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Title: Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
Authors: Vialle, Ricardo Assunção
Souza, Jorge Estefano Santana de
Lopes, Katia de Paiva
Teixeira, Diego Gomes
Alves Sobrinho, Pitágoras de Azevedo
Ribeiro-dos-Santos, André M.
Furtado, Carolina
Sakamoto, Tetsu
Silva, Fábio Augusto Oliveira
Oliveira, Edivaldo Herculano Corrêa de
Hamoy, Igor Guerreiro
Assumpção, Paulo Pimentel
Ribeiro-dos-Santos, Ândrea
Lima, João Paulo Matos Santos
Seuánez, Héctor N.
Souza, Sandro José de
Santos, Sidney
Keywords: Arapaima gigas;Pirarucu;Osteoglossomorpha;Teleostei;Genome sequencing;Phylogenomics
Issue Date: 5-Jul-2018
Citation: VIALLE, R. A. et al. Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades, Genome Biology and Evolution, evy130, jul. 2018.
Portuguese Abstract: The Pirarucu (Arapaima gigas) is one of the world's largest freshwater fishes and member of the superorder Osteoglossomorpha (bonytongues), one of the oldest lineages of ray-finned fishes. This species is an obligate air-breather found in the basin of the Amazon River with an attractive potential for aquaculture. Its phylogenetic position among bony fishes makes the Pirarucu a relevant subject for evolutionary studies of early teleost diversification. Here, we present, for the first time, a draft genome version of the A. gigas genome, providing useful information for further functional and evolutionary studies. The A. gigas genome was assembled with 103 Gb raw reads sequenced in an Illumina platform. The final draft genome assembly was approximately 661 Mb, with a contig N50 equal to 51.23 kb and scaffold N50 of 668 kb. Repeat sequences accounted for 21.69% of the whole genome, and a total of 24,655 protein-coding genes were predicted from the genome assembly, with an average of 9 exons per gene. Phylogenomic analysis based on 24 fish species supported the postulation that Osteoglossomorpha and Elopomorpha (eels, tarpons and bonefishes) are sister groups, both forming a sister lineage with respect to Clupeocephala (remaining teleosts). Divergence time estimations suggested that Osteoglossomorpha and Elopomorpha lineages emerged independently in a period of approximately 30 million years in the Jurassic. The draft genome of A. gigas provides a valuable genetic resource for further investigations of evolutionary studies and may also offer a valuable data for economic applications.
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