Atlantic Forest Dimensions of Biodiversity
We link spatial patterns of biodiversity in the Atlantic forest with information from paleoclimates, historical demographic processes, and ecological mechanisms.
Damasceno RP, Carnaval AC, Sass C, Recoder RS, Moritz, C, Rodrigues MT (2021) Geographic restriction, genetic divergence, and morphological disparity in the Brazilian Atlantic Forests: Insights from Leposoma lizards (Gymnophthalmidae, Squamata). Molecular Phylogenetics and Evolution 154(2021): 106993. PDF
Réjaud A, Rodrigues MT, Crawford AJ, Castroviejo‐Fisher S, Jaramillo AF, Chaparro JC, Glaw F, Gagliardi‐Urrutia G, Moravec J, De la Riva IJ, Perez P, Lima AP, Werneck FP, Hrbek T, Ron SR, Ernst R, Kok PJR, Driskell A, Chave J, Fouquet A (2020) Historical biogeography identifies a possible role of Miocene wetlands in the diversification of the Amazonian rocket frogs (Aromobatidae: Allobates). J Biogeogr. 47: 2472– 2482. https://doi.org/10.1111/jbi.13937 PDF
Xue AT and Hickerson MJ (2020), Comparative phylogeographic inference with genome‐wide data from aggregated population pairs. Evolution, 74: 808-830. https://doi.org/10.1111/evo.13945 PDF
Brown JL, Paz A, Reginato M, Renata CA, Claydson Assis C, Lyra M, Caddah MK, Aguirre-Santoro J, d’Horta F, do Amaral FR, Goldenberg R, Silva-Brandão KL, Freitas AVL, Rodrigues MT, Michelangeli FA, Miyaki CY, Carnaval AC (2020) Seeing the forest through many trees: Multi‐taxon patterns of phylogenetic diversity in the Atlantic Forest hotspot. Divers Distrib. 26: 1160– 1176. https://doi.org/10.1111/ddi.13116 PDF
Paz A, Guarnizo CE (2020) Environmental ranges estimated from species distribution models are not good predictors of lizard and frog physiological tolerances. Evol Ecol 34: 89–99. https://doi.org/10.1007/s10682-019-10022-3 PDF
Rivera D, Prates I, Rodrigues MT, Carnaval AC (2020) Effects of climate and geography on spatial patterns of genetic structure in tropical skinks. Molecular Phylogenetics and Evolution 143: 106661. PDF
Melo-Sampaio PR, Prates I, Peloso PLV, Recoder R, Dal Vechio F, Marques-Souza S, Rodrigues MT (2020) A new nurse frog from Southwestern Amazonian highlands, with notes on the phylogenetic affinities of Allobates alessandroi (Aromobatidae), Journal of Natural History, 54:1-4, 43-62, DOI: 10.1080/00222933.2020.1727972 PDF
Prates I, Paz A, Brown JL, Carnaval AC (2019) Links between prey assemblages and poison frog toxins: A landscape ecology approach to assess how biotic interactions affect species phenotypes. Ecol Evol. 9: 14317– 14329. https://doi.org/10.1002/ece3.5867 PDF
Paz A, Spanos Z, Brown JL, Lyra M, Haddad C, Rodrigues MT, Carnaval AC (2019) Phylogeography of Atlantic Forest glassfrogs (Vitreorana): when geography, climate dynamics and rivers matter. Heredity 122: 545–557. https://doi.org/10.1038/s41437-018-0155-1 PDF
Garciaa GPB, Grohmann CH (2019) DEM-based geomorphological mapping and landforms characterization of a T tropical karst environment in southeastern Brazil. Journal of South American Earth Sciences 93:14-22. PDF
Potter S, Xue AT, Bragg JG, Rosauer DF, Roycroft EJ, Moritz C (2018) Pleistocene climatic changes drive diversification across a tropical savanna. MolEcol. 27: 520–532. https://doi.org/10.1111/mec.14441 PDF
Prates I, Penna A, Rodrigues MT, Carnaval AC (2018) Local adaptation in mainland anole lizards: Integrating population history and genome–environment associations. Ecol Evol. 8: 11932– 11944. https://doi.org/10.1002/ece3.4650 PDF
Brown J, Hill D, Dolan A, et al. (2018) PaleoClim, high spatial resolution paleoclimate surfaces for global land areas. Sci Data 5: 180254. https://doi.org/10.1038/sdata.2018.254 PDF
Strangas ML, Navas CA, Rodrigues MT, Carnaval AC (2019) Thermophysiology, microclimates, and species distributions of lizards in the mountains of the Brazilian Atlantic Forest. Ecography 42: 354–364. doi:10.1111/ecog.03330 PDF
Costa GC, Hampe A, Ledru M‐P, et al. (2018) Biome stability in South America over the last 30 kyr: Inferences from long‐term vegetation dynamics and habitat modelling. Global Ecology and Biogeography. 27:285–297. https://doi.org/10.1111/geb.12694 PDF
Melo-Sampaio PR, De Oliveira RM, Prates I (2018) A New Nurse Frog from Brazil (Aromobatidae: Allobates), with Data on the Distribution and Phenotypic Variation of Western Amazonian Species. South American Journal of Herpetology 13(2): 131-149. https://doi.org/10.2994/SAJH-D-17-00098.1 PDF
Mastretta‐Yanes A, Xue AT, Moreno‐Letelier A, et al. (2018) Long‐term in situ persistence of biodiversity in tropical sky islands revealed by landscape genomics. Molecular Ecology 27:432–448. https://doi.org/10.1111/mec.14461 PDF
Nacer DF, do Amaral FR (2017) Striking pseudogenization in avian phylogenetics: Numts are large and common in falcons. Molecular Phylogenetics and Evolution 115: 1-6. doi.org/10.1016/j.ympev.2017.07.002 PDF
Camacho A, Recoder R, Teixeira M, Kohlsdorf T, Rodrigues MT, Lee MS (2017) Overcoming phylogenetic and geographic uncertainties to test for correlates of range size evolution in gymnophthalmid lizards. Ecography, 40: 764-773. doi:10.1111/ecog.02282 PDF
Potter S, Xue AT, Bragg JG, Rosauer DF, Roycroft EJ, Moritz C (2017) Pleistocene climatic changes drive diversification across a tropical savanna. Molecular Ecology 27: 520–532. https://doi.org/10.1111/mec.14441 PDF
Zamborlini Saiter F, Brown JL, Thomas WW, Oliveira‐Filho AT, Carnaval AC (2016) Environmental correlates of floristic regions and plant turnover in the Atlantic Forest hotspot. Journal of Biogeography, 43: 2322-2331. doi:10.1111/jbi.12774 PDF
DaSilva MB, Pinto-da-Rocha R, Morrone JJ (2016) Historical relationships of areas of endemism of the Brazilian Atlantic rain forest: a cladistic biogeographic analysis of harvestman taxa (Arachnida: Opiliones). Current Zoology Aug 2016: 1-11. DOI: http://dx.doi.org/10.1093/cz/zow092 PDF
Prates I, Xue AT, Brown JL, Alvarado-Serrano DF, Rodrigues MT, Hickerson, MJ, & Carnaval AC (2016) Inferring responses to climate dynamics from historical demography in neotropical forest lizards. Proceedings of the National Academy of Sciences USA, 113(29), 7978-7985. doi:10.1073/pnas.1601063113 PDF
Alvarado-Serrano D, Hickerson MJ (2016) Spatially explicit summary statistics for historical population genetic inference. Methods in Ecology and Evolution 7: 418–427. PDF
Montade V, Diogo IJS, Bremond L, Favier C, da Costa IR, Ledru MP, Paradis L, Martins ESPR, Burte J, Silva FHM, Verola CF (2016) Pollen-based characterization of montane forest types in north-eastern Brazil. Review of Palaeobotany and Palynology in press. PDF
Prates I, Rivera D, Rodrigues MT, Carnaval AC (2016) A mid-Pleistocene rainforest corridor enabled synchronous invasions of the Atlantic Forest by Amazonian anole lizards. Molecular Ecology doi: 10.1111/mec.13821 PDF
Saiter FZ, Brown JL, Thomas WW, de Oliveira-Filho AT, Carnaval AC (2016) Environmental correlates of floristic regions and plant turnover in the Atlantic Forest hotspot. Journal of Biogeography early view. doi:10.1111/jbi.12774 PDF
Brown JL, Weber JJ, Alvarado-Serrano DF, Hickerson MJ, Franks SJ, Carnaval AC (2016) Predicting the genetic consequences of future climate change: The power of coupling spatial demography, the coalescent, and historical landscape changes. American Journal of Botany 103 (1): 153-163. doi: 10.3732/ajb.1500117 PDF
Batalha-Filho H, Miyaki CY (2016) Late Pleistocene divergence and postglacial expansion in the Brazilian Atlantic Forest: multilocus phylogeography of Rhopias gularis (Aves: Passeriformes). Journal of Zoological Systematics and Evolutionary Research 54(2): 137-147. PDF
Xue AT, Hickerson MJ (2015) The aggregate site frequency spectrum for comparative population genomic inference. Molecular Ecology 24: 6223-6240. PDF
de Medeiros MCMP, Guisan A, Lohmann LG (2015) Climate niche conservatism does not explainrestricted distribution patterns in Tynanthus (Bignonieae, Bignoniaceae). Botanical Journal of the Linnean Society 179: 95-109. PDF
DaSilva MB, Pinto-da-Rocha R, DeSouza AM (2015) A protocol for the delimitation of areas of endemism and the historical regionalization of the Brazilian Atlantic Rain Forest using harvestmen distribution data. Caldistics 31: 692-705. PDF
Bragagnolo C, Pinto-da-Rocha R, Atunes, Jr M, Clouse RM (2015) Phylogenetics and phylogeography of a long-legged harvestman (Arachnida : Opiliones) in the Brazilian Atlantic Rain Forest reveals poor dispersal, low diversity and extensive mitochondrial introgression. Invertebrate Systematics 29: 386-404. PDF
Bragagnolo C, Hara MR, and Pinto-da-Rocha R (2015) A new family of Gonyleptoidea from South America
(Opiliones, Laniatores). Zoological Journal of the Linnean Society 173: 296-319. PDF
Montemor VM, Bragagnolo C, & Pinto-da-Rocha R (2015) Taxonomic review of the Neotropical genus Neopachylus (Arachnida,
Opiliones, Gonyleptidae). Iheringia, Série Zoologia 105 (1): 101-121. PDF
Grohmann CH (2015) Effects of spatial resolution on slope and aspect derivation for regional-scale analysis. Computers and Geosciences 77: 111-117. PDF
DaSilva MB, Pinto-da-Rocha R, and DeSouza AM (2015) A protocol for the delimitation of areas of endemism and the historical regionalization of the Brazilian Atlantic Rain Forest using harvestmen distribution data. Cladistics. doi: 10.1111/cla.12121 PDF
Prates I, Rodrigues MT, Melo-Sampaio PR, Carnaval AC (2015) Phylogenetic relationships of Amazonian anole lizards (Dactyloa): Taxonomic implications, new insights about phenotypic evolution and the timing of diversification. Molecular Phylogenetics and Evolution 82: 258-268. doi: 10.1016/j.ympev.2014.10.005. PDF
Mori BJ, & Pinto-da-Rocha R (2014) Taxonomic revision of Parampheres (Arachnida: Opiliones: Gonyleptidae). Zoologia 31 (6) 541-556. PDF
Cabanne GS, Trujillo-Arias N, Calderón L, d'Horta FM, Miyaki CY (2014) Phenotypic evolution of an Atlantic Forest passerine (Xiphorhynchus fuscus): biogeographic and systematic implications. Biological Journal of the Linnean Society 113: 1047-1066 PDF
Pinto-da-Rocha R, Bragagnolo C, Tourinho AL (2014) Three new species of Thrasychiroides Soares & Soares, 1947 from Brazilian Mountains (Opiliones, Eupnoi, Neopilionidae). Zootaxa 3869 (4): 469-482. PDF
Damasceno R, Strangas ML, Carnaval AC, Rodrigues MT and Moritz C (2014) Revisiting the vanishing refuge model of diversification. Frontiers in Genetics. 5:353. doi: 10.3389/fgene.2014.00353. PDF
Batalha-Filho H, Pessoa RO, Fabre PH, Fjeldså J, Irestedt M, Ericson PGP, Silveira LF, Miyaki CY (2014) Phylogeny and historical biogeography of gnateaters (Passeriformes, Conopophagidae) in the South America forests. Molecular Phylogenetics and Evolution 79: 422-432. PDF
Carnaval AC, Waltari E, Rodrigues MT, Rosauer D, VanDerWal J, Damasceno R, Prates I, Strangas M, Spanos Z, Rivera D, Pie MR, Firkowski CR, Bornschein MR, Ribeiro LF, Moritz C. (2014). Prediction of phylogeographic endemism in an environmentally complex biome. Proceedings of the Royal Society 281(1792): 20141461. PDF
Waltari E, Schroeder R, McDonald K, Anderson RP, Carnaval A. (2014). Bioclimatic variables derived from remote sensing: assessment and application for species distribution modeling. Methods in Ecology and Evolution, online in advance of print. http://dx.doi.org/10.1111/2041-210X.12264. PDF
Dantas GPM, Sari EH, Cabanne GS, Pessoa RO, Marini MÂ, Miyaki CY, Santos FR. (2014). Population genetic Structure of the Atlantic Forest endemic Conopophaga lineata (Passeriformes: Conopophagidae) reveals a contact zone in the Atlantic Forest. Journal of Ornithology: 1-15. PDF
Graham CH, Carnaval AC, Cadena CD, Zamudio KR, Roberts TE, Parra JL, McCain CM, Bowie RCK, Moritz C, Bains SB, Schneider CJ, VanDerWal J, Rahbek C, Kozak KH, and Sanders NJ. (2014) The origin and maintenance of montane biodiversity: integrating evolutionary and ecological processes. Ecography 37: 1-9. PDF
Chan YL, Schanzenbach D, Hickerson, M. (2014) Detecting Concerted Demographic Response across Community Assemblages Using Hierarchical Approximate Bayesian Computation. Molecular Biology and Evolution 31(9): 2501-2515. PDF
Robinson J, Stone G, Lohse K, and Hickerson MJ. (2014) Testing phylogeographic histories with un-phased population genomic data and ABC. Molecular Ecology 23: 4458-4471. PDF
Cook JA, Edwards SV, Lacey E, Guralnick RP, Soltis PS, Soltis DE, Welch C, Bell KC, Galbreath KE, Himes C, Allen J, Heath TA, Carnaval AC, Cooper KL, Liu M, Hanken J. (2014). Aiming Up: Natural History Collections as Emerging Resources for Innovative Undergraduate Education in Biology. Bioscience 64(8):725-734. PDF