Complete mitochondrial genome of the plain sculpin <i>Myoxocephalus jaok</i> (Cottoidei: Cottidae)

Balakirev, Evgeniy S.; Kravchenko, A. Yu.; Cherepkova, Eleonora V.; Saveliev, P. A.; Semenchenko, Alexander A.; Ayala, Francisco J.

doi:10.1080/23802359.2020.1731365

Cited by 2 publications

(6 citation statements)

References 5 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The average difference (D xy ) between the species of Cluster 2 is 0.0265 ± 0.0037. The average levels of divergence within both clusters are relatively low, varying within 2.7-3.9%, which fits into the range of interspecific divergence for sculpin fishes [16][17][18]36]. The level of divergence between Clusters 1 and 2 is significantly higher, D xy = 0.0826 ± 0.0091, indicating the intergeneric level of divergence for cottids [16][17][18] (see also the Section 3.1).…”

Section: Genbank Coi Gene Datasetsupporting

confidence: 54%

See 1 more Smart Citation

Genetic Evidence for a Mixed Composition of the Genus Myoxocephalus (Cottoidei: Cottidae) Necessitates Generic Realignment

Balakirev

Kravchenko

Semenchenko

2020

Genes

Self Cite

View full text Add to dashboard Cite

Sculpin fishes belonging to the family Cottidae represent a large and complex group, inhabiting a wide range of freshwater, brackish-water, and marine environments. Numerous studies based on analysis of their morphology and genetic makeup frequently provided controversial results. In the present work, we sequenced complete mitochondrial (mt) genomes and fragments of nuclear ribosomal DNA (rDNA) of the fourhorn sculpin Myoxocephalus quadricornis and some related cottids to increase the power of phylogenetic and taxonomic analyses of this complex fish group. A comparison of the My. quadricornis mt genomes obtained by us with other complete mt genomes available in GenBank has revealed a surprisingly low divergence (3.06 ± 0.12%) with Megalocottus platycephalus and, at the same time, a significantly higher divergence (7.89 ± 0.16%) with the species of the genus Myoxocephalus. Correspondingly, phylogenetic analyses have shown that My. quadricornis is clustered with Me. platycephalus but not with the Myoxocephalus species. Completely consistent patterns of divergence and tree topologies have been obtained based on nuclear rDNA. Thus, the multi-gene data in the present work indicates obvious contradictions in the relationships between the Myoxocephalus and Megalocottus species studied. An extensive phylogenetic analysis has provided evidence for a closer affinity of My. quadricornis with the species of the genus Megalocottus than with the species of the genus Myoxocephalus. A recombination analysis, along with the additional GenBank data, excludes introgression and/or incorrect taxonomic identification as the possible causative factors responsible for the observed closer affinity between the two species from different genera. The above facts necessitate realignment of the genera Myoxocephalus and Megalocottus. The genetic data supports the two recognized genera, Myoxocephalus and Megalocottus, but suggests changing their compositions through transferring My. quadricornis to the genus Megalocottus. The results of the present study resolve the relationships within a complex group of sculpin fishes and show a promising approach to phylogenetic systematics (as a key organizing principle in biodiversity research) for a better understanding of the taxonomy and evolution of fishes and for supplying relevant information to address various fish biodiversity conservation and management issues.

show abstract

Section: Genbank Coi Gene Datasetsupporting

confidence: 54%

“…jaok , and Me. platycephalus [ 30 , 31 , 32 , 33 , 34 , 35 , 36 ]. In the present study, the molecular phylogenetic analyses have been carried out using mitochondrial and nuclear DNA datasets and based on extensive taxon sampling, including most of the constituent species in the genera Myoxocephalus and Megalocottus ( My.…”

Section: Introductionmentioning

confidence: 99%

Genetic Evidence for a Mixed Composition of the Genus Myoxocephalus (Cottoidei: Cottidae) Necessitates Generic Realignment

Balakirev

Kravchenko

Semenchenko

2020

Genes

Self Cite

View full text Add to dashboard Cite

show abstract

“…On the other hand, glutamate/glutamine (2.63%), aspartate (1.92%), and cysteine (0.63%) were the least abundant amino acids (Table 3). Similar codon usage patterns were noticed in other members of the Family Cottidae [28][29][30][31][32][33][34][35][36][37][38][39][40][41]. The current study found a total of 22 tRNA in the mitogenome of A. elongatus.…”

Section: Protein Coding Genessupporting

confidence: 84%

“…Each PCG was started by a standard ATG codon, with the exception of COXI, which was started by a GTG codon (Table 2). Previous studies have shown comparable findings in other species of Perciformes [28][29][30][31][32][33][34][35][36][37][38][39][40][41][42]. In the mitogenome of A. elongatus, we observed that four of the thirteen PCGs (ND4L, ND5, COXI, ATP8) used a standard TAA termination codon, which is commonly observed in the mitogenomes of Order Perciformes [28][29][30][31][32][33][34][35][36][37][38][39][40][41][42][43][44][45].…”

Section: Protein Coding Genessupporting

confidence: 83%

“…Previous studies have shown comparable findings in other species of Perciformes [28][29][30][31][32][33][34][35][36][37][38][39][40][41][42]. In the mitogenome of A. elongatus, we observed that four of the thirteen PCGs (ND4L, ND5, COXI, ATP8) used a standard TAA termination codon, which is commonly observed in the mitogenomes of Order Perciformes [28][29][30][31][32][33][34][35][36][37][38][39][40][41][42][43][44][45]. On the other hand, ND1 and ND6 genes terminated with the codon TAG, ND2, COXIII, and ATP6 genes ended with the codon TA, and ND3, ND4, COXII, and Cytb genes terminated with a single T (Table 2).…”

Section: Protein Coding Genessupporting

confidence: 78%

See 1 more Smart Citation

Complete Mitogenome and Phylogenetic Analysis of a Marine Ray-Finned Fish, Alcichthys elongatus (Perciformes: Cottidae)

Patil,

Kim,

Yoo

et al. 2023

Fishes

View full text Add to dashboard Cite

Alcichthys elongatus is the only species in the genus, and this work is the first to provide a comprehensive mitogenome analysis of this species. The A. elongatus mitogenome was 16,712 bp long, with biased A + T content (52.33%), and featured thirteen protein-coding genes (PCGs), twenty-two tRNAs, two rRNAs, and the control region (D-loop). The H strand encoded twenty-eight genes (twelve PCGs, fourteen tRNA, and two rRNA) and the control region, whereas the L strand encoded the remaining nine genes (ND6 and eight tRNA). Except for COXI, which started with GTG, all PCG sequences started with ATG and ended with TAA (ND4L, ND5, COXI, ATP8) or TAG (ND1, ND6) termination codons, with some (ND2, ND3, ND4, COXII, COXIII, ATP6, Cytb) having an incomplete termination codon. Except for tRNA-serine-1 (trnS), the majority of the tRNAs exhibited characteristic cloverleaf secondary structures. Based on 13 PCGs, phylogenetic analysis placed A. elongatus in the same clade as Icelus spatula. This genomic data will be useful for species identification, phylogenetic analysis, and population genetics.

show abstract

Complete mitochondrial genome of the plain sculpin Myoxocephalus jaok (Cottoidei: Cottidae)

Cited by 2 publications

References 5 publications

Genetic Evidence for a Mixed Composition of the Genus Myoxocephalus (Cottoidei: Cottidae) Necessitates Generic Realignment

Genetic Evidence for a Mixed Composition of the Genus Myoxocephalus (Cottoidei: Cottidae) Necessitates Generic Realignment

Complete Mitogenome and Phylogenetic Analysis of a Marine Ray-Finned Fish, Alcichthys elongatus (Perciformes: Cottidae)

Contact Info

Product

Resources

About