Comparative analyses of the complete mitochondrial genomes of two southern African endemic guitarfish, Acroteriobatus annulatus and A. blochii

Staden, Michaela van; Ebert, David A.; Silva, Charlene da; Merwe, Aletta E. Bester‐van der

doi:10.1016/j.ijbiomac.2022.10.285

Cited by 3 publications

(3 citation statements)

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“…3 ). The result is aligned with previous studies, such as those on stingray [ Acroteriobatus annulatus , Acroteriobatus blochii ( Van Staden et al 2022 )] and beetles [ Coomaniella copipes , Coomaniella dentata and Dicerca corrugata ( Huang et al 2022 )]. Moreover, the lengths of the 16S rRNA and 12S rRNA genes are 1283 bp and 751 bp, respectively (Table 2 ).…”

Section: Resultssupporting

confidence: 92%

Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Wu¹,

Xu²,

Wei³

et al. 2023

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Mitochondrial genome analysis is an important tool for studying insect phylogenetics. The longhorn beetle, Batocera horsfieldi, is a significant pest in timber, economic and protection forests. This study determined the mitochondrial genome of B. horsfieldi and compared it with the mitochondrial genomes of other Cerambycidae with the aim of exploring the phylogenetic status of the pest and the evolutionary relationships among some Cerambycidae subgroups. The complete mitochondrial genome of B. horsfieldi was sequenced by the Illumina HiSeq platform. The mitochondrial genome was aligned and compared with the existing mitochondrial genomes of Batocera lineolata and B. rubus in GenBank (MF521888, MW629558, OM161963, respectively). The secondary structure of transfer RNA (tRNA) was predicted using tRNAScan-SE server v.1.21 and MITOS WebSever. Thirteen protein-coding genes (PCGs) and two ribosomal RNA gene sequences of 21 longhorn beetles, including B. horsfieldi, plus two outgroups, Dryops ernesti (Dryopidae) and Heterocerus parallelus (Heteroceridae), were analyzed. The phylogenetic tree was constructed using maximum likelihood and Bayesian inference methods. In this study, we successfully obtained the complete mitochondrial genome of B. horsfieldi for the first time, which is 15 425 bp in length. It contains 37 genes and an A + T-rich region, arranged in the same order as the recognized ancestor of longhorn beetles. The genome of B. horsfieldi is composed of 33.12% A bases, 41.64% T bases, 12.08% C bases, and 13.16% G bases. The structure, nucleotide composition, and codon usage of the new mitochondrial genome are not significantly different from other longhorn mitochondrial genomes. Phylogenetic analyses revealed that Cerambycidae formed a highly supported single clade, and Vesperidae was either clustered with Cerambycidae or formed a separate clade. Interestingly, B. horsfieldi, B. rubus and B. lineolata were clustered with Monochamus and Anoplophora species in both analyses, with high node support. Additionally, the VesperidaeSpiniphilus spinicornis and Vesperus sanzi and the 19 Cerambycidae species formed a sister clade in the Bayesian analysis. Our results have produced new complete mitogenomic data, which will provide information for future phylogenetic and taxonomic research, and provide a foundation for future relevant research.

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Section: Resultssupporting

confidence: 92%

Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Wu¹,

Xu²,

Wei³

et al. 2023

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“…(Javonillo et al, 2010;Lei et al, 2010;Zhang et al, 2015). Therefore, mtDNA is widely used in various research fields, such as DNA structure and gene expression (Yang et al, 2022), taxonomic resolution and species identification (Krzywinski et al, 2011;Zhu et al, 2017), species evolution and phylogenetic distribution (Sharma et al, 2020;Sun CH et al, 2021;Staden et al, 2022;Yang et al, 2022), and population genetics (Gissi et al, 2008;Fang et al, 2021;Zhang et al, 2022). To date, the classification about P. leptocephalus is still disputed.…”

Section: Introductionmentioning

confidence: 99%

Comparison genetic diversity and population structure of four Pseudaspius leptocephalus populations in Heilongjiang River Basin based on mitochondrial COI gene

et al. 2023

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The Pseudaspius leptocephalus is a unique fish in the Heilongjiang River Basin and has important economic and ecological value. In the present study, the complete mitochondrial genome of P. leptocephalus were determined, and COI partial sequences of 85 individuals from Erguna river (EH), Mohe (MH), Fuyuan (FY), Hulan (HL) were used to evaluated the genetic diversity of four populations of P. leptocephalus in Heilongjiang River Basin. The mitogenome is 16,607 bp in length and contained one D-loop, 2 rRNA, 13 PCG, and 22 tRNA. 4 variable sites and 5 haplotypes were detected in 705 bp COI, and 705 bp COI exhibited a lower content of C + G (45.95%) than A + T (54.05%). The nucleotide diversity (π) and haplotype diversity (h) indices ranged from 0.00027 (HL) to 0.00065 (EH and FY) and from 0.192 (HL) to 0.462 (EH), respectively. The genetic distance within the population and between populations ranged from 0.0006554 to 0.0002728 and from 0.0003541 to 0.0006974, respectively. Pairwise values of FST and Nm showed that there was moderate genetic differentiation between EH population and other populations and individuals between EH population and other populations can mate randomly (0.15 > FST > 0.05, Nm > 4). Significant negative values of neutrality tests (P < 0.05) indicated that MH and FY populations may had experienced population expansion, but mismatch distribution analysis suggested that all populations have remained basically stable. These results provide strong basis for the protection and utilization of P. leptocephalus germplasm resources, and provide valuable information for the population structure and genetic diversity of P. leptocephalus.

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“…It is noteworthy that the life history traits (e.g., slow growth, low fecundity in long gestation boxes, etc.) of cartilaginous fishes make them more susceptible to overfishing problems compared with bony fishes [5]. Rhinopristiformes is an order of rays that have shark-like features, which is presumably a combination of Rhinobatiformes and Pristiformes, two nominal orders in which taxa had previously been placed, including at least 71 species in 12 genera [6,7].…”

Section: Introductionmentioning

confidence: 99%

Evolution of the Critically Endangered Green Sawfish Pristis zijsron (Rhinopristiformes, Pristidae), Inferred from the Whole Mitochondrial Genome

Wang,

Ye,

Pillans

et al. 2023

Genes

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The green sawfish Pristis zijsron (Bleeker, 1851), a species of sawfish in the family Pristidae (Rhinopristiformes), mainly inhabits the Indo-West Pacific region. In this study, the complete mitochondrial genome of the critically endangered green sawfish is first described. The length of the genome is 16,804 bp, with a nucleotide composition of 32.0% A, 24.8% C, 13.1% G, and 30.0% T. It contains 37 genes in the typical gene order of fish. Two start (GTG and ATG) and two stop (TAG and TAA/T-) codons are found in the thirteen protein-coding genes. The 22 tRNA genes range from 67 bp (tRNA-Ser) to 75 bp (tRNA-Leu). The ratio of nonsynonymous substitution (Ka) and synonymous substitution (Ks) indicates that the family Pristidae are suffering a purifying selection. The reconstruction of Bayesian inference and the maximum likelihood phylogenetic tree show the same topological structure, and the family Pristidae is a monophyletic group with strong posterior probability. Pristis zijsron and P. pectinata form a sister group in the terminal clade. And the divergence time of Rhinopristiformes show that P. zijsron and P. pectinata diverged as two separate species in about Paleogene 31.53 Mya. Complete mitochondrial genomes of all five sawfishes have been published and phylogenetic relationships have been analyzed. The results of our study will provide base molecular information for subsequent research (e.g., distribution, conservation, phylogenetics, etc.) on this endangered group.

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Comparative analyses of the complete mitochondrial genomes of two southern African endemic guitarfish, Acroteriobatus annulatus and A. blochii

Cited by 3 publications

References 72 publications

Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Comparison genetic diversity and population structure of four Pseudaspius leptocephalus populations in Heilongjiang River Basin based on mitochondrial COI gene

Evolution of the Critically Endangered Green Sawfish Pristis zijsron (Rhinopristiformes, Pristidae), Inferred from the Whole Mitochondrial Genome

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Comparative analyses of the complete mitochondrial genomes of two southern African endemic guitarfish, Acroteriobatus annulatus and A. blochii

Cited by 3 publications

References 72 publications

﻿Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

﻿Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Comparison genetic diversity and population structure of four Pseudaspius leptocephalus populations in Heilongjiang River Basin based on mitochondrial COI gene

Evolution of the Critically Endangered Green Sawfish Pristis zijsron (Rhinopristiformes, Pristidae), Inferred from the Whole Mitochondrial Genome

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Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles

Characterization of the complete mitochondrial genome of the longhorn beetle, Batocera horsfieldi (Coleoptera, Cerambycidae) and its phylogenetic analysis with suitable longhorn beetles