Published December 1, 2022 | Version v1
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A new taxonomist-curated reference library of DNA barcodes for Neotropical electric fish (Teleostei: Gymnotiformes)

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Janzen, Francesco H, Crampton, William G R, Lovejoy, Nathan R (2022): A new taxonomist-curated reference library of DNA barcodes for Neotropical electric fish (Teleostei: Gymnotiformes). Zoological Journal of the Linnean Society 196 (4): 1718-1742, DOI: 10.1093/zoolinnean/zlac039, URL: https://academic.oup.com/zoolinnean/article/196/4/1718/6598445

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References

  • Albert JS. 2001. Species diversity and phylogenetic systematics of American knifefishes (Gymnotiformes, Teleostei). Miscellaneous Publications Museum of Zoology University of Michigan 190: 1-127.
  • Albert JS, Crampton WGR. 2003. Seven new species of the Neotropical electric fish Gymnotus (Teleostei, Gymnotiformes) with a redescription of G. carapo (Linnaeus). Zootaxa 287: 1-54.
  • Albert JS, Tagliacollo VA, Dagosta F. 2020. Diversification of Neotropical freshwater fishes. Annual Review of Ecology, Evolution, and Systematics 51: 27-53.
  • April J, Mayden RL, Hanner RH, Bernatchez L. 2011. Genetic calibration of species diversity among North America's freshwater fishes. Proceedings of the National Academy of Sciences of the United States of America 108: 10602-10607.
  • Arnegard ME, Zwickl DJ, Lu Y, Zakon HH. 2010. Old gene duplication facilitates origin and diversification of an innovative communication system - twice. Proceedings of the National Academy of Sciences of the United States of America 107: 22172-22177.
  • Baker AM, Bartlett C, Bunn SE, Goudkamp K, Sheldon F, Hughes JM. 2003. Cryptic species and morphological plasticity in long-lived bivalves (Unionoida: Hyriidae) from inland Australia. Molecular Ecology 12: 2707-2717.
  • Bickford D, Lohman DJ, Sodhi NS, Ng PKL, Meier R, Winker K, Ingram KK, Das I. 2007. Cryptic species as a window on diversity and conservation. Trends in Ecology and Evolution 22: 148-155.
  • Bullock TH, Hopkins CD, Fay RR , eds. 2006 . Electroreception, Vol. 21. New York: Springer Science & Business Media.
  • Cardoso AL, Pieczarka JC, Crampton WG, Ready JS, de Figueiredo Ready W, Waddell JC, de Oliveira JA, Nagamachi CY. 2018. Karyotypic diversity and evolution in a sympatric assemblage of Neotropical electric knifefish. Frontiers in Genetics 9: 1-12.
  • Chakrabarty P. 2010. Genetypes: a concept to help integrate molecular phylogenetics and taxonomy. Zootaxa 2632: 67-68.
  • Chakrabarty P, Warren M, Page LM, Baldwin CC. 2013. GenSeq: an updated nomenclature and ranking for genetic sequences from type and non-type sources. ZooKeys 346: 29-41.
  • Chambers EA, Herbert PDN. 2016. Assessing DNA barcodes for species identification in North American reptiles and amphibians in natural history collections. Public Library of Science One 11: 1-15.
  • Chaves BRN, Chaves AV, Nascimento ACA, Chevitarese J, Vasconcelos MF, Santos FR. 2015. Barcoding Neotropical birds: assessing the impact of nonmonophyly in a highly diverse group. Molecular Ecology Resources 15: 921-931.
  • Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. 2016. GenBank. Nucleic Acids Research 44: D67-D72.
  • Collins RA, Cruickshank RH. 2012. The seven deadly sins of DNA barcoding. Molecular Ecology Resources 13: 969-975.
  • Cook BD, Page TJ, Hughes JM. 2008. Importance of cryptic species for identifying 'representative' units of biodiversity for freshwater conservation. Biological Conservation 141: 2821-2831.
  • Crampton WGR. 2019. Electroreception, electrogenesis and electric signal evolution. Journal of Fish Biology 95: 92-134.
  • Crampton WGR , Lovejoy NR, Waddell JC. 2011. Reproductive character displacement and signal ontogeny in a sympatric assemblage of electric fish. Evolution; International Journal of Organic Evolution 65: 1650-1666.
  • DeSalle R, Goldstein P. 2019. Review and interpretation of trends in DNA barcoding. Frontiers in Ecology and Evolution 7: 302.
  • Edwards M, Morse DR. 1995. The potential for computeraided identification in biodiversity research. Trends in Ecology and Evolution 10: 153-158.
  • Ferraris CJ Jr, de Santana CD, Vari RP. 2017. Checklist of Gymnotiformes (Osteichthyes: Ostariophysi) and catalogue of primary types. Neotropical Ichthyology 15: e160067.
  • Fricke R, Eschmeyer WN, Van der Laan R. 2022. Eschmeyer's catalog of fishes: genera, species, references. California Academy of Sciences (electronic version accessed 28 Feb 2022). https://researcharchive.calacademy.org/ research/ichthyology/catalog/fishcatmain.asp.
  • Gallant JR. 2019. The evolution and development of electric organs. In: Carlson BA, Sisneros JA, Popper AN, Fay RR, eds. Electroreception: Fundamental Insights from Comparative Approaches. Cham, Switzerland: Springer, 91-123.
  • Grella MD, Savino AG, Paulo DF, Mendes FM, Azeredo- Espin AML, Queiroz MMC, Thyssen PJ, Linhares AX. 2015. Phenotypic polymorphism of Chrysomya albiceps (Wiedemann) (Diptera: Calliphoridae) may lead to species misidentification. Acta Tropica 141: 60-72.
  • Herbert PDN, Gregory TR. 2005. The promise of DNA barcoding for taxonomy. Systematic Biology 54: 852-859.
  • Herbert PDN, Cywinska A, Ball SL, deWaard JR. 2003. Biological identifications through DNA barcodes. Proceedings of the Royal Society B: Biological Sciences 270: 313-321.
  • Herbert PDN, Stoeckle MY, Zemlak TS, Francis CM. 2004. Identification of birds through DNA barcodes. Public Library of Science Biology 2: 1657-1663.
  • Hugenholtz P, Tyson GW. 2008. Metagenomics. Nature 455: 481-483.
  • Kearse M, Moir R, Wilson A, Stones-Havas S, Cheung M, Sturrock S, Buxton S, Cooper A, Markowitz S, Duran C, Thierer T, Ashton B, Mentjies P, Drummond A. 2012. Geneious basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data. Bioinformatics 28: 1647-1649.
  • Krahe R, Maler L. 2014. Neural maps in the electrosensory system of weakly electric fish. Current Opinion in Neurobiology 24: 13-21.
  • Larsen KJ, Nault LR. 1994. Seasonal polyphenism of adult Dalbulus leafhoppers (Homoptera: Cicadellidae). Annals of the Entomological Society of America 87: 355-362.
  • Li X, Shen X, Chen X, Xiang D, Murphy RW, Shen Y. 2018. Detection of potential problematic Cytb gene sequences of fishes in GenBank. Frontiers in Genetics 9: 1-5.
  • Meiklejohn KA, Damaso N, Robertson JM. 2019. Assessment of BOLD and GenBank-Their accuracy and reliability for the identification of biological materials. Public Library of Science One 14: e0217084.
  • Meusnier I, Singer GA, Landry JF, Hickey DA, Hebert PD, Hajibabaei M. 2008. A universal DNA mini-barcode for biodiversity analysis. BMC Genomics 9: 1-4.
  • Meyer CP, Paulay G. 2005. DNA barcoding: error rates based on comprehensive sampling. Public Library of Science Biology 3: e422.
  • Milhomem SS, Scacchetti PC, Pieczarka JC, Ferguson- Smith MA, Pansonato-Alves JC, O'Brien PCM , Foresti F, Nagamachi CY. 2013. Are NORs always located on homeologous chromosomes? A FISH investigation with rDNA and whole chromosome probes in Gymnotus fishes (Gymnotiformes). Public Library of Science One 8: e55608.
  • Pentinsaari M, Ratnasingham S, Miller SE, Hebert PD. 2020. BOLD and GenBank revisited-Do identification errors arise in the lab or in the sequence libraries? Public Library of Science One 15: e0231814.
  • Pereira LH, Hanner R, Foresti F, Oliveira C. 2013. Can DNA barcoding accurately discriminate megadiverse Neotropical freshwater fish fauna? BioMed Central Genetics 14: 1-14.
  • Picq S, Alda F, Bermingham E, Krahe R. 2016. Driftdriven evolution of electric signals in a Neotropical knifefish. Evolution 70: 2134-2144.
  • Puillandre N, Lambert A, Brouillet S, Achaz GJME. 2012. ABGD, Automatic Barcode Gap Discovery for primary species delimitation. Molecular Ecology 21: 1864-1877.
  • Ratnasingham S, Herbert PDN. 2007. BOLD: The Barcode of Life Data System (www.barcodinglife.org). Molecular Ecology Notes 7: 355-364.
  • Rimet F, Gusev E, Kahlert M, Kelly MG, Kulikovskiy M, Maltsev Y, Mann DG, Pfannkuchen M, Trobajo R, Vasselon V, Zimmermann J, Bouchez A. 2019. Diat. barcode, an open-access curated barcode library for diatoms. Scientific Reports 9: 1-12.
  • Seah YG, Ariffin AF, Jaafar TNAM. 2017. Levels of COI divergence in family Leiognathidae using sequences available in GenBank and BOLD Systems:a review on the accuracy of public databases. Aquaculture, Aquarium, Conservation & Legislation - International Journal of the Bioflux Society 10: 391-401.
  • Shea CP, Peterson JT, Wisniewski JM, Johnson NA. 2011. Misidentification of freshwater mussel species (Bivalvia: Unionidae): contributing factors, management implications, and potential solutions. Journal of the North American Benthological Society 30: 446-458.
  • Shen YY, Chen X, Murphy RW. 2013. Assessing DNA barcoding as a tool for species identification and data quality control. Public Library of Science One 8: 1-5.
  • Valentini A, Pompanon F, Taberlet P. 2009. DNA barcoding for ecologists. Trends in Ecology & Evolution 24: 110-117.
  • Vences M, Thomas M, van der Meijden A, Chiari Y, Vieites DR. 2005. Comparative performance of the 16S rRNA gene in DNA barcoding of amphibians. Frontiers of Zoology 2: 1-12.
  • Waddell JC, Crampton WGR. 2022. Reproductive effort and terminal investment in a multispecies assemblage of Amazon electric fish. Ecological Monographs 92: e1499.
  • Waddell JC, Njeru SM, Akhiyat YM, Schachner BI, Correa-Roldan EV, Crampton WG. 2019. Reproductive life-history strategies in a species-rich assemblage of Amazonian electric fishes. The Public Library of Science One 14: e0226095.
  • Ward RD. 2009. DNA barcode divergence among species and genera of birds and fishes. Molecular Ecology Resources 9: 1077-1085.
  • Ward RD, Zemlak TS, Innes BH, Last PR, Herbert PDN. 2005. DNA barcoding Australia's fish species. Philosophical Transactions of the Royal Society B 360: 1847-1857.
  • Ward RD, Hanner R, Herbert PDN. 2009. The campaign to DNA barcode all fishes, FISH-BOL. Journal of Fish Biology 74: 329-356.
  • Yacoub HA, Fathi MM, Sadek MA. 2015. Using cytochrome b gene of mtDNA as a DNA barcoding marker in chicken strains. Mitochondrial DNA 26: 217-223.