Complete mitochondrial genome from South American catfish Pseudoplatystoma reticulatum (Eigenmann & Eigenmann) and its impact in Siluriformes phylogenetic tree

The cachara ( Pseudoplatystoma reticulatum ) is a Neotropical freshwater catfish from family Pimelodidae (Siluriformes) native to Brazil. The species is of relative economic importance for local aquaculture production and basic biological information is under development to help boost efforts to dom...

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Veröffentlicht in:Genetica 2017-02, Vol.145 (1), p.51-66
Hauptverfasser: Villela, Luciana Cristine Vasques, Alves, Anderson Luis, Varela, Eduardo Sousa, Yamagishi, Michel Eduardo Beleza, Giachetto, Poliana Fernanda, da Silva, Naiara Milagres Augusto, Ponzetto, Josi Margarete, Paiva, Samuel Rezende, Caetano, Alexandre Rodrigues
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container_issue 1
container_start_page 51
container_title Genetica
container_volume 145
creator Villela, Luciana Cristine Vasques
Alves, Anderson Luis
Varela, Eduardo Sousa
Yamagishi, Michel Eduardo Beleza
Giachetto, Poliana Fernanda
da Silva, Naiara Milagres Augusto
Ponzetto, Josi Margarete
Paiva, Samuel Rezende
Caetano, Alexandre Rodrigues
description The cachara ( Pseudoplatystoma reticulatum ) is a Neotropical freshwater catfish from family Pimelodidae (Siluriformes) native to Brazil. The species is of relative economic importance for local aquaculture production and basic biological information is under development to help boost efforts to domesticate and raise the species in commercial systems. The complete cachara mitochondrial genome was obtained by assembling Illumina RNA-seq data from pooled samples. The full mitogenome was found to be 16,576 bp in length, showing the same basic structure, order, and genetic organization observed in other Pimelodidae, with 13 protein-coding genes, 2 rNA genes, 22 trNAs, and a control region. Observed base composition was 24.63% T, 28.47% C, 31.45% A, and 15.44% G. With the exception of NAD6 and eight tRNAs, all of the observed mitochondrial genes were found to be coded on the H strand. A total of 107 SNPs were identified in P. reticulatum mtDNA, 67 of which were located in coding regions. Of these SNPs, 10 result in amino acid changes. Analysis of the obtained sequence with 94 publicly available full Siluriformes mitogenomes resulted in a phylogenetic tree that generally agreed with available phylogenetic proposals for the order. The first report of the complete Pseudoplatystoma reticulatum mitochondrial genome sequence revealed general gene organization, structure, content, and order similar to most vertebrates. Specific sequence and content features were observed and may have functional attributes which are now available for further investigation.
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Eigenmann) and its impact in Siluriformes phylogenetic tree</atitle><jtitle>Genetica</jtitle><stitle>Genetica</stitle><addtitle>Genetica</addtitle><date>2017-02-01</date><risdate>2017</risdate><volume>145</volume><issue>1</issue><spage>51</spage><epage>66</epage><pages>51-66</pages><issn>0016-6707</issn><eissn>1573-6857</eissn><abstract>The cachara ( Pseudoplatystoma reticulatum ) is a Neotropical freshwater catfish from family Pimelodidae (Siluriformes) native to Brazil. 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Analysis of the obtained sequence with 94 publicly available full Siluriformes mitogenomes resulted in a phylogenetic tree that generally agreed with available phylogenetic proposals for the order. The first report of the complete Pseudoplatystoma reticulatum mitochondrial genome sequence revealed general gene organization, structure, content, and order similar to most vertebrates. Specific sequence and content features were observed and may have functional attributes which are now available for further investigation.</abstract><cop>Cham</cop><pub>Springer International Publishing</pub><pmid>28160169</pmid><doi>10.1007/s10709-016-9945-7</doi><tpages>16</tpages><oa>free_for_read</oa></addata></record>
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subjects Amino acids
Animal Genetics and Genomics
Animals
Aquaculture products
Base Composition
Base Sequence
Biomedical and Life Sciences
Catfishes - classification
Catfishes - genetics
Codon
Computational Biology - methods
Economic importance
Evolutionary Biology
Genes, Mitochondrial
Genome, Mitochondrial
High-Throughput Nucleotide Sequencing
Human Genetics
Indigenous species
Life Sciences
Microbial Genetics and Genomics
Molecular Sequence Annotation
Original Paper
Phylogeny
Plant Genetics and Genomics
Polymorphism, Single Nucleotide
title Complete mitochondrial genome from South American catfish Pseudoplatystoma reticulatum (Eigenmann & Eigenmann) and its impact in Siluriformes phylogenetic tree
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