Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades

Vialle, Ricardo Assun??o; Souza, Jorge Estefano Santana de; Lopes, Katia de Paiva; Teixeira, Diego Gomes; Alves Sobrinho, Pit?goras de Azevedo; Ribeiro-dos-Santos, Andr? M; Furtado, Carolina; Sakamoto, Tetsu; Silva, F?bio Augusto Oliveira; Oliveira, Edivaldo Herculano Correa de; Hamoy, Igor Guerreiro; Assump??o, Paulo Pimentel; Ribeiro-dos-Santos, ?ndrea; Lima, Jo?o Paulo Mattos Santos; Seu?nez, H?ctor N; Souza, Sandro Jos? de; Santos, Sidney

Artigo

Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades

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 fo...

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Autor principal:	Vialle, Ricardo Assun??o
Outros Autores:	Souza, Jorge Estefano Santana de, Lopes, Katia de Paiva, Teixeira, Diego Gomes, Alves Sobrinho, Pit?goras de Azevedo, Ribeiro-dos-Santos, Andr? M, Furtado, Carolina, Sakamoto, Tetsu, Silva, F?bio Augusto Oliveira, Oliveira, Edivaldo Herculano Correa de, Hamoy, Igor Guerreiro, Assump??o, Paulo Pimentel, Ribeiro-dos-Santos, ?ndrea, Lima, Jo?o Paulo Mattos Santos, Seu?nez, H?ctor N, Souza, Sandro Jos? de, Santos, Sidney
Grau:	Artigo
Idioma:	eng
Publicado em:	Oxford University Press 2018
Assuntos:	Peixes / anatomia & histologia Peixes / gen?tica Genoma / fisiologia Mapeamento Cromoss?mico / m?todos Bacia do Rio Amazonas (BR) Pirarucu Arapaima gigas
Acesso em linha:	http://patua.iec.gov.br//handle/iec/3515

id	ir-iec-3515
recordtype	dspace
spelling	ir-iec-35152019-08-09T14:06:08Z Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades Vialle, Ricardo Assun??o Souza, Jorge Estefano Santana de Lopes, Katia de Paiva Teixeira, Diego Gomes Alves Sobrinho, Pit?goras de Azevedo Ribeiro-dos-Santos, Andr? M Furtado, Carolina Sakamoto, Tetsu Silva, F?bio Augusto Oliveira Oliveira, Edivaldo Herculano Correa de Hamoy, Igor Guerreiro Assump??o, Paulo Pimentel Ribeiro-dos-Santos, ?ndrea Lima, Jo?o Paulo Mattos Santos Seu?nez, H?ctor N Souza, Sandro Jos? de Santos, Sidney Peixes / anatomia & histologia Peixes / gen?tica Genoma / fisiologia Mapeamento Cromoss?mico / m?todos Bacia do Rio Amazonas (BR) Pirarucu Arapaima gigas 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 ?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 nine 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 ?30 Myr 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. This work was supported by Rede de Pesquisa em Gen?mica Populacional Humana (RPGPH)?3381/2013 CAPES-BioComputacional; FADESP/PROPESP/UFPA (Universidade Federal do Par?); and CNPq (Conselho Nacional de Desenvolvimento Cient?fico e Tecnol?gico). It was also supported by CNPq/Produtividade grant 304413/2015-1 to A.R.S. and CNPq/Produtividade grant 305258/2013-3 to S.S. 2018-10-22T13:40:27Z 2018-10-22T13:40:27Z 2018 Artigo VIALLE, Ricardo Assun??o et al. Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades. Genome Biology and evolution, v. 10, n. 9, p. 2366-2379, Sept. 2018. 1759-6653 http://patua.iec.gov.br//handle/iec/3515 10.1093/gbe/evy130 eng Acesso Aberto application/pdf Oxford University Press
institution	Instituto Evandro Chagas (IEC)
collection	PATUA
language	eng
topic	Peixes / anatomia & histologia Peixes / gen?tica Genoma / fisiologia Mapeamento Cromoss?mico / m?todos Bacia do Rio Amazonas (BR) Pirarucu Arapaima gigas
spellingShingle	Peixes / anatomia & histologia Peixes / gen?tica Genoma / fisiologia Mapeamento Cromoss?mico / m?todos Bacia do Rio Amazonas (BR) Pirarucu Arapaima gigas Vialle, Ricardo Assun??o Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
topic_facet	Peixes / anatomia & histologia Peixes / gen?tica Genoma / fisiologia Mapeamento Cromoss?mico / m?todos Bacia do Rio Amazonas (BR) Pirarucu Arapaima gigas
description	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 ?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 nine 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 ?30 Myr 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.
format	Artigo
author	Vialle, Ricardo Assun??o
author2	Souza, Jorge Estefano Santana de Lopes, Katia de Paiva Teixeira, Diego Gomes Alves Sobrinho, Pit?goras de Azevedo Ribeiro-dos-Santos, Andr? M Furtado, Carolina Sakamoto, Tetsu Silva, F?bio Augusto Oliveira Oliveira, Edivaldo Herculano Correa de Hamoy, Igor Guerreiro Assump??o, Paulo Pimentel Ribeiro-dos-Santos, ?ndrea Lima, Jo?o Paulo Mattos Santos Seu?nez, H?ctor N Souza, Sandro Jos? de Santos, Sidney
author2Str	Souza, Jorge Estefano Santana de Lopes, Katia de Paiva Teixeira, Diego Gomes Alves Sobrinho, Pit?goras de Azevedo Ribeiro-dos-Santos, Andr? M Furtado, Carolina Sakamoto, Tetsu Silva, F?bio Augusto Oliveira Oliveira, Edivaldo Herculano Correa de Hamoy, Igor Guerreiro Assump??o, Paulo Pimentel Ribeiro-dos-Santos, ?ndrea Lima, Jo?o Paulo Mattos Santos Seu?nez, H?ctor N Souza, Sandro Jos? de Santos, Sidney
title	Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
title_short	Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
title_full	Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
title_fullStr	Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
title_full_unstemmed	Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades
title_sort	whole genome sequencing of the pirarucu (arapaima gigas) supports independent emergence of major teleost clades
publisher	Oxford University Press
publishDate	2018
url	http://patua.iec.gov.br//handle/iec/3515
_version_	1717584421329043456
score	11.755432

Whole genome sequencing of the Pirarucu (Arapaima gigas) supports independent emergence of major teleost clades

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