Scholars@Duke

• Recognition
• 

  In the News

  • OCT 17, 2022

    The Chronicle

    How Duke researchers are guiding the University's COVID-19 policies

  • AUG 17, 2022

    INDY WEEK

    Inside the Massive Genome Sequencing Operation Guiding Duke's COVID Response

  • OCT 18, 2020

    Forbes

    These ‘Silent’ Mutations May Give Covid-19 Coronavirus An Evolutionary Advantage

  • OCT 15, 2020

    Duke Today

    'SILENT' MUTATIONS GAVE THE CORONAVIRUS AN EVOLUTIONARY EDGE

  • MAR 27, 2018

    Research Blog Duke

    Researcher Turns Wood Into Larger-Than-Life Insects
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  Awards & Honors

  • Hargitt Fellowship. Department of Biology. 2016
• Research
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  Selected Grants

  • Embryonic Cell Recognition: Specificity Determinants awarded by National Institutes of Health 1980 - 2028
  • CORonavirus VAriant Sequencing (CORVASEQ) Surveillance Network awarded by University of North Carolina - Chapel Hill 2021 - 2023
  • The Duke FUNCTION Center: Pioneering the comprehensive identification of combinatorial noncoding causes of disease awarded by National Institutes of Health 2020 - 2023
• Publications & Artistic Works
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  Selected Publications

  • Academic Articles

    • Davidson, Phillip L., Haobing Guo, Jane S. Swart, Abdull J. Massri, Allison Edgar, Lingyu Wang, Alejandro Berrio, et al. “Recent reconfiguration of an ancient developmental gene regulatory network in Heliocidaris sea urchins.” Nature Ecology & Evolution 6, no. 12 (December 2022): 1907–20. https://doi.org/10.1038/s41559-022-01906-9.
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    • Massri, Abdull J., Geoffrey R. Schiebinger, Alejandro Berrio, Lingyu Wang, Gregory A. Wray, and David R. McClay. “Methodologies for Following EMT In Vivo at Single Cell Resolution.” Methods in Molecular Biology (Clifton, N.J.) 2179 (January 2021): 303–14. https://doi.org/10.1007/978-1-0716-0779-4_23.
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    • Davidson, Phillip L., Haobing Guo, Lingyu Wang, Alejandro Berrio, He Zhang, Yue Chang, Andrew L. Soborowski, David R. McClay, Guangyi Fan, and Gregory A. Wray. “Chromosomal-Level Genome Assembly of the Sea Urchin Lytechinus variegatus Substantially Improves Functional Genomic Analyses.” Genome Biology and Evolution 12, no. 7 (July 2020): 1080–86. https://doi.org/10.1093/gbe/evaa101.
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    • Berrio, Alejandro, Ralph Haygood, and Gregory A. Wray. “Identifying branch-specific positive selection throughout the regulatory genome using an appropriate proxy neutral.” Bmc Genomics 21, no. 1 (May 2020): 359. https://doi.org/10.1186/s12864-020-6752-4.
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    • Berrio, Alejandro, Valerie Gartner, and Gregory A. Wray. “Positive selection within the genomes of SARS-CoV-2 and other Coronaviruses independent of impact on protein function.” Peerj 8 (January 2020): e10234. https://doi.org/10.7717/peerj.10234.
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    • Berrio, Alejandro, Valerie Gartner, and Gregory Wray. “Positive selection within the genomes of SARS-CoV-2 and other Coronaviruses independent of impact on protein function,” 2020. https://doi.org/10.1101/2020.09.16.300038.
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    • Massri, Abdull, Laura Greenstreet, Anton Afanassiev, Alejandro Berrio Escobar, Gregory Wray, Geoffrey Schiebinger, and David McClay. “Developmental Single-cell transcriptomics in theLytechinus variegatusSea Urchin Embryo,” 2020. https://doi.org/10.1101/2020.11.12.380675.
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    • Tripp, Joel, Alejandro Berrio, Lisa McGraw, Mikhail Matz, Jamie Davis, Kiyoshi Inoue, James Thomas, Larry Young, and Steven Phelps. “Comparative neurotranscriptomics reveal widespread species differences associated with bonding,” 2020. https://doi.org/10.1101/2020.12.07.415463.
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    • Edsall, Lee E., Alejandro Berrio, William H. Majoros, Devjanee Swain-Lenz, Shauna Morrow, Yoichiro Shibata, Alexias Safi, Gregory A. Wray, Gregory E. Crawford, and Andrew S. Allen. “Evaluating Chromatin Accessibility Differences Across Multiple Primate Species Using a Joint Modeling Approach.” Genome Biol Evol 11, no. 10 (October 1, 2019): 3035–53. https://doi.org/10.1093/gbe/evz218.
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    • Swain-Lenz, Devjanee, Alejandro Berrio, Alexias Safi, Gregory E. Crawford, and Gregory A. Wray. “Comparative Analyses of Chromatin Landscape in White Adipose Tissue Suggest Humans May Have Less Beigeing Potential than Other Primates.” Genome Biol Evol 11, no. 7 (July 1, 2019): 1997–2008. https://doi.org/10.1093/gbe/evz134.
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    • Kilvitis, H. J., A. W. Schrey, A. K. Ragsdale, A. Berrio, S. M. Phelps, and L. B. Martin. “DNA methylation predicts immune gene expression in introduced house sparrows Passer domesticus.” Journal of Avian Biology 50, no. 6 (June 1, 2019). https://doi.org/10.1111/jav.01965.
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    • Swain-Lenz, Devjanee, Alejandro Berrio, Alexias Safi, Gregory Crawford, and Gregory Wray. “Comparative analyses of chromatin landscape in white adipose tissue suggest humans may have less beigeing potential than other primates,” 2019. https://doi.org/10.1101/524868.
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    • Berrio, Alejandro, Rafael F. Guerrero, Galina V. Aglyamova, Mariam Okhovat, Mikhail V. Matz, and Steven M. Phelps. “Complex selection on a regulator of social cognition: Evidence of balancing selection, regulatory interactions and population differentiation in the prairie vole Avpr1a locus.” Molecular Ecology 27, no. 2 (January 2018): 419–31. https://doi.org/10.1111/mec.14455.
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    • Phelps, Steven M., Mariam Okhovat, and Alejandro Berrio. “Individual Differences in Social Behavior and Cortical Vasopressin Receptor: Genetics, Epigenetics, and Evolution.” Frontiers in Neuroscience 11 (January 2017): 537. https://doi.org/10.3389/fnins.2017.00537.
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    • Rubenstein, Dustin R., Hannah Skolnik, Alejandro Berrio, Frances A. Champagne, Steven Phelps, and Joseph Solomon. “Sex-specific fitness effects of unpredictable early life conditions are associated with DNA methylation in the avian glucocorticoid receptor.” Molecular Ecology 25, no. 8 (April 2016): 1714–28. https://doi.org/10.1111/mec.13483.
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    • Okhovat, Mariam, Alejandro Berrio, Gerard Wallace, Alexander G. Ophir, and Steven M. Phelps. “Sexual fidelity trade-offs promote regulatory variation in the prairie vole brain.” Science (New York, N.Y.) 350, no. 6266 (December 2015): 1371–74. https://doi.org/10.1126/science.aac5791.
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    • Constantino, L. M., L. Navarro, A. Berrio, F. E. Acevedo, D. Rubio, and P. Benavides. “Biologic, morphologic, and genetic aspects of Hypothenemus obscurus and Hypothenemus hampei (Coleoptera: Curculionidae: Scolytinae).” Revista Colombiana De Entomologia 37, no. 2 (July 1, 2011): 173–82.
    • Camargo, Mauricio, María Adelaida Duque-Correa, and Alejandro Berrío. “A micro-spreading improvement for spermatogenic chromosomes from Triatominae (Hemiptera-Reduviidae).” Memorias Do Instituto Oswaldo Cruz 101, no. 3 (May 2006): 339–40. https://doi.org/10.1590/s0074-02762006000300021.
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• Teaching & Mentoring
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  Teaching Activities

  • Understanding Butterfly Evolution with Single Cell Genomics
    Smithsonian Tropical Research Institute
    January 18-26, 2023
• Scholarly, Clinical, & Service Activities
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  Presentations & Appearances

  • Is monogamy genetically determined?. Ciencia pa sumerce. 2018  2018

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