Publications

Diego’s Google Scholar profile

Ortega-Del Vecchyo D+. Disentangling the impact of mating and competition on dispersal patterns. Peer Community in Evolutionary Biology. 2024. 100655. doi: 10.24072/pci.evolbiol.100655

Brandt DYC, Huber CD, Chiang CWK, Ortega-Del Vecchyo D. The Promise of Inferring the Past using the Ancestral Recombination Graph. Genome Biology and Evolution. 2024. doi: https://doi.org/10.1093/gbe/evae005

Fang LL, Peede D, Ortega-Del Vecchyo D, McTavish EJ*, Huerta-Sanchez E*. Leveraging shared ancestral variation to detect local introgression. PLoS Genetics. 2024. 20 (1): e1010155. doi: https://doi.org/10.1371/journal.pgen.1010155 . (*Contributed equally)

Izarraras-Gomez A, Ortega-Del Vecchyo D. Ancient DNA uncovers past migrations in California. Nature. 2023. doi: 10.1038/d41586-023-03503-7

Medina-Munoz SG, Ortega-Del Vecchyo D, Cruz-Hervert LP, Ferreyra-Reyes L, Garcia-Garcia L, Moreno-Estrada A*, Ragsdale A*. Demographic Modeling of Admixed Latin American Populations from Whole Genomes. American Journal of Human Genetics. 2023. 110(10):1804-1816. doi: 10.1016/j.ajhg.2023.08.015. (*Contributed equally)

Buck R, Ortega-Del Vecchyo D, Gehring C, Michelson R, Flores-Renteria D, Klein B, Whipple AV, Flores-Rentería L+. Sequential hybridization may have facilitated ecological transitions in the Southwestern pinyon pine syngameon. New Phytologist. 2023. 237 (6): 2435-2449. doi: 10.1111/nph.18543

Figueroa-Corona L, Moreno-Letelier A, Ortega-Del Vecchyo D, Peláez P, Gernandt DS, Eguiarte LE, Wegrzyn J, Piñero D. Changes in Demography and Geographic Distribution in the Weeping Pinyon Pine ( Pinus Pinceana ) during the Pleistocene. Ecology and Evolution. 2022; 12 (10).

Ortega-Del Vecchyo D, Lohmueller KE, Novembre J. Haplotype-based inference of the distribution of fitness effects. Genetics. 2022; 220(4).

Ortega-Del Vecchyo D, Berg J, Sohail M. Editorial: Genetic Architecture and Evolution of Complex Traits and Diseases in Diverse Human Populations. Frontiers in Genetics. 2022; 13, 869056.

Jiménez-Kaufmann A, Chong AY, Cortés A, Quinto-Cortés CD, Fernandez-Valverde SL, Ferreyra-Reyes L, Cruz-Hervert LP, Medina-Muñoz SG, Sohail M, Palma-Martinez MJ, Delgado-Sánchez G, Mongua-Rodríguez N, Mentzer AJ, Hill AVS, Moreno-Macías H, Huerta-Chagoya A, Aguilar-Salinas CA, Torres M, Kim HL, Kalsi N, Schuster SC, Tusié-Luna T, Ortega-Del Vecchyo D, García-García L*, Moreno-Estrada, A.*. Imputation Performance in Latin American Populations: Improving Rare Variants Representation With the Inclusion of Native American Genomes. Frontiers in Genetics. 2022; 12, 719791. (*Contributed equally)

Sohail M*, Izarraras-Gomez A*, & Ortega-Del Vecchyo D. Populations, Traits, and Their Spatial Structure in Humans. Genome Biology and Evolution. 2021; 13(12). (*Contributed equally)

Silva P, Galaverni M, Ortega-Del Vecchyo D, Fan Z, Caniglia R, Fabbri E, Randi E, Wayne R, Godinho R. Genomic evidence for the Old divergence of Southern European Wolf populations. Proceedings of the Royal Society B. 2020; 287:20201206.

Adrion JR*, Cole CB*, Dukler N*, Galloway JG*, Gladstein AL*, Gower G*, Kyriazis CC*, Ragsdale AP*, Tsambos G*, Baumdicker F, Carlson J, Cartwright RA, Durvasula A, Gronau I, Kim BY, McKenzie P, Messer PW, Noskova E, Ortega-Del Vecchyo D, Racimo F, Struck TJ, Gravel S*, Gutenkunst RN*, Lohmueller KE*, Ralph PL*, Schrider DR*, Siepel A*, Kelleher J*, Kern AD*. A community-maintained standard library of population genetic models. eLife. 2020; 9:e54967. (*Contributed equally)

Ortega-Del Vecchyo D, Slatkin M. Fst between archaic and present-day samples. Heredity. 2019; 122(6):711-728.

Ortega-Del Vecchyo D, Piñero D, Jardón-Barbolla L, van Heerwaarden J. Appropriate homoplasy metrics in linked SSRs to predict an underestimation of demographic expansion times. BMC Evolutionary Biology. 2017; 17:213.

vonHoldt, B, Fan Z, Ortega-Del Vecchyo D, Wayne R. EPAS1 variants in high altitude Tibetan wolves were selectively introgressed into highland dogs. PeerJ. 2017; 5:e3522.

Ortega-Del Vecchyo D, Marsden CD, Lohmueller K. PReFerSim: Fast simulation of demography and selection under the Poisson Random Field model. Bioinformatics. 2016; 32(22):3516-3518.

Robinson, JA, Ortega-Del Vecchyo D, Fan Z, Kim BY, vonHoldt BM, Marsden CD, Lohmueller KE*, Wayne RK*. Genomic flatlining in the endangered island fox. Current Biology. 2016; 26:1-7. (*Contributed equally)

Fan Z*, Silva PM*, Gronau I, Wang S, Armero AS, Schweizer RM, Ramirez O, Pollinger J, Galaverni M, Ortega-Del Vecchyo D, Du L, Zhang W, Zhang Z, Xing J, Vilà C, Marques-Bonet T, Godinho R, Yue B, Wayne RK. Worldwide patterns of genomic variation and admixture in gray wolves. Genome Research. 2016; 26:163-173. (*Contributed equally)

Freedman AH , Schweizer RM, Ortega-Del Vecchyo D, Han E, Davis BW, Gronau I, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Marques-Bonet T, Ostrander EA, Wayne RK, Novembre J. Demographically-based evaluation of genomic regions under selection in domestic dogs. PLoS genetics. 2016; 10(1):e1004016.

Marsden CD*, Ortega-Del Vecchyo D*, O’Brien D, Taylor JF, Ramirez O, Vilà C, Marques-Bonet T, Schnabel RD, Wayne RK, Lohmueller KE. Bottlenecks and selective sweeps during domestication have increased deleterious genetic variation in dogs. Proceedings of the National Academy of Sciences. 2016; 113(1):152-157. (*Contributed equally)

Sidore C*, Busonero F*, Maschio A*, Porcu E*, Naitza S*, Zoledziewska M, Mulas A, Pistis G, Steri M, Danjou F, Kwong A, Ortega Del Vecchyo VD, Chiang CWK, Bragg-Gresham J, Pitzalis M, Nagaraja R, Tarrier B, Brennan C, Uzzau S, Fuchsberger C, Atzeni R, Reinier F, Berutti R, Huang J, Timpson NJ, Toniolo D, Gasparini P, Malerba G, Dedoussis G, Zeggini E, Soranzo N, Jones C, Lyons R, Angius A, Kang HM, Novembre J, Sanna S*, Schlessinger D*, Cucca F*, Abecasis GR*. Genome sequencing elucidates Sardinian genetic architecture and augments association analyses for lipid and blood inflammatory markers. Nature Genetics. 2015; 47(11):1272-1281. (*Contributed equally)

Zoledziewska M*, Sidore C*, Chiang CWK*, Sanna S*, Steri M, Busonero F, Marcus JH, Marongiu M, Maschio A, Ortega-Del Vecchyo D, Floris M, Meloni A, Delitala A, Concas MP, Murgia F, Biino G, Vaccargiu S, Nagaraja R, Lohmueller KE, Zeggini E, Understanding T, Scientific S, Uzzau S, Jones C, Lyons R, Angius A, Abecasis GR*, Novembre J*, Schlessinger D*, Cucca F*. Height-reducing variants and selection for short stature in Sardinia. Nature Genetics. 2015; 47(11):1352-1356. (*Contributed equally)

Freedman AH, Gronau I, Schweizer RM, Ortega-Del Vecchyo D, Han E, Silva PM, Galaverni M, Fan Z, Marx P, Lorente-Galdos B, Beale H, Ramirez O, Hormozdiari F, Alkan C, Vilà C, Squire K, Geffen E, Kusak J, Boyko AR, Parker HG, Lee C, Tadigotla V, Wilton A, Siepel A, Bustamante CD, Harkins TT, Nelson SF, Ostrander EA, Marques-Bonet T, Wayne RK, Novembre J. Genome sequencing highlights the dynamic early history of dogs. PLoS genetics. 2014; 10(1):e1004016.

Flores-Rentería L, Wegier A, Ortega Del Vecchyo D, Ortíz-Medrano A, Piñero D, Whipple A V., Molina-Freaner F, Domínguez C a. Genetic, morphological, geographical and ecological approaches reveal phylogenetic relationships in complex groups, an example of recently diverged pinyon pine species (Subsection Cembroides). Molecular Phylogenetics and Evolution. 2013; 69(3):940-949.

Chi EC, Zhou H, Chen GK, Chi EC, Ortega Del Vecchyo D, Lange K. Genotype imputation via matrix completion Genotype Imputation via Matrix Completion. Genome Research. 2013; 23:509-518.

van Heerwaarden J, Ortega Del Vecchyo D, Alvarez-Buylla ER, Bellon MR. New genes in traditional seed systems: diffusion, detectability and persistence of transgenes in a maize metapopulation. PLoS one. 2012; 7(10):e46123.

Please send me an email if you would like a copy of any of our papers.

Dissertations

Liliana Chavaje Ávila “Methodology to perform demographic inferences using ancient and modern
DNA samples” Masters in Mathematical Engineering (2024)

Valeria Alejandra Añorve Garibay “Detecting Neanderthal and Denisovan introgressed genomic segments in present-day Mexico” Bachelor in Genomic Sciences (2023)

Héctor Alessandro López Hernández “Infiriendo el pasado mediante el análisis de datos genómicos modernos y antiguos en conjunción con datos espaciales para medir el impacto de la selección natural” Masters in Biological Sciences (2023)

Vicente Diego Ortega Del Vecchyo “Demography-aware inference of the strength of natural selection” PhD in Bioinformatics (2016)

Vicente Diego Ortega Del Vecchyo “Efecto y estimación de la homoplasia en el crecimiento poblacional”. Bachelor in Genomic Sciences (2009)