Dataset Information

The Complete Genome Sequences of three species from the killifish genus Kryptolebias (Rivulidae, Cyprinodontiformes).

ABSTRACT: The killifish genus Kryptolebias currently contains seven recognized species found in freshwater and mangrove microhabitats in South and Central America, the Caribbean, and Florida. Kryptolebias species have several unique features. Beyond its amphibious nature, two of the Kryptolebias species (K. marmoratus and K. hermaphroditus sensu Costa 2011) are the only known vertebrates capable of self-fertilization. Although reference genomes for self-fertilizing species are readily available, a complete understanding of the genomic basis leading to the transition in mating systems in the genus requires more genomic resources at a broader taxonomic level. Here, we present the complete genome sequences for three Kryptolebias species from Brazil: the endangered freshwater species Kryptolebias brasiliensis and Kryptolebias gracilis and the androdiecious but obligate outcrossing Kryptolebias ocellatus (sensu Costa 2011). The raw data and assembled genomes are available in GenBank.

SUBMITTER: Berbel-Filho WM

PROVIDER: S-EPMC10361417 | biostudies-literature | 2023

REPOSITORIES: biostudies-literature

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The Complete Genome Sequences of three species from the killifish genus Kryptolebias (Rivulidae, Cyprinodontiformes).

Berbel-Filho Waldir M WM Pirro Stacy S Thompson Andrew W AW Lima Sergio M Q SMQ Consuegra Sofia S Betancur Ricardo R

Biodiversity genomes 20230524

The killifish genus Kryptolebias currently contains seven recognized species found in freshwater and mangrove microhabitats in South and Central America, the Caribbean, and Florida. Kryptolebias species have several unique features. Beyond its amphibious nature, two of the Kryptolebias species (K. marmoratus and K. hermaphroditus sensu Costa 2011) are the only known vertebrates capable of self-fertilization. Although reference genomes for self-fertilizing speci ...[more]

PMID: 37483464

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Project description:BACKGROUND:Among teleosts, the South American genus Austrolebias (Cyprinodontiformes: Rivulidae) includes 42 taxa of annual fishes divided into five different species groups. It is a monophyletic genus, but morphological and molecular data do not resolve the relationship among intrageneric clades and high rates of substitution have been previously described in some mitochondrial genes. In this work, the complete mitogenome of a species of the genus was determined for the first time. We determined its structure, gene order and evolutionary peculiar features, which will allow us to evaluate the performance of mitochondrial genes in the phylogenetic resolution at different taxonomic levels. RESULTS:Regarding gene content and order, the circular mitogenome of A. charrua (17,271 pb) presents the typical pattern of vertebrate mitogenomes. It contains the full complement of 13 proteins-coding genes, 22 tRNA, 2 rRNA and one non-coding control region. Notably, the tRNA-Cys was only 57 bp in length and lacks the D-loop arm. In three full sibling individuals, heteroplasmatic condition was detected due to a total of 12 variable sites in seven protein-coding genes. Among cyprinodontiforms, the mitogenome of A. charrua exhibits the lowest G+C content (37 %) and GCskew, as well as the highest strand asymmetry with a net difference of T over A at 1st and 3rd codon positions. Considering the 12 coding-genes of the H strand, correspondence analyses of nucleotide composition and codon usage show that A and T at 1st and 3rd codon positions have the highest weight in the first axis, and segregate annual species from the other cyprinodontiforms analyzed. Given the annual life-style, their mitogenomes could be under different selective pressures. All 13 protein-coding genes are under strong purifying selection and we did not find any significant evidence of nucleotide sites showing episodic selection (dN >dS) at annual lineages. When fast evolving third codon positions were removed from alignments, the "supergene" tree recovers our reference species phylogeny as well as the Cytb, ND4L and ND6 genes. Therefore, third codon positions seem to be saturated in the aforementioned coding regions at intergeneric Cyprinodontiformes comparisons. CONCLUSIONS:The complete mitogenome obtained in present work, offers relevant data for further comparative studies on molecular phylogeny and systematics of this taxonomic controversial endemic genus of annual fishes.

Dataset Information

The Complete Genome Sequences of three species from the killifish genus Kryptolebias (Rivulidae, Cyprinodontiformes).

Publications

The Complete Genome Sequences of three species from the killifish genus <i>Kryptolebias</i> (Rivulidae, Cyprinodontiformes).

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Dataset Information

The Complete Genome Sequences of three species from the killifish genus Kryptolebias (Rivulidae, Cyprinodontiformes).

Publications

The Complete Genome Sequences of three species from the killifish genus &lt;i&gt;Kryptolebias&lt;/i&gt; (Rivulidae, Cyprinodontiformes).

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets

The Complete Genome Sequences of three species from the killifish genus <i>Kryptolebias</i> (Rivulidae, Cyprinodontiformes).