-Quinteros S, Rothhammer F, Bedoya G, Gonzalez-José R, Headon D, López-Otín C, Tobin DJ, Balding D, Ruiz-Linares A (2016) A genome-wide association scan in admixed Latin Americans identifies loci influencing facial and scalp hair features. Nature Communications, 7 : 10815 - 10815. doi: 10.1038/ncomms10815

Chacón-Duque JC, Adhikari K, Avendaño E, Campo O, Ramirez R, Rojas W, Ruiz-Linares A, Restrepo BN, Bedoya G (2014) African genetic ancestry is associated with a protective effect on Dengue severity in colombian populations. Infection, Genetics and Evolution, 27 : 89 - 95. doi: 10.1016/j.meegid.2014.07.003