Publications

2026

1. Front. AI

   Deep Learning Classification of Reproductive Tissue from Ultrasound: Sex Determination in Red Abalone (Haliotis rufescens)

   Edwin A. Solares, Anthony Tong, Sohyun Yoo, and 9 more authors

   Frontiers in Artificial Intelligence, 2026

   Bib HTML

   @article{solares2026abalone,
     title = {Deep Learning Classification of Reproductive Tissue from Ultrasound: Sex Determination in Red Abalone (Haliotis rufescens)},
     author = {Solares, Edwin A. and Tong, Anthony and Yoo, Sohyun and Gosline-Niheu, Welokiheiakeaeloa and Jacob, Kevin and Feliz, Gordon and Loecher, Sachin and Zhai, Yuan and Mah, Maggie and Boles, Sara Elizabeth and Fagbohun, Ayodeji and Gross, Jackson A.},
     journal = {Frontiers in Artificial Intelligence},
     volume = {9},
     year = {2026},
   }

2025

1. bioRxiv

   Balanced polymorphism in a floral transcription factor underlies an ancient rhythm of daily sex alternation in avocado

   J. S. Groh, M. F. Santos, E. Dios, and 7 more authors

   bioRxiv, 2025

   DOI Bib

   @article{groh2025avocado,
     title = {Balanced polymorphism in a floral transcription factor underlies an ancient rhythm of daily sex alternation in avocado},
     author = {Groh, J. S. and Soares dos Santos, M. F. and Avila de Dios, E. and Ackerman, G. and Solares, E. and Focht, E. and Seymour, D. and Gaut, B. S. and Arpaia, M. L. and Coop, G.},
     journal = {bioRxiv},
     year = {2025},
     doi = {10.64898/2025.12.22.695989}
   }

2. medRxiv

   PvGAP: Development of a globally-applicable, highly-multiplexed microhaplotype amplicon panel for Plasmodium vivax

   A. Hubbard, E. A. Solares, L. Bradley, and 6 more authors

   medRxiv, 2025

   DOI Bib

   @article{hubbard2025pvgap,
     title = {PvGAP: Development of a globally-applicable, highly-multiplexed microhaplotype amplicon panel for Plasmodium vivax},
     author = {Hubbard, A. and Solares, E. A. and Bradley, L. and Jeang, B. and Yewhalaw, D. and Janies, D. and Lo, E. and Yan, G. and Hemming-Schroeder, E.},
     journal = {medRxiv},
     year = {2025},
     doi = {10.1101/2025.04.30.25326751}
   }

2023

1. Genome Res.

   miRNA-like secondary structures in maize (Zea mays) genes and transposable elements correlate with small RNAs, methylation, and expression

   Galen T. Martin, Edwin A. Solares, Jeanelle Guardado-Mendez, and 3 more authors

   Genome Research, 2023

   DOI Bib

   @article{martin2023maize,
     title = {miRNA-like secondary structures in maize (Zea mays) genes and transposable elements correlate with small RNAs, methylation, and expression},
     author = {Martin, Galen T. and Solares, Edwin A. and Guardado-Mendez, Jeanelle and Muyle, Aline and Bousios, Alexandros and Gaut, Brandon S.},
     journal = {Genome Research},
     year = {2023},
     doi = {10.1101/gr.277459.122},
   }

2. Front. Mar. Sci.

   Cycle of Heat Exposure Elevate Metabolic Enzyme Genes and Alters Digestion in Mussels

   G. Chan, A. Y. Gracey, E. A. Solares, and 2 more authors

   Frontiers in Marine Science, 2023

   DOI Bib

   @article{chan2023mussels,
     title = {Cycle of Heat Exposure Elevate Metabolic Enzyme Genes and Alters Digestion in Mussels},
     author = {Chan, G. and Gracey, A. Y. and Solares, E. A. and Wherle, B. and Connor, K. M.},
     journal = {Frontiers in Marine Science},
     year = {2023},
     doi = {10.3389/fmars.2023.1120695}
   }

3. PNAS

   Sex-linked gene traffic underlies the acquisition and loss of sexually dimorphic UV color vision in Heliconius butterflies

   Mahul Chakraborty, A. Guadalupe Lara, A. Dang, and 9 more authors

   Proceedings of the National Academy of Sciences, 2023

   DOI Bib

   @article{chakraborty2023butterfly,
     title = {Sex-linked gene traffic underlies the acquisition and loss of sexually dimorphic UV color vision in Heliconius butterflies},
     author = {Chakraborty, Mahul and Guadalupe Lara, A. and Dang, A. and McCulloch, K. J. and Rainbow, D. and Carter, D. and Solares, E. A. and Said, I. and Corbett-Detig, R. and Gilbert, L. E. and Emerson, J. J. and Briscoe, A. D.},
     journal = {Proceedings of the National Academy of Sciences},
     year = {2023},
     doi = {10.1073/pnas.2301411120},
   }

4. G3

   Insights into the domestication of avocado and potential genetic contributors to heterodichogamy

   Edwin A. Solares, Abraham Morales-Cruz, Rosa Figueroa Balderas, and 6 more authors

   G3: Genes, Genomes, Genetics, 2023

   DOI Bib

   @article{solares2023avocado,
     title = {Insights into the domestication of avocado and potential genetic contributors to heterodichogamy},
     author = {Solares, Edwin A. and Morales-Cruz, Abraham and Figueroa Balderas, Rosa and Focht, Eric and Ashworth, Vanessa E. T. M. and Minio, Andrea and Cantu, Dario and Arpaia, Mary Lu and Gaut, Brandon S.},
     journal = {G3: Genes, Genomes, Genetics},
     volume = {13},
     number = {2},
     year = {2023},
     doi = {10.1093/g3journal/jkac323},
   }

2021

1. BMC Bioinf.

   HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly

   Edwin A. Solares, Y. Tao, A. D. Long, and 1 more author

   BMC Bioinformatics, 2021

   DOI Bib

   @article{solares2021hapsolo,
     title = {HapSolo: An optimization approach for removing secondary haplotigs during diploid genome assembly},
     author = {Solares, Edwin A. and Tao, Y. and Long, A. D. and Gaut, Brandon S.},
     journal = {BMC Bioinformatics},
     volume = {22},
     pages = {9},
     year = {2021},
     doi = {10.1186/s12859-020-03939-y},
   }

2019

1. Nat. Plants

   The population genetics of structural variants in grapevine domestication

   Yongfeng Zhou, Andrea Minio, Mélanie Massonnet, and 5 more authors

   Nature Plants, 2019

   DOI Bib

   @article{zhou2019grapevine,
     title = {The population genetics of structural variants in grapevine domestication},
     author = {Zhou, Yongfeng and Minio, Andrea and Massonnet, Mélanie and Solares, Edwin A. and Lv, Yuanda and Beridze, Tengiz and Cantu, Dario and Gaut, Brandon S.},
     journal = {Nature Plants},
     volume = {5},
     pages = {965--979},
     year = {2019},
     doi = {10.1038/s41477-019-0507-8},
   }

2018

1. G3

   Rapid Low-Cost Assembly of the Drosophila melanogaster Reference Genome Using Low-Coverage, Long-Read Sequencing

   Edwin A. Solares, Mahul Chakraborty, Danny E. Miller, and 5 more authors

   G3: Genes, Genomes, Genetics, 2018

   DOI Bib

   @article{solares2018drosophila,
     title = {Rapid Low-Cost Assembly of the Drosophila melanogaster Reference Genome Using Low-Coverage, Long-Read Sequencing},
     author = {Solares, Edwin A. and Chakraborty, Mahul and Miller, Danny E. and Kalsow, Shannon and Hall, Kate and Perera, Anoja G. and Emerson, J. J. and Hawley, R. Scott},
     journal = {G3: Genes, Genomes, Genetics},
     volume = {8},
     number = {10},
     pages = {3143--3154},
     year = {2018},
     doi = {10.1534/g3.118.200162},
   }

2017

1. MBE

   Rapid Functional and Sequence Differentiation of a Tandemly Repeated Species-Specific Multigene Family in Drosophila

   Bryan D. Clifton, Pablo Librado, Shu-Dan Yeh, and 4 more authors

   Molecular Biology and Evolution, 2017

   DOI Bib

   @article{clifton2017drosophila,
     title = {Rapid Functional and Sequence Differentiation of a Tandemly Repeated Species-Specific Multigene Family in Drosophila},
     author = {Clifton, Bryan D. and Librado, Pablo and Yeh, Shu-Dan and Solares, Edwin S. and Real, Darlene A. and Jayasekera, Sunetra U. and Ranz, José M.},
     journal = {Molecular Biology and Evolution},
     year = {2017},
     doi = {10.1093/molbev/msw212}
   }