Drainage rearrangements and in situ diversification of an endemic freshwater fish genus from north-eastern Brazilian rivers
dc.contributor.author | Barreto, Silvia Britto | |
dc.contributor.author | Knowles, L. Lacey | |
dc.contributor.author | Mascarenhas, Rilquer | |
dc.contributor.author | Affonso, Paulo Roberto Antunes de Mello | |
dc.contributor.author | Batalha-Filho, Henrique | |
dc.date.accessioned | 2022-05-06T17:28:33Z | |
dc.date.available | 2023-06-06 13:28:31 | en |
dc.date.available | 2022-05-06T17:28:33Z | |
dc.date.issued | 2022-05 | |
dc.identifier.citation | Barreto, Silvia Britto; Knowles, L. Lacey; Mascarenhas, Rilquer; Affonso, Paulo Roberto Antunes de Mello; Batalha-Filho, Henrique (2022). "Drainage rearrangements and in situ diversification of an endemic freshwater fish genus from north- eastern Brazilian rivers." Freshwater Biology (5): 759-773. | |
dc.identifier.issn | 0046-5070 | |
dc.identifier.issn | 1365-2427 | |
dc.identifier.uri | https://hdl.handle.net/2027.42/172316 | |
dc.description.abstract | Drainage rearrangements, either headwater captures or coastal paleodrainages formed when sea level was low, are often invoked to explain connectivity and isolation among fish populations. Unravelling these events is crucial for understanding the evolutionary processes that have shaped the genetic diversity and differentiation in freshwater fishes, which is especially relevant in regions with high endemism and species richness.Here, we analyse mitochondrial (cytochrome c oxidase subunit I) and genomic (restriction site-associated DNA) data to test the putative effects of the current configuration of basins and historical drainage rearrangements on the genetic structuring of a characid fish (Nematocharax) endemic to a largely overlooked Neotropical freshwater ecoregion—the North-eastern Mata Atlantica. Bathymetric and geomorphological data were also used to generate hypotheses for two potential routes of dispersal (headwater captures and coastal paleodrainages).We found that the divergence between lineages from the highlands of the Brazilian shield and the lowlands occurred during the Mio-Pliocene (i.e., divergence between Nematocharax varii and Nematocharax venustus), followed by divergence events within N. venustus in lowland basins during the Pleistocene. The general distribution of genetic variation in N. venustus seems to reflect the current configuration of basins, suggesting long-term isolation, but a subset of the inferred drainage rearrangements have facilitated movement among these catchments, which is supported by both mitochondrial DNA and genomic data.Our results suggest that the North-eastern Mata Atlantica river basins have had their own independent histories, except for some past temporary connections that allowed dispersal events and multiple independent colonisation of basins, as seen in the Contas and Cachoeira river systems.Estimating when and where connections between river basins may have occurred is fundamental to understand the role of different historical processes structuring divergence in freshwater fish species. | |
dc.publisher | Wiley-Blackwell | |
dc.subject.other | Neotropical fish | |
dc.subject.other | paleodrainages | |
dc.subject.other | genetic structure | |
dc.subject.other | headwater captures | |
dc.subject.other | coastal basins | |
dc.title | Drainage rearrangements and in situ diversification of an endemic freshwater fish genus from north-eastern Brazilian rivers | |
dc.type | Article | |
dc.rights.robots | IndexNoFollow | |
dc.subject.hlbsecondlevel | Ecology and Evolutionary Biology | |
dc.subject.hlbtoplevel | Science | |
dc.description.peerreviewed | Peer Reviewed | |
dc.description.bitstreamurl | http://deepblue.lib.umich.edu/bitstream/2027.42/172316/1/fwb13879.pdf | |
dc.description.bitstreamurl | http://deepblue.lib.umich.edu/bitstream/2027.42/172316/2/fwb13879_am.pdf | |
dc.identifier.doi | 10.1111/fwb.13879 | |
dc.identifier.source | Freshwater Biology | |
dc.identifier.citedreference | Ronquist, F., Teslenko, M., van der Mark, P., Ayres, D. L., Darling, A., Höhna, S., … Huelsenbeck, J. P. ( 2012 ). MrBayes 3.2: Efficient Bayesian phylogenetic inference and model choice across a large model space. Systematic Biology, 61 ( 3 ), 539 – 542. https://doi.org/10.1093/sysbio/sys029 | |
dc.identifier.citedreference | Rodrigues, A. D. S., Brandão, J. H. S. G., Bitencourt, J. A., Jucá-Chagas, R., Sampaio, I., Schneider, H., & Affonso, P. R. A. M. ( 2016 ). Molecular identification and traceability of illegal trading in Lignobrycon myersi (Teleostei: Characiformes), a threatened Brazilian fish species, using DNA barcode. The Scientific World Journal, 2016, 9382613. https://doi.org/10.1155/2016/9382613 | |
dc.identifier.citedreference | Rozas, J., Ferrer-Mata, A., Sánchez-DelBarrio, J. C., Guirao-Rico, S., Librado, P., Ramos-Onsins, S. E., & Sánchez-Gracia, A. ( 2017 ). DnaSP 6: DNA sequence polymorphism analysis of large data sets. Molecular Biology and Evolution, 34 ( 12 ), 3299 – 3302. https://doi.org/10.1093/molbev/msx248 | |
dc.identifier.citedreference | Saadi, A. ( 1995 ). A geomorfologia da Serra do Espinhaço em Minas Gerais e de suas margens. Geonomos, 3 ( 1 ), 41 – 63. https://doi.org/10.18285/geonomos.v3i1.215 | |
dc.identifier.citedreference | Saadi, A., Machette, M. N., Haller, K. M., Dart, R. L., Bradley, L., & Souza, A. M. P. D. ( 2002 ). Map and database of Quaternary faults and lineaments in Brazil. U.S. Geological Survey Open-File Report 02-230. Version 1.0. http://pubs.usgs.gov/of/2002/ofr-02-230/ | |
dc.identifier.citedreference | Schwarzer, J., Swartz, E. R., Vreven, E., Snoeks, J., Cotterill, F. P. D., Misof, B., & Schliewen, U. K. ( 2012 ). Repeated trans-watershed hybridization among haplochromine cichlids (Cichlidae) was triggered by Neogene landscape evolution. Proceedings of the Royal Society B: Biological Sciences, 279 ( 1746 ), 4389 – 4398. https://doi.org/10.1098/rspb.2012.1667 | |
dc.identifier.citedreference | Shelley, J. J., Swearer, S. E., Dempster, T., Adams, M., Le Feuvre, M. C., Hammer, M. P., & Unmack, P. J. ( 2020 ). Plio-Pleistocene sea-level changes drive speciation of freshwater fishes in north-western Australia. Journal of Biogeography, 47 ( 8 ), 1727 – 1738. https://doi.org/10.1111/jbi.13856 | |
dc.identifier.citedreference | Souza, M. S., Thomaz, A. T., & Fagundes, N. J. ( 2020 ). River capture or ancestral polymorphism: An empirical genetic test in a freshwater fish using approximate Bayesian computation. Biological Journal of the Linnean Society, 131 ( 3 ), 575 – 584. https://doi.org/10.1093/biolinnean/blaa140 | |
dc.identifier.citedreference | Stamatakis, A. ( 2014 ). RAxML version 8: A tool for phylogenetic analysis and post-analysis of large phylogenies. Bioinformatics, 30 ( 9 ), 1312 – 1313. https://doi.org/10.1093/bioinformatics/btu033 | |
dc.identifier.citedreference | Swofford, D. L. ( 2003 ). PAUP*: Phylogenetic analysis using parsimony and other methods, version 4.0 b10. Sinauer Associates. | |
dc.identifier.citedreference | Tajima, F. ( 1989 ). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123 ( 3 ), 585 – 595. https://doi.org/10.1093/genetics/123.3.585 | |
dc.identifier.citedreference | Thomaz, A. T., Christie, M. R., & Knowles, L. L. ( 2016 ). The architecture of river networks can drive the evolutionary dynamics of aquatic populations. Evolution, 70 ( 3 ), 731 – 739. https://doi.org/10.1111/evo.12883 | |
dc.identifier.citedreference | Thomaz, A. T., & Knowles, L. L. ( 2018 ). Flowing into the unknown: Inferred paleodrainages for studying the ichthyofauna of Brazilian coastal rivers. Neotropical Ichthyology, 16 ( 3 ), e180019. https://doi.org/10.1590/1982-0224-20180019 | |
dc.identifier.citedreference | Thomaz, A. T., & Knowles, L. L. ( 2020 ). Common barriers, but temporal dissonance: Genomic tests suggest ecological and paleo-landscape sieves structure a coastal riverine fish community. Molecular Ecology, 29 ( 4 ), 783 – 796. https://doi.org/10.1111/mec.15357 | |
dc.identifier.citedreference | Thomaz, A. T., Malabarba, L. R., & Bonatto, S. L. ( 2010 ). The phylogenetic placement of Hollandichthys Eigenmann 1909 (Teleostei: Characidae) and related genera. Molecular Phylogenetics and Evolution, 57 ( 3 ), 1347 – 1352. https://doi.org/10.1016/j.ympev.2010.10.006 | |
dc.identifier.citedreference | Thomaz, A. T., Malabarba, L. R., Bonatto, S. L., & Knowles, L. L. ( 2015 ). Testing the effect of palaeodrainages versus habitat stability on genetic divergence in riverine systems: Study of a Neotropical fish of the Brazilian coastal Atlantic Forest. Journal of Biogeography, 42 ( 12 ), 2389 – 2401. https://doi.org/10.1111/jbi.12597 | |
dc.identifier.citedreference | Thomaz, A. T., Malabarba, L. R., & Knowles, L. L. ( 2017 ). Genomic signatures of paleodrainages in a freshwater fish along the southeastern coast of Brazil: Genetic structure reflects past riverine properties. Heredity, 119 ( 4 ), 287 – 294. https://doi.org/10.1038/hdy.2017.46 | |
dc.identifier.citedreference | Thompson, J. D., Higgins, D. G., & Gibson, T. J. ( 1994 ). CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Research, 22 ( 22 ), 4673 – 4680. https://doi.org/10.1093/nar/22.22.4673 | |
dc.identifier.citedreference | Toonen, R. J., Puritz, J. B., Forsman, Z. H., Whitney, J. L., Fernandez-Silva, I., Andrews, K. R., & Bird, C. E. ( 2013 ). ezRAD: A simplified method for genomic genotyping in non-model organisms. PeerJ, 1, e203. https://doi.org/10.7717/peerj.203 | |
dc.identifier.citedreference | Tschá, M. K., Baggio, R. A., Marteleto, F. M., Abilhoa, V., Bachmann, L., & Boeger, W. A. ( 2017 ). Sea-level variations have influenced the demographic history of estuarine and freshwater fishes of the coastal plain of Paraná, Brazil. Journal of Fish Biology, 90 ( 3 ), 968 – 979. https://doi.org/10.1111/jfb.13211 | |
dc.identifier.citedreference | Ward, R. D., Zemlak, T. S., Innes, B. H., Last, P. R., & Hebert, P. D. ( 2005 ). DNA barcoding Australia’s fish species. Philosophical Transactions of the Royal Society B: Biological Sciences, 360 ( 1462 ), 1847 – 1857. https://doi.org/10.1098/rstb.2005.1716 | |
dc.identifier.citedreference | Waters, J. M., Burridge, C. P., & Craw, D. ( 2020 ). River capture and freshwater biological evolution: A review of galaxiid fish vicariance. Diversity, 12 ( 6 ), 216. https://doi.org/10.3390/d12060216 | |
dc.identifier.citedreference | Weitzman, S. H., Menezes, N. A., & Weitzman, M. J. ( 1988 ). Phylogenetic biogeography of the Glandulocaudini (Teleostei: Characiformes, Characidae) with comments on the distributions of other freshwater fishes in eastern and southeastern Brazil. In P. E. Vanzolini, & W. R. Heyer (Eds.), Proceedings of workshop on neotropical distribution patterns. Academia Brasileira de Ciências. | |
dc.identifier.citedreference | Wilzbach, M. A., & Cummins, K. W. ( 2008 ). Rivers and streams: Physical setting and adapted biota. In S. E. Jørgensen, & B. D. Fath (Eds.), Encyclopedia of ecology. Elsevier. | |
dc.identifier.citedreference | Winemiller, K. O., & Willis, S. C. ( 2011 ). The Vaupes Arch and Casiquiare Canal: Barriers and passages. Chapter 14. In J. S. Albert, & R. E. Reis (Eds.), Historical biogeography of Neotropical freshwater fishes. University of California Press. | |
dc.identifier.citedreference | Camelier, P., & Zanata, A. M. ( 2014 ). Biogeography of freshwater fishes from the Northeastern Mata Atl-ntica freshwater ecoregion: Distribution, endemism, and area relationships. Neotropical Ichthyology, 12 ( 4 ), 683 – 698. https://doi.org/10.1590/1982-0224-20130228 | |
dc.identifier.citedreference | Abell, R., Thieme, M. L., Revenga, C., Bryer, M., Kottelat, M., Bogutskaya, N., … Petry, P. ( 2008 ). Freshwater ecoregions of the world: A new map of biogeographic units for freshwater biodiversity conservation. BioScience, 58 ( 5 ), 403 – 414. https://doi.org/10.1641/B580507 | |
dc.identifier.citedreference | Albert, J. S., Craig, J. M., Tagliacollo, V. A., & Petry, P. ( 2018 ). Upland and lowland fishes: a test of the river capture hypothesis. Chapter 19. In C. Hoorn, A. Perrigo, & A. Antonelli (Eds.), Mountains, climate and biodiversity (pp. 273 – 294 ). Wiley-Blackwell. | |
dc.identifier.citedreference | Albert, J. S., Petry, P., & Reis, R. E. ( 2011 ). Major biogeographic and phylogenetic patterns. Chapter 2. In J. S. Albert & R. E. Reis (Eds.), Historical biogeography of Neotropical freshwater fishes (pp. 21 – 57 ). University of California Press. | |
dc.identifier.citedreference | Albert, J. S., & Reis, R. E. ( 2011 ). Historical biogeography of Neotropical freshwater fishes. University of California Press. | |
dc.identifier.citedreference | Argolo, L. A., López-Fernández, H., Batalha-Filho, H., & Affonso, P. R. A. M. ( 2020 ). Unraveling the systematics and evolution of the ‘ Geophagus ’ brasiliensis (Cichliformes: Cichlidae) species complex. Molecular Phylogenetics and Evolution, 150, 106855. https://doi.org/10.1016/j.ympev.2020.106855 | |
dc.identifier.citedreference | Baggio, R. A., Stoiev, S. B., Spach, H. L., & Boeger, W. A. ( 2017 ). Opportunity and taxon pulse: The central influence of coastal geomorphology on genetic diversification and endemism of strict estuarine species. Journal of Biogeography, 44 ( 7 ), 1626 – 1639. https://doi.org/10.1111/jbi.12934 | |
dc.identifier.citedreference | Barreto, S. B., Cioffi, M. B., Medrado, A. S., Silva, A. T., Affonso, P. R. A. M., & Diniz, D. ( 2016 ). Allopatric chromosomal variation in Nematocharax venustus Weitzman, Menezes & Britski, 1986 (Actinopterygii: Characiformes) based on mapping of repetitive sequences. Neotropical Ichthyology, 14 ( 2 ), e150141. https://doi.org/10.1590/1982-0224-20150141 | |
dc.identifier.citedreference | Barreto, S. B., Knowles, L. L., Affonso, P. R. A. M., & Batalha-Filho, H. ( 2020 ). Riverscape properties contribute to the origin and structure of a hybrid zone in a Neotropical freshwater fish. Journal of Evolutionary Biology, 33 ( 11 ), 1530 – 1542. https://doi.org/10.1111/jeb.13689 | |
dc.identifier.citedreference | Barreto, S. B., Nunes, L. A., Silva, A. T., Jucá-Chagas, R., Diniz, D., Sampaio, I., … Affonso, P. R. A. M. ( 2016 ). Is Nematocharax (Actinopterygii, Characiformes) a monotypic fish genus? Genome, 59 ( 10 ), 851 – 865. https://doi.org/10.1139/gen-2015-0166 | |
dc.identifier.citedreference | Barreto, S. B., Silva, A. T., Batalha-Filho, H., Affonso, P. R. A. M., & Zanata, A. M. ( 2018 ). Integrative approach reveals a new species of Nematocharax (Teleostei: Characidae). Journal of Fish Biology, 93 ( 6 ), 1151 – 1162. https://doi.org/10.1111/jfb.13834 | |
dc.identifier.citedreference | Bishop, P. ( 1995 ). Drainage rearrangement by river capture, beheading and diversion. Progress in Physical Geography, 19 ( 4 ), 449 – 473. https://doi.org/10.1177/030913339501900402 | |
dc.identifier.citedreference | Buckup, P. A. ( 2011 ). The Eastern Brazilian Shield. Chapter 12. In J. S. Albert & R. E. Reis (Eds.), Historical biogeography of Neotropical freshwater fishes. University of California Press. | |
dc.identifier.citedreference | Burridge, C. P., Craw, D., Jack, D. C., King, T. M., & Waters, J. M. ( 2008 ). Does fish ecology predict dispersal across a river drainage divide? Evolution, 62 ( 6 ), 1484 – 1499. https://doi.org/10.1111/j.1558-5646.2008.00377.x | |
dc.identifier.citedreference | Burridge, C. P., Craw, D., & Waters, J. M. ( 2006 ). River capture, range expansion, and cladogenesis: The genetic signature of freshwater vicariance. Evolution, 60 ( 5 ), 1038 – 1049. https://doi.org/10.1111/j.0014-3820.2006.tb01181.x | |
dc.identifier.citedreference | Camelier, P., Menezes, N. A., Costa-Silva, G. J., & Oliveira, C. ( 2018 ). Molecular and morphological data of the freshwater fish Glandulocauda melanopleura (Characiformes: Characidae) provide evidences of river captures and local differentiation in the Brazilian Atlantic Forest. PLoS One, 13 ( 3 ), e0194247. https://doi.org/10.1371/journal.pone.0194247 | |
dc.identifier.citedreference | Campbell Grant, E. H., Lowe, W. H., & Fagan, W. F. ( 2007 ). Living in the branches: Population dynamics and ecological processes in dendritic networks. Ecology Letters, 10 ( 2 ), 165 – 175. https://doi.org/10.1111/j.1461-0248.2006.01007.x | |
dc.identifier.citedreference | Carstens, B. C., & Knowles, L. L. ( 2007 ). Shifting distributions and speciation: Species divergence during rapid climate change. Molecular Ecology, 16 ( 3 ), 619 – 627. https://doi.org/10.1111/j.1365-294X.2006.03167.x | |
dc.identifier.citedreference | Carvajal-Quintero, J., Villalobos, F., Oberdorff, T., Grenouillet, G., Brosse, S., Hugueny, B., … Tedesco, P. A. ( 2019 ). Drainage network position and historical connectivity explain global patterns in freshwater fishes’ range size. Proceedings of the National Academy of Sciences, 116 ( 27 ), 13434 – 13439. https://doi.org/10.1073/pnas.1902484116 | |
dc.identifier.citedreference | Cetra, M., Ferreira, F. C., & Carmassi, A. L. ( 2009 ). Caracterização das assembléias de peixes de riachos de cabeceira no período chuvoso na bacia do rio Cachoeira (SE da Bahia, NE do Brasil). Biota Neotropica, 9 ( 2 ), 107 – 115. https://doi.org/10.1590/S1676-06032009000200010 | |
dc.identifier.citedreference | Chifman, J., & Kubatko, L. ( 2014 ). Quartet inference from SNP data under the coalescent model. Bioinformatics, 30 ( 23 ), 3317 – 3324. https://doi.org/10.1093/bioinformatics/btu530 | |
dc.identifier.citedreference | Clark, P. U., Dyke, A. S., Shakun, J. D., Carlson, A. E., Clark, J., Wohlfarth, B., … McCabe, A. M. ( 2009 ). The last glacial maximum. Science, 325 ( 5941 ), 710 – 714. https://doi.org/10.1126/science.1172873 | |
dc.identifier.citedreference | Corander, J., & Marttinen, P. ( 2006 ). Bayesian identification of admixture events using multilocus molecular markers. Molecular Ecology, 15 ( 10 ), 2833 – 2843. https://doi.org/10.1111/j.1365-294X.2006.02994.x | |
dc.identifier.citedreference | Darriba, D., Taboada, G. L., Doallo, R., & Posada, D. ( 2012 ). jModelTest 2: More models, new heuristics and parallel computing. Nature Methods, 9 ( 8 ), 772. https://doi.org/10.1038/nmeth.2109 | |
dc.identifier.citedreference | Davis, C. D., Epps, C. W., Flitcroft, R. L., & Banks, M. A. ( 2018 ). Refining and defining riverscape genetics: How rivers influence population genetic structure. Wiley Interdisciplinary Reviews: Water, 5 ( 2 ), e1269. https://doi.org/10.1002/wat2.1269 | |
dc.identifier.citedreference | de Oliveira, D. ( 2010 ). Capturas fluviais como evidências da evolução do relevo: Uma revisão bibliográfica. Revista do Departamento De Geografia, 20, 37 – 50. https://doi.org/10.7154/RDG.2010.0020.0003 | |
dc.identifier.citedreference | de Sousa, J. L. P., Bitencourt, J. A., Sampaio, I., Schneider, H., & Affonso, P. R. A. M. ( 2021 ). “More than meets the eye”: Phylogeographic inferences and remarkable cryptic diversity and in endemic catfish Parotocinclus (Loricariidae: Hypoptopomatinae) from neglected and impacted basins in South America. Conservation Genetics, 22, 411 – 425. https://doi.org/10.1007/s10592-021-01336-3 | |
dc.identifier.citedreference | Del Fabbro, C., Scalabrin, S., Morgante, M., & Giorgi, F. M. ( 2013 ). An extensive evaluation of read trimming effects on Illumina NGS data analysis. PLoS One, 8 ( 12 ), e85024. https://doi.org/10.1371/journal.pone.0085024 | |
dc.identifier.citedreference | Dias, M. S., Oberdorff, T., Hugueny, B., Leprieur, F., Jézéquel, C., Cornu, J.-F., … Tedesco, P. A. ( 2014 ). Global imprint of historical connectivity on freshwater fish biodiversity. Ecology Letters, 17 ( 9 ), 1130 – 1140. https://doi.org/10.1111/ele.12319 | |
dc.identifier.citedreference | Diretoria de Geociências (IBGE/DGC) ( 2016 ). Falhas Geológicas da Folha SD.24 – Salvador. http://dados.gov.br/dataset/cren_geologiafalhasd24 | |
dc.identifier.citedreference | Diretoria de Geociências (IBGE/DGC). ( 2017 ). BC250 – Base cartográfica contínua do Brasil – 1:250 000. http://geoftp.ibge.gov.br/cartas_e_mapas/bases_cartograficas_continuas/bc250/versao2017 | |
dc.identifier.citedreference | Drummond, A. J., Suchard, M. A., Xie, D., & Rambaut, A. ( 2012 ). Bayesian phylogenetics with BEAUti and the BEAST 1.7. Molecular Biology and Evolution, 29 ( 8 ), 1969 – 1973. https://doi.org/10.1093/molbev/mss075 | |
dc.identifier.citedreference | Eaton, D. A. R. ( 2014 ). PyRAD: Assembly of de novo RADseq loci for phylogenetic analyses. Bioinformatics, 30 ( 13 ), 1844 – 1849. https://doi.org/10.1093/bioinformatics/btu121 | |
dc.identifier.citedreference | Edwards, S. V., & Beerli, P. ( 2000 ). Perspective: Gene divergence, population divergence, and the variance in coalescence time in phylogeographic studies. Evolution, 54 ( 6 ), 1839 – 1854. https://doi.org/10.1111/j.0014-3820.2000.tb01231.x | |
dc.identifier.citedreference | Excoffier, L., Dupanloup, I., Huerta-Sánchez, E., Sousa, V. C., & Foll, M. ( 2013 ). Robust demographic inference from genomic and SNP data. PLOS Genetics, 9 ( 10 ), e1003905. https://doi.org/10.1371/journal.pgen.1003905 | |
dc.identifier.citedreference | Excoffier, L., & Foll, M. ( 2011 ). Fastsimcoal: A continuous-time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios. Bioinformatics, 27 ( 9 ), 1332 – 1334. https://doi.org/10.1093/bioinformatics/btr124 | |
dc.identifier.citedreference | Frichot, E., Mathieu, F., Trouillon, T., Bouchard, G., & François, O. ( 2014 ). Fast and efficient estimation of individual ancestry coefficients. Genetics, 196 ( 4 ), 973 – 983. https://doi.org/10.1534/genetics.113.160572 | |
dc.identifier.citedreference | Fu, Y. X. ( 1997 ). Statistical tests of neutrality of mutations against population growth, hitchhiking and background selection. Genetics, 147 ( 2 ), 915 – 925. https://doi.org/10.1093/genetics/147.2.915 | |
dc.identifier.citedreference | Hales, J., & Petry, P. ( 2015 ). Northeastern Mata Atlantica ecoregion. http://www.feow.org/ecoregions/details/328 | |
dc.identifier.citedreference | Hughes, J. M., Schmidt, D. J., & Finn, D. S. ( 2009 ). Genes in streams: Using DNA to understand the movement of freshwater fauna and their riverine habitat. BioScience, 59 ( 7 ), 573 – 583. https://doi.org/10.1525/bio.2009.59.7.8 | |
dc.identifier.citedreference | Jarvis, A., Reuter, H. I., Nelson, A., & Guevara, E. ( 2008 ). Hole-filled seamless SRTM data V4. International Centre for Tropical Agriculture (CIAT). http://srtm.csi.cgiar.org | |
dc.identifier.citedreference | Knapp, I. S. S., Puritz, J., Bird, C., Whitney, J., Sudek, M., Forsman, Z., & Toonen, R. ( 2016 ). ezRAD – an accessible next-generation RAD sequencing protocol suitable for non-model organisms_v3.2. https://doi.org/10.17504/protocols.io.e9pbh5n | |
dc.identifier.citedreference | Lima, S. M., Berbel-Filho, W. M., Araújo, T. F., Lazzarotto, H., Tatarenkov, A., & Avise, J. C. ( 2017 ). Headwater capture evidenced by paleo-rivers reconstruction and population genetic structure of the armored catfish ( Pareiorhaphis garbei ) in the Serra do Mar mountains of southeastern Brazil. Frontiers in Genetics, 8, 199. https://doi.org/10.3389/fgene.2017.00199 | |
dc.identifier.citedreference | Lima, S. M. Q., Berbel-Filho, W. M., Vilasboa, A., Lazoski, C., Assis Volpi, T., Lazzarotto, H., … Solé-Cava, A. M. ( 2021 ). Rio de Janeiro and other palaeodrainages evidenced by the genetic structure of an Atlantic Forest catfish. Journal of Biogeography, 48 ( 6 ), 1475 – 1488. https://doi.org/10.1111/jbi.14091 | |
dc.identifier.citedreference | Lucas, M., & Baras, E. ( 2001 ). Migration of freshwater fishes. Blackwell Science Ltd. | |
dc.identifier.citedreference | Lynch, M. ( 2010 ). Evolution of the mutation rate. Trends in Genetics, 26 ( 8 ), 345 – 352. https://doi.org/10.1016/j.tig.2010.05.003 | |
dc.identifier.citedreference | Martins, L. R., & Coutinho, P. N. ( 1981 ). The Brazilian continental margin. Earth-Science Reviews, 17 ( 1–2 ), 87 – 107. https://doi.org/10.1016/0012-8252(81)90007-6 | |
dc.identifier.citedreference | Menezes, N. A., & Lima, F. C. T. ( 2008 ). Nematocharax venustus Weitzman, Menezes & Britski, 1986. In A. B. M. Machado, G. M. Drummond, & A. P. Paglia (Eds.), Livro Vermelho da Fauna Brasileira Ameaçada de Extinção. MMA, Brasília. | |
dc.identifier.citedreference | Menezes, N. A., Weitzman, S. H., Oyakawa, O. T., Lima, F. C. T. D., Correa e Castro, R. M., & Weitzman, M. J. ( 2017 ). Peixes de água doce da Mata Atl-ntica: Lista preliminar das espécies e comentários sobre conservação de peixes de água doce neotropicais. Museu de Zoologia da Universidade de São Paulo. | |
dc.identifier.citedreference | Menezes, N. A., Zanata, A. M., & Camelier, P. ( 2015 ). Nematocharax costai Bragança, Barbosa & Mattos a junior synonym of Nematocharax venustus Weitzman, Menezes & Britski (Teleostei: Characiformes: Characidae). Zootaxa, 3920 ( 3 ), 453 – 462. https://doi.org/10.11646/zootaxa.3920.3.4 | |
dc.identifier.citedreference | Miller, M. A., Pfeiffer, W., & Schwartz, T. ( 2010 ). Creating the CIPRES Science Gateway for inference of large phylogenetic trees. In: Proceedings of the Gateway Computing Environments Workshop. GCE, New Orleans | |
dc.identifier.citedreference | Nogueira, C., Buckup, P. A., Menezes, N. A., Oyakawa, O. T., Kasecker, T. P., Neto, M. B. R., & da Silva, J. M. C. ( 2010 ). Restricted-range fishes and the conservation of Brazilian freshwaters. PLoS One, 5 ( 6 ), e11390. https://doi.org/10.1371/journal.pone.0011390 | |
dc.identifier.citedreference | Oliveira, C., Avelino, G. S., Abe, K. T., Mariguela, T. C., Benine, R. C., Ortí, G., … Corrêa e Castro, R. M. ( 2011 ). Phylogenetic relationships within the speciose family Characidae (Teleostei: Ostariophysi: Characiformes) based on multilocus analysis and extensive ingroup sampling. BMC Evolutionary Biology, 11, 275. https://doi.org/10.1186/1471-2148-11-275 | |
dc.identifier.citedreference | Ollier, C., & Pain, C. ( 2000 ). The origin of mountains. Routledge. | |
dc.identifier.citedreference | QGIS Development Team. ( 2019 ). QGIS geographic information system, open source geospatial foundation. http://qgis.osgeo.org | |
dc.identifier.citedreference | Rambaut, A., Drummond, A. J., Xie, D., Baele, G., & Suchard, M. A. ( 2018 ). Posterior summarization in Bayesian phylogenetics using Tracer 1.7. Systematic Biology, 67 ( 5 ), 901 – 904. https://doi.org/10.1093/sysbio/syy032 | |
dc.identifier.citedreference | Rannala, B., Edwards, S. V., Leaché, A., & Yang, Z. ( 2020 ). The Multispecies Coalescent Model and Species Tree Inference. Chapter 3.3. In C. Scornavacca, F. Delsuc, & N. Galtier (Eds.), Phylogenetics in the genomic era. No commercial publisher, Authors open access book. https://hal.inria.fr/PGE | |
dc.identifier.citedreference | Ribeiro, A. C. ( 2006 ). Tectonic history and the biogeography of the freshwater fishes from the coastal drainages of eastern Brazil: An example of faunal evolution associated with a divergent continental margin. Neotropical Ichthyology, 4 ( 2 ), 225 – 246. https://doi.org/10.1590/S1679-62252006000200009 | |
dc.working.doi | NO | en |
dc.owningcollname | Interdisciplinary and Peer-Reviewed |
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