Published April 25, 2019 | Version v1
Journal article Open

Genetic diversity and population structure of Brycon nattereri (Characiformes: Bryconidae): a Neotropical fish under threat of extinction

Description

Galindo, Bruno A., Ferreira, Dhiego G., Apolinário-Silva, Caroline, Terra, Mariana C., Aprígio, Nícollas G. O., Ota, Renata R., Ohara, Willian M., Almeida, Fernanda S., Sofia, Silvia H. (2019): Genetic diversity and population structure of Brycon nattereri (Characiformes: Bryconidae): a Neotropical fish under threat of extinction. Neotropical Ichthyology 17 (1): 1-10, DOI: 10.1590/1982-0224-20180071

Files

source.pdf

Files (3.4 MB)

Name Size Download all
md5:46a3b7374b2567283611e69770b25d79
3.4 MB Preview Download

Linked records

Additional details

Identifiers

LSID
urn:lsid:plazi.org:pub:FFA3B7374B2567283611FF97FFB25D79

References

  • Agencia Nacional de Energia Eletrica. Relatorio de Acompanhamento de Estudos e Projetos de Usinas Hidreletricas; 2015 [cited 2018 Sep 18]. Available from: http://www.aneel.gov.br/ area.cfm?idArea=428
  • Agostinho AA, Thomaz SM, Gomes LC. Conservation of the biodiversity of Brazil's inland waters. Conserv Biol [serial on the internet]. 2005; 19(3):646-52. Available from: http://dx.doi. org/10.1111/j.1523-1739.2005.00701.x
  • Allendorf FW, Luikart GH, Aitken SN, editors. Conservation and the Genetics of Populations. Oxford: Wiley Blackwell Publishing; 2012.
  • Almeida FS, Fungaro MHP, Sodre LMK. RAPD and isoenzyme analysis of genetic variability in three allied species of catfish (Siluriformes: Pimelodidae) from the Tibagi River, Brazil. J Zool [serial on the internet]. 2001; 253(1):113-20. Available from: https://doi.org/10.1017/S0952836901000103
  • Ashikaga FY, Orsi ML, Oliveira C, Senhorini JA, Foresti F. The endangered species Brycon orbignyanus: genetic analysis and definition of priority areas for conservation. Environ Biol Fish [serial on the Internet]. 2015; 98(7):1845-55. Available from: https://doi.org/10.1007/s10641-015-0402-8
  • Bandelt HJ, Forster P, Rohl A. Median-joining networks for inferring intraspecific phylogenies. Mol Biol Evol [serial on the Internet]. 1999; 16(1):37-48. Available from: https://doi. org/10.1093/oxfordjournals.molbev.a026036
  • Barroso RM, Hilsdorf AWS, Moreira HLM, Cabello PH, Traub- Cseko YM. Genetic diversity of wild and cultured populations of Brycon opalinus (Cuvier, 1819) (Characiforme, Characidae, Bryconiae) using microsatellites. Aquaculture [serial on the Internet]. 2005; 247(1-4):51-65. Available from: https://doi. org/10.1016/j.aquaculture.2005.02.004
  • Barroso RM, Hilsdorf AWS, Moreira HLM, Mello AM, Guimaraes SEF, Cabello PH, Traub-Cseko YM. Identification and characterization of microsatellites loci in Brycon opalinus (Cuvier, 1819) (Characiformes, Characidae, Bryconinae). Mol Ecol Notes [serial on the Internet]. 2003; 3(2):297-98.Available from: https://doi.org/10.1046/j.1471-8286.2003.00435.x
  • Beaumont MA, Rannala B. The Bayesian revolution in genetics. Nat Rev Genet [serial on the Internet]. 2004; 5:251-61. Available from: https://doi.org/10.1038/nrg1318
  • Belei F, Sampaio WMS. Ictiofauna do rio Lourenco Velho, afluente do rio Grande: pequena diversidade, grande importancia para a conservacao de uma especie ameacada. Evol Conserv Biodivers. 2012; 3(1):14-27.
  • Britto SGC, Sirol RN, Vianna NC, Jardim SM, Santos JC, Pelisari E. Peixes do rio Paranapanema. Sao Paulo: Duke Energy; 2003.
  • Casarim R, Bueno ML, Pompeu PS. Ichthyofauna of the Aiuruoca River basin, Minas Gerais, Brazil. Check List [serial on the Internet]. 2012; 8(6):1166-71. Available from: http://dx.doi. org/10.15560/8.6.1166
  • Cassone BJ, Boulding EG. Genetic structure and phylogeography of the lined shore crab, Pachygrapsus crassipes, along the northeastern and western Pacific coasts. Mar Biol [serial on the Internet]. 2006; 149(2):213-26. Available from: https://link. springer.com/article/10.1007/s00227-005-0197-9
  • Cornuet JM, Luikart G. Description and power analysis of two tests for detecting recent population bottlenecks from allele frequency data. Genetics. 1996; 144(4):2001-14.
  • Cronin MA, Spearman WJ, Wilmot RL, Patton JC, Bickham JW. Mitochondrial DNA variation in chinook (Oncorhynchus tshawytscha) and chum salmon (O. keta) detected by restriction enzyme analysis of polymerase chain reaction (PCR) products. Can J Fish Aquat Sci [serial on the Internet]. 1993; 50(4):708- 15. Available from: https://doi.org/10.1139/f93-081
  • Earl DA, von Holdt BM. STRUCTURE HARVESTER: A website and program for visualizing STRUCTURE output and implementing the Evanno method. Conserv Genet Resour [serial on the Internet]. 2012; 4(2):359-61. Available from: http://dx.doi.org/10.1007/s12686-011-9548-7
  • Estoup A, Angers B. Microsatellites and mini satellites for molecular ecology: theoretical and experimental considerations. In: Carvallo GR, editor. Advances in molecular ecology. Amsterdam: NATO Press; 1998. p.55-86.
  • Evanno G, Regnaut S, Goudet DJ. Detecting the number of clusters of individuals using the software structure: A simulation study. Mol Ecol [serial on the Internet].2005; 14(8):2611-20.Available from: https://doi.org/10.1111/j.1365-294X.2005.02553.x
  • Excoffier L, Lischer HEL. Arlequin suite ver 3.5: A new series of programs to perform population genetics analyses under Linux and Windows. Mol Ecol Resour [serial on the Internet]. 2010; 10(3):564-67. Available from: https://doi.org/10.1111/j.1755- 0998.2010.02847.x
  • Ferreira DG, Galindo BA, Frantine-Silva W, Almeida FS, Sofia SH. Genetic structure of a Neotropical sedentary fish revealed by AFLP, microsatellite and mtDNA markers: a case study. Conserv Genet [serial on the Internet]. 2015; 16(1):151-66. Available from: https://link.springer.com/article/10.1007%2 Fs10592-014-0648-2
  • Frankham R, Ballou JD, Briscoe DA. Introduction to conservation genetics. 2nd ed. Cambridge: Cambridge University Press; 2010.
  • Freeland JR. Molecular ecology. Chichester: John Wiley & Sons Ltd; 2005.
  • Frota A, Depra GC, Petenucci LM, Graca WJ. Inventory of the fish fauna from Ivai River basin, Parana State, Brazil.Biota Neotropica [serial on the Internet]. 2016; 16(3):e20150151. Available from: http://dx.doi.org/10.1590/1676-0611-BN-2015-0151
  • Fu YX. Statistical test of neutrality of mutations against population growth, hitchhiking d background selection. Genetics. 1997; 147(2):915-25.
  • Galindo BA. Diversidade de peixes do rio Laranjinha - alto rio Parana. [PhD Thesis]. Londrina, PR: Universidade Estadual de Londrina; 2014.
  • Gomiero LM, Braga FMDS. Reproduction of Pirapitinga do Sul (Brycon opalinus Cuvier, 1819) in the Parque Estadual da Serra do Mar-Nucleo Santa Virginia, Sao Paulo, Brazil. Braz J Biol [serial on the internet]. 2007; 67(3):541-49. Available from: http://dx.doi.org/10.1590/S1519-69842007000300021
  • Gomiero LM, Manzatto AG, Braga FMDS. The role of riverine forests for food supply for the omnivorous fish Brycon opalinus Cuvier, 1819 (Characidae) in the Serra do Mar, Southeast Brazil. Braz J Biol [serial on the internet]. 2008; 68(2):321-28. Available from: http://dx.doi.org/10.1590/ S1519-69842008000200013
  • Goudet J. FSTAT, a program to estimate and test gene diversities and fixation indices (version 2.9.3). 2001 [cited 2017 Sep 9]; Available from: http://www.unil.ch/izea/softwares/fstat.html
  • Grant WAS, Bowen BW. Shallow population histories in deep evolutionary lineages of marine fishes: insights from sardines and anchovies and lessons for conservation. J Hered [serial on the internet]. 1998; 89(5):415-26. Available from: https://doi. org/10.1093/jhered/89.5.415
  • Hall TA. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucl Acid S. 1999; 41:95-98.
  • Hilsdorf AWS, Azeredo-Espin AML, Krieger MH, Krieger JE. Mitochondrial DNA diversity in wild and cultured populations of Brycon opalinus (Cuvier, 1819) (Characiformes, Characidae, Bryconinae) from the Paraiba do Sul Basin, Brazil.Aquaculture [serial on the internet]. 2002; 214(1-4):81-91. Available from: https://doi.org/10.1016/S0044-8486(02)00132-1
  • Hoffmann AC, Orsi ML, Shibatta OA. Fish diversity in the UHE Escola Engenharia Mackenzie (Capivara) reservoir, Paranapanema River, upper Rio Parana basin, Brazil, and the importance of large tributaries in its maitenance. Iheringia Ser Zool [serial on the internet]. 2005; 95(3):319-25. Available from: http://dx.doi.org/10.1590/S0073-47212005000300012
  • Instituto Chico Mendes de Conservacao da Biodiversidade (Org.). Livro Vermelho da Fauna Brasileira Ameacada de Extincao: Volume VI - Peixes. Brasilia: ICMBio; 2018.
  • Librado P, Rozas J. DnaSP v5: A software for comprehensive analysis of DNA polymorphism data. Bioinformatics. 2009; 25(11):1451-52.
  • Lima FCT. A revision of the cis-andean species of the genus Brycon Muller & Troschel (Characiformes: Characidae). Zootaxa. 2017; 4222(1):1-189.
  • Lima FCT, Albrecht MP, Pavanelli CS, Vono V. Threatened fishes of the world: Brycon nattereri Gunther, 1864 (Characidae). Environ Biol Fish [serial on the internet]. 2008; 83(2):207-8. Available from: http://dx.doi.org/10.1007/s10641-007-9319-1
  • Lopez L. Genetic variability and population structure of dorada (Brycon moorei sinuensis Dahl) in the Sinu River, Cordoba, Colombia. Lakes Reserv Res Manag [serial on the internet]. 2006; 11(1):1-7. Available from: https://doi.org/10.1111/ j.1440-1770.2006.00289.x
  • Lopes CM,Almeida FS,Orsi ML,Britto SGC,Sirol RN,Sodre LMK. Fish passage ladders from Canoas Complex - Paranapanema River: evaluation of genetic structure maintenance of Salminus brasiliensis (Teleostei: Characiformes). Neotrop Ichthyol [serial on the internet]. 2007; 5(2):131-38. Available from: http://dx.doi.org/10.1590/S1679-62252007000200006
  • Luikart G, Allendorf FW, Cornuet JM, Sherwin WB. Distortion of allele frequency distributions provides a test for recent population bottlenecks. J Hered [serial on the internet]. 1998; 89(3):238-47. Available from: https://doi.org/10.1093/ jhered/89.3.238
  • Luikart G, Cornuet JM. Empirical evaluation of a test for identifying recently bottlenecked populations from allele frequency data. Conserv Biol [serial on the internet]. 1998; 12(1):228-37. Available from: https://doi.org/10.1111/j.1523- 1739.1998.96388.x
  • Matsumoto CK, Hilsdorf AWS. Microsatellite variation and population genetic structure of a Neotropical endangered Bryconinae species Brycon insignis Steindachner, 1877: Implications for its conservation sustainable management. Neotrop Ichthyol [serial on the internet]. 2009; 7(3):395- 402. Available from: http://dx.doi.org/10.1590/S1679- 62252009000300006
  • McCusker MR, Bentzen P. Positive relationships between genetic diversity and abundance in fishes. Mol Ecol [serial on the internet]. 2010; 19(22):4852-62. Available from: https://doi. org/10.1111/j.1365-294X.2010.04822.x
  • Meyer A, Kocher TD, Basasibwaki P, Wilson AC. Monophyletic origin of Lake Victoria cichlid fishes suggested by mitochondrial DNA sequences. Nature [serial on the internet]. 1990; 347:550- 53. Available from: https://dx.doi.org/10.1038/347550a0
  • Mikich SB, Bernils RS. Livro Vermelho da Fauna Ameacada no Estado do Parana. Curitiba: Instituto Ambiental do Parana; 2004.
  • Oyakawa TO, Menezes NA, Shibatta OA, Lima FCT, Langeani F, Pavanelli CS, Nielsen DTB, Hilsdorf AWS. Peixes de agua doce. In: Bressan PM, Kierulf MCM, Sugieda AM, editors. Fauna ameacada de extincao no Estado de Sao Paulo: vertebrados. Sao Paulo: Fundacao Parque Zoologico de Sao Paulo; 2009. p.349-424.
  • Pavanelli CS, Graca WJ, Zawadzki CH, Britski HA, Vidotti AP, Avelino GS, Verissimo S. Fishesfromthe Corumba Reservoir, Paranaiba River drainage, upper Parana River basin, State of Goias, Brazil. Check List [serial on the internet]. 2007; 3(1):58-64. Available from: http://dx.doi.org/10.15560/3.1.58
  • Piry S, Luikart G, Cornuet JM. BOTTLENECK: A computer program for detecting recent reductions in the effective population size using allele frequency data. J Hered [serial on the internet]. 1999; 90(4):502-03. Available from: https://doi. org/10.1093/jhered/90.4.502
  • Pompeu PS, Reis LS, Gandini CV, Souza RCR, Favero JM. The ichthyofauna of upper rio Capivari: defining conservation strategies based on the composition and distribution of fish species. Neotrop Ichthyol [serial on the internet]. 2009; 7(4):659-66. Available from: http://dx.doi.org/10.1590/S1679- 62252009000400015
  • Pritchard JK, Stephens M, Donnelly P. Inference of population structure using multi locus genotype data. Genetics. 2000; 155(2):945-59.
  • Raymond M, Rousset F. GENEPOP (version 1.2): population genetics software for exact tests and ecumenicism. J Hered. 1995; 86(3):248-49.
  • Reed DH, Briscoe DA, Frankham R. Inbreeding and extinction: the effect of environmental stress and lineage. Conserv Genet [serial on the internet]. 2002; 3(3):301-7. Available from: https://doi.org/10.1023/A:1019948130263
  • Rice WR. Analyzing tables of statistical tests. Evolution [serial on the internet]. 1989; 43(1):223-25. Available from: http://dx.doi. org/10.2307/2409177
  • Rogers AR, Harpending H. Population growth makes waves in the distribution of pairwise genetic differences. Mol Biol Evol [serial on the internet]. 1992; 9(3):552-69. Available from: https://doi.org/10.1093/oxfordjournals.molbev.a040727
  • Rosa RS, Lima FCT. Peixes. In: Machado ABM, Drummond GM, Paglia AP, editors. Livro vermelho da fauna brasileira ameacada de extincao. Belo Horizonte: Fundacao Biodiversitas; 2008.
  • Rosenberg NA. DISTRUCT: A program for the graphical display of population structure. Mol Ecol Notes [serial on the internet]. 2004; 4(1):137-38. Available from: https://doi.org/10.1046/ j.1471-8286.2003.00566.x
  • Sanches A, Galetti-Jr PM. Microsatellites loci isolated in the freshwater fish Brycon hilarii. Mol Ecol Notes [serial on the internet]. 2006; 6(4):1045-46. Available from: https://doi. org/10.1111/j.1471-8286.2006.01427.x
  • Sanches A, Galetti-Jr PM. Genetic evidence of population substructuring in the freshwater fish Brycon hilarii. Braz J Biol [serial on the internet]. 2007; 67(4):889-95. Available from: http://dx.doi.org/10.1590/S1519-69842007000500012
  • Sanches A, Galetti-Jr PM. Population genetic structure revealed by a school of the freshwater migratory fish, Brycon hilarii. Lat Am J Aquat Res [serial on the internet]. 2012; 40(2):408-17. Available from: http://dx.doi.org/10.3856/vol40-issue2-fulltext-15
  • Sanches A, Galetti-Jr PM, Galzerani F, Derazo J, Cutilak-Bianchi B, Hatanaka T. Genetic population structure of two migratory freshwater fish species (Brycon orthotaenia and Prochilodus argenteus) from the Sao Francisco River in Brazil and its significance for conservation. Lat Am J Aquat Res [serial on the internet]. 2012; 40(1):177-86. Available from: http://doi. org/10.3856/vol40-issue1-fulltext-17
  • Santos MCF, Ruffino ML, Farias IP.High levels of genetic variability and panmixia of the tambaqui Colossoma macropomum (Cuvier, 1816) in the main channel of the Amazon River. J Fish Biol [serial on the internet]. 2007; 71:33-44. Available from: https://doi.org/10.1111/j.1095-8649.2007.01514.x
  • Schuelke M. An economic method for the fluorescent labelling of PCR fragments. Nat Biotechnol [serial on the internet]. 2000; 18(2):233-34. Available from: http://dx.doi.org/10.1038/72708
  • Shibatta OA, Gealh AM, Bennemann ST. Ictiofauna dos trechos alto e medio da bacia do rio Tibagi, Parana, Brasil. Biota Neotrop [serial on the Internet]. 2007; 7(2):125-34. Available from: http://www.biotaneotropica.org.br/v7n2/pt/ abstract?article+bn02107022007
  • Slatkin M, Hudson RR. Pair wise comparisons of mitochondrial DNA sequences in stable and exponentially growing populations. Genetics. 1991; 129(2):555-62.
  • Tajima F. Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics. 1989; 123(3):585-95.
  • Thompson JD, Higgins DG, Gibson TJ. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acid Res. 1994; 22(22):4673- 80.
  • Van Oosterhout C, Hutchinson WF, Wills DPM, Shipley P. MICRO-CHECKER: software for identifying and correcting genotyping errors in microsatellite data. Mol Ecol Notes [serial on the internet]. 2004; 4(3):535-38. Available from: http:// dx.doi.org/10.1111/j.1471-8286.2004.00684.x
  • Viana D, Zawadzki CH, Oliveira EF, Vogel HF, Graca WJ. Structure of the ichthyofauna of the Bonito River, Ivai River basin, upper Parana River system, Brazil. Biota Neotrop [serial on the Internet]. 2013; 13(2):218-26. Available from: http:// dx.doi.org/10.1590/S1676-06032013000200021
  • Vianna NC, Nogueira MG. Ichthyoplankton and limnological factors in the Cinzas River - an alternative spawning site for fishes in the middle Paranapanema River basin, Brazil. Acta Limnol Bras. 2008; 20(2):139-51.
  • Vieira F, Santos GB, Alves CBM. A ictiofauna do Parque Nacional da Serra do Cipo (Minas Gerais, Brasil) e areas adjacentes. Lundiana. 2005; 6:77-87.
  • Vitorino Junior OB, Lopes KS, Pelicice FM. Abundancia e estrutura de comprimento de Brycon nattereri (Osteichthyes, Bryconidae), uma especie de peixe ameacada do Brasil central. Acta Sci Biol Sci. 2014; 36(4):421-25.
  • Wu FQ, Shen SK, Zhang XJ, Wang YH, Sun WB. Genetic diversity and population structure of an extremely endangered species: the world's largest Rhododendron. AoB Plants [serial on the Internet]. 2015; 7:plu082. Available from: https://doi. org/10.1093/aobpla/plu082
  • Yeh FC, Yang RC, Boyle TBJ. POPGENE (version 1.32): Microsoft Windows-based freeware for population genetic analysis. Edmonton: University of Alberta; 1999.