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The complete mitochondrial genome of Paracheirodon axelrodi (Characiformes: Characidae) and phylogenetic studies of Characiformes.

ABSTRACT: The Paracheirodon axelrodi is an important freshwater fish in the Amazon basin of South America, more expensive than Paracheirodon innesi. Here, we describe the complete 17,100 base pair (bp) mitochondrial genome of Paracheirodon axelrodi mohavensis. The mitogenome has a nucleotide base composition of A (29.62%), T (29.41%), G (15.39%), and C (25.62%), and encodes 13 protein subunits, 22 tRNAs, a 12S rRNA of 952?bp and 16S rRNA of 1665?bp, and a 1433?bp D-loop control region, each located in the conserved mtDNA structure typical for Characidae fishes. All protein-coding genes have initiation codons of ATG, ND1, ND2, CO2, ND3, ND4L, ND5, ND6 and Cytb ended by TAA as a stop codon, ND4 ended by AGA as a stop codon, CO1 ended by AGG as a stop codon, ATP8 and CO3 ended by TAG as a stop codon, ATP6 ended by ATT as a stop codon. This characterised mitogenome may help inform management practices for Paracheirodon axelrodi mohavensis by facilitating future studies on how allopatric populations of this imperilled species are evolving across refuge habitats.

SUBMITTER: Liu Y

PROVIDER: S-EPMC7707614 | biostudies-literature | 2019 Oct

REPOSITORIES: biostudies-literature

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The complete mitochondrial genome of Paracheirodon axelrodi (Characiformes: Characidae) and phylogenetic studies of Characiformes.

Liu Yifan Y Meng Fang F Liu Bingjian B Huang Youkun Y Wang Qi Q Zhang Tao T

Mitochondrial DNA. Part B, Resources 20191030 2

The Paracheirodon axelrodi is an important freshwater fish in the Amazon basin of South America, more expensive than Paracheirodon innesi. Here, we describe the complete 17,100 base pair (bp) mitochondrial genome of Paracheirodon axelrodi mohavensis. The mitogenome has a nucleotide base composition of A (29.62%), T (29.41%), G (15.39%), and C (25.62%), and encodes 13 protein subunits, 22 tRNAs, a 12S rRNA of 952 bp and 16S rRNA of 1665 bp, and a 1433 bp D-loop control region ...[more]

PMID: 33366205

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Project description:BackgroundWith nearly 1,100 species, the fish family Characidae represents more than half of the species of Characiformes, and is a key component of Neotropical freshwater ecosystems. The composition, phylogeny, and classification of Characidae is currently uncertain, despite significant efforts based on analysis of morphological and molecular data. No consensus about the monophyly of this group or its position within the order Characiformes has been reached, challenged by the fact that many key studies to date have non-overlapping taxonomic representation and focus only on subsets of this diversity.ResultsIn the present study we propose a new definition of the family Characidae and a hypothesis of relationships for the Characiformes based on phylogenetic analysis of DNA sequences of two mitochondrial and three nuclear genes (4,680 base pairs). The sequences were obtained from 211 samples representing 166 genera distributed among all 18 recognized families in the order Characiformes, all 14 recognized subfamilies in the Characidae, plus 56 of the genera so far considered incertae sedis in the Characidae. The phylogeny obtained is robust, with most lineages significantly supported by posterior probabilities in Bayesian analysis, and high bootstrap values from maximum likelihood and parsimony analyses.ConclusionA monophyletic assemblage strongly supported in all our phylogenetic analysis is herein defined as the Characidae and includes the characiform species lacking a supraorbital bone and with a derived position of the emergence of the hyoid artery from the anterior ceratohyal. To recognize this and several other monophyletic groups within characiforms we propose changes in the limits of several families to facilitate future studies in the Characiformes and particularly the Characidae. This work presents a new phylogenetic framework for a speciose and morphologically diverse group of freshwater fishes of significant ecological and evolutionary importance across the Neotropics and portions of Africa.

Dataset Information

The complete mitochondrial genome of Paracheirodon axelrodi (Characiformes: Characidae) and phylogenetic studies of Characiformes.

Publications

The complete mitochondrial genome of <i>Paracheirodon axelrodi</i> (Characiformes: Characidae) and phylogenetic studies of Characiformes.

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