Publications (last updated 02/19/2023)
2024
2023
2022
2021
2020
2019
2018
- Pinto BJ, Nielsen SV, Sullivan KA, Behere A, Keating SE, van Schingen-Khan M, Nguyen TQ, Ziegler T, Pramuk J, Wilson MA, Gamble T. (2024). It’s a Trap?! Escape from an ancient, ancestral sex chromosome system and implication of Foxl2 as the putative primary sex determining gene in a lizard (Anguimorpha; Shinisauridae). Evolution. 78(2):355-363. PDF
- Gable SM, Bushroe N, Mendez J, Wilson A, Pinto BJ, Gamble T, Tollis M. (2024). Differential Conservation and Loss of CR1 Retrotransposons in Squamates Reveals Lineage-Specific Genome Dynamics across Reptiles. In review. BioRxiv
- Webster TH, Vannan A, Pinto BJ, Denbrock G, Morales M, Dolby GA, Fiddes IT, DeNardo DF, Wilson MA. (2024). Incomplete dosage balance and dosage compensation in the ZZ/ZW Gila monster (Heloderma suspectum) revealed by de novo genome assembly. Genome Biology and Evolution. In press. PDF
2023
- Pinto BJ, Gamble T, Smith CH, Wilson MA. (2023). A lizard is never late: squamate genomics as a recent catalyst for understanding microchromosome and sex chromosome evolution. Journal of Heredity. 114(5):445-458. PDF
- Pinto BJ, Gamble T, Smith CH, Keating SE, Havird J, Chiari Y. (2023). The revised reference genome of the leopard gecko (Eublepharis macularius) provides insight into the considerations of genome phasing and assembly. Journal of Heredity. 114(5):513-520. PDF
- Pinto BJ, O’Conner B, Schatz MC, Zarate S, Wilson MA. (2023). Concerning the eXclusion in human genomics: The choice of sex chromosome representation in the human genome drastically affects number of identified variants. G3: Genes|Genomes|Genetics. jkad169. PDF
- Wagner J, Olson ND, McDaniel J, Harris L, Pinto BJ, Jaspez D, Munoz-Barrera A, Rubio-Rodriguez LA, Lorenzo-Salazar JM, Flores C, Sahraeian SME, Narzisi G, Byrska-Bishop M, Evani US, Xiao C, Lake JA, Fontana P, Greenberg C, Freed D, Boutros PC, Mootor MFE, Murray L, Shafin K, Carroll A, Sedlazeck FJ, Wilson MA, Zook JM, Genome in a Bottle Consortium. (2023). Small variant benchmark from a complete assembly of X and Y chromosomes. In review. BioRxiv
- Makova K, Pickett B, Harris R, Hartley G, Cechova M, Pal K, Nurk S, Yoo D, Li Q, Hebbar P, McGrath B, Antonacci F, Aubel M, Biddanda A, Borchers M, Bomberg E, Bouffard G, Brooks S, Carbone L, Carrel L, Carroll A, Chang P, Chin C, Cook D, Craig S, de Gennaro L, Diekhans M, Dutra A, Garcia G, Grady P, Green R, Haddad D, Hallast P, Harvey W, Hickey G, Hillis D, Hoyt S, Jeong H, Kamali K, Pond S, LaPolice T, Lee C, Lewis A, Loh Y, Masterson P, McCoy R, Medvedev P, Miga K, Munson K, Pak E, Paten B, Pinto BJ, Potapova T, Rhie A, Rocha J, Ryabov F, Ryder O, Sacco S, Shafin K, Shepelev V, Slon V, Solar S, Storer J, Sudmant P, Sweetalana S, Sweeten A, Tassia M, Thibaud-Nissen F, Ventura M, Wilson MA, Young A, Zeng H, Zhang X, Szpiech Z, Huber C, Gerton J, Yi S, Schatz M, Alexandrov I, Koren S, O'Neill R, Eichler E, Phillippy A. (2023). The Complete Sequence and Comparative Analysis of Ape Sex Chromosomes. In review. BioRxiv
- Smith CH, Mejia-Trujillo R, Breton S, Pinto BJ, Kirkpatrick M, Havird JC. (2023). Mitonuclear sex determination? Empirical evidence from bivalves. Molecular Biology and Evolution. In press. PDF
- Griffing AH, Keating SE, Pinto BJ, Nielsen SV, Gamble T. (2023). Clarifying a male color morph of Sphaerodactylus macrolepis Günther, 1859 and resolving the taxonomic confusion on Saint Croix. Zootaxa. 5343(3):273-280. PDF
- Smith C, Pinto BJ, Kirkpatrick M, Hillis DM, Pfeiffer JM, Havird JC. (2023). A tale of two paths: The evolution of mitochondrial recombination in bivalves with doubly uniparental inheritance. Journal of Heredity. 114(3):199-206. PDF
2022
- Pinto BJ, Keating SE, Nielsen SV, Scantlebury DP, Daza JD, Gamble T. (2022). Chromosome-level genome assembly reveals dynamic sex chromosomes in Neotropical leaf-litter geckos (Sphaerodactylidae: Sphaerodactylus). Journal of Heredity. 113(3):272-87. PDF
- Díaz-Lameiro AM, Villamil CI, Gamble T, Pinto BJ, Herrera-Martínez A, Thomas R, Bernstein J, Titus-McQuillan JE, Nielsen SV, Agosto-Torres E, Puentes-Rolon AR, Hedges SB, Bird-Picó FJ, Oleksyk TK, Martínez-Cruzado JC, Daza JD. (2022). A new Sphaerodactylus species (Gekkota: Sphaerodactylidae) from the northwest karst region of Puerto Rico. Ichthyology and Herpetology. 110(3):449-65. PDF
- Vázquez-Miranda H, Zink RM, Pinto BJ. (2022). Comparative phylogenomic patterns in the Baja California avifauna, their conservation implications, and the stages in lineage divergence. Molecular Phylogenetic and Evolution. 171:107466. PDF
- Phung TN, Olney KC, Pinto BJ, Silasi M, Perley L, O’Bryan J, Kliman HJ, Wilson MA. (2022). X chromosome inactivation in the human placenta is patchy and distinct from adult tissues. Human Genetics and Genomics Advances. 3:100121. PDF
- Keating SE, Fenelon JC, Pyne M, Pinto BJ, Guzmán-Méndez IA, Johnston SD, Renfree MB, Gamble T. (2022). Genetic sex test for the short-beaked echidna (Tachyglossus aculeatus). Conservation Genetics Resources. 14(3):271-8. PDF
- Kirkpatrick M, Sardell JM, Pinto BJ, Dixon G, Peichel CL, Schartl M. (2022). Evolution of the canonical sex chromosomes of the guppy and its relatives. G3: Genes|Genomes|Genetics. 12(2):jkab435. PDF
2021
- Pinto BJ, Weis JJ, Gamble T, Paul R, Ode P, Zaspel J. (2021). A chromosome-level genome assembly of the parasitoid wasp, Cotesia glomerata (Hymenoptera: Braconidae). Journal of Heredity. 112(6):558-64. PDF
2020
- Nielsen SV, Pinto BJ, Guzmán-Méndez IA, Gamble T. (2020). First report of sex chromosomes in night lizards (Scincoidea: Xantusiidae). Journal of Heredity. 111(3):307-13. PDF
2019
- Pinto BJ, Titus-McQuillan J, Daza JD, Gamble T. (2019). Persistence of a geographically-stable hybrid zone in Puerto Rican dwarf geckos. Journal of Heredity. 110(5):523–534. PDF (2019 “Editor’s choice article” and "High Impact Article")
- Pinto BJ, Nielsen SV, Gamble T. (2019). Transcriptomic data support a nocturnal bottleneck in the ancestor to gecko lizards. Molecular Phylogenetics and Evolution. 141:1066392. PDF
- Pinto BJ, Colli GR, Higham TE, Russell AP, Scantlebury DP†, Vitt LJ, Gamble T. (2019). Population genetic structure and species delimitation of a widespread neotropical dwarf gecko. Molecular Phylogenetics and Evolution. 133:54-66. PDF
- Pinto BJ, Card DC, Castoe TA, Diaz Jr. RE, Nielsen SV, Trainor PA, Gamble T. (2019). The transcriptome of the Veiled Chameleon (Chamaeleo calyptratus): a resource for studying the evolution and development of vertebrates. Developmental Dynamics. 248(8):702-708. PDF
- Daza JD, Pinto BJ, Thomas R, Herrera-Martinez A, García LF, Scantlebury D, Perry G, Balaraman RP, Gamble T. (2019). The sprightly little sphaerodactyl: Systematics and biogeography of the Puerto Rican dwarf geckos Sphaerodactylus (Gekkota, Sphaerodactylidae). Zootaxa. 4712(2):151-201. PDF
- Nielsen SV, Guzmán-Mendez IA, Gamble T, Blumer M, Pinto BJ, Kratochvíl L, Rovatsos M. (2019). Escaping the evolutionary trap? Sex chromosome turnover in basilisks and related lizards (Corytophanidae: Squamata). Biology Letters. 15(10):20190498. PDF
- Nielsen SV, Daza JD, Pinto BJ, Gamble T. (2019). ZZ/ZW sex chromosomes in the endemic Puerto Rican leaf-toed gecko (Phyllodactylus wirshingi). Cytogenetic and Genome Research. 157:89-97. PDF
- Griffing AH, Sanger TJ, Daza JD, Nielsen SV, Pinto BJ, Stanley EL, Gamble T. (2019). Embryonic development of a parthenogenetic vertebrate, the mourning gecko (Lepidodactylus lugubris). Developmental Dynamics. 248(11):1070-90. PDF
- Hundt PJ, Liddle EB, Nielsen SV, Pinto BJ, Gamble T. (2019). Sex chromosome evolution in combtooth blennies (Blenniidae, Istiblennius). Marine Ecology Progress Series. 627:195-200. PDF
2018
- Gamble T, McKenna E, Meyer W, Nielsen SV, Pinto BJ, Scantlebury DP, Higham TE. (2018). XX/XY sex chromosomes in the South American dwarf gecko (Gonatodes humeralis). Journal of Heredity. 109(4):462–468. PDF
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Header photo: Waimea Canyon - Kauaʻi, Hawaii (2017)
Header photo: Waimea Canyon - Kauaʻi, Hawaii (2017)