scholarly journals Complete mitochondrial DNA sequence of the Psammocora profundacella (Scleractinia, Psammocoridae): mitogenome characterisation and phylogenetic implications

2021 ◽  
Vol 9 ◽  
Author(s):  
Peng Tian ◽  
Jiaguang Xiao ◽  
Zhiyu Jia ◽  
Feng Guo ◽  
Xiaolei Wang ◽  
...  
Keyword(s):  
Mitochondrial Dna ◽  
Mitochondrial Genome ◽  
Dna Sequence ◽  
Gc Content ◽  
The Other ◽  
Gene Content ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Mitochondrial Dna Sequence ◽  
Phylogenetic Implications

Complete mitochondrial DNA sequence data have played a significant role in phylogenetic and evolutionary studies of scleractinian corals. In this study, the complete mitogenome of Psammocora profundacella Gardiner, 1898, collected from Guangdong Province, China, was sequenced by next-generation sequencing for the first time. Psammocora profundacella is the first species for which a mitogenome has been sequenced in the family Psammocoridae. The length of its assembled mitogenome sequence was 16,274 bp, including 13 protein-coding genes, two tRNAs and two rRNAs. Its gene content and gene order were consistent with the other Scleractinia species. All genes were encoded on the H strand and the GC content of the mitochondrial genome was 30.49%. Gene content and order were consistent with the other Scleractinia species. Based on 13 protein-coding genes, Maximum Likelihood phylogenetic analysis showed that P. profundacella belongs to the “Robust” clade. Mitochondrial genome data provide important molecular information for understanding the phylogeny of stony corals. More variable markers and additional species should be sequenced to confirm the evolutionary relationships of Scleractinia in the future.

scholarly journals Complete mitochondrial DNA sequence analysis of Bluespotted seabream, Pagrus caeruleostictus (Perciformes: Sparidae)

2019 ◽  
Author(s):  
Gyamfua Afriyie ◽  
Yusong Guo ◽  
Felix K.A Kuebutornye ◽  
Christian Ayisi Larbi ◽  
Zhongduo Wang
Keyword(s):  
Mitochondrial Dna ◽  
Dna Sequence ◽  
Molecular Genetic ◽  
Marine Species ◽  
Illumina Hiseq ◽  
Protein Coding ◽  
Tropical Regions ◽  
Mitochondrial Dna Sequence ◽  
Rna Genes ◽  
Pagrus Caeruleostictus

Abstract Background Bluespotted seabream, Pagrus caeruleostictus is a benthopelagic marine species found in tropical regions and a member of the family Sparidae and genus Pagrus . In this article, a mitochondrial DNA sequence by high-throughput technique, Illumina Hiseq, was carried out on muscle of the above species and determined the complete mitogenome. Samples were obtained from species collected from the coast of Ghana, West Africa.Results The complete mitochondrial DNA sequence was 16,653 bases pairs in length (GenBank Accession number: MN319701) and comprises of 37 genes; 22 transfer RNA genes, 2 ribosomal RNA genes, 13 protein-coding genes as well as a control region as in a typical vertebrate mitochondrial DNA gene. The phylogenetic analysis showed P. caeruleostictus clustered with the clade of P. auriga. Conclusion This research will serve as the foundation for molecular genetic studies of Ghanaian fish species. Moreover, it will contribute to the phylogenetics of class Actinopterygii, order Spariformes, family Sparidae and genus Pagrus.

The complete mitochondrial DNA sequence of the green alga Oltmannsiellopsis viridis: evolutionary trends of the mitochondrial genome in the Ulvophyceae

2006 ◽  
Vol 50 (2) ◽  
pp. 137-147 ◽  
Author(s):  
Jean-François Pombert ◽  
Philippe Beauchamp ◽  
Christian Otis ◽  
Claude Lemieux ◽  
Monique Turmel
Keyword(s):  
Mitochondrial Dna ◽  
Mitochondrial Genome ◽  
Dna Sequence ◽  
Green Alga ◽  
Evolutionary Trends ◽  
Mitochondrial Dna Sequence

scholarly journals Complete Mitochondrial Genomes of Three Mangifera Species, Their Genomic Structure And Gene Transfer From Chloroplast Genomes

2021 ◽  
Author(s):  
Yingfeng Niu ◽  
Chengwen Gao ◽  
Jin Liu
Keyword(s):  
Mitochondrial Genome ◽  
Genomic Structure ◽  
Mangifera Indica ◽  
Gene Content ◽  
Rrna Genes ◽  
Mitochondrial Genomes ◽  
Trna Genes ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Chloroplast Genomes

Abstract BackgroundAmong the Mangifera species, mango (Mangifera indica) is an important commercial fruit crop. However, very few studies have been conducted on the Mangifera mitochondrial genome. This study reports and compares the newly sequenced mitochondrial genomes of three Mangifera species. Results Mangifera mitochondrial genomes showed partial similarities in the overall size, genomic structure, and gene content. Specifically, the genomes are circular and contain about 63-69 predicted functional genes, including five ribosomal RNA (rRNA) genes and 24-27 transfer RNA (tRNA) genes. The GC contents of the Mangifera mitochondrial genomes are similar, ranging from 44.42–44.66%. Leucine (Leu) and serine (Ser) are the most frequently used, while tryptophan (Trp) and cysteine (Cys) are the least used amino acids among the protein-coding genes in Mangifera mitochondrial genomes. We also identified 7-10 large chloroplast genomic fragments in the mitochondrial genome, ranging from 1407-6142 bp. Additionally, four intact mitochondrial tRNAs genes (tRNA-Cys, tRNA-Trp, tRNA-Pro, and tRNA-Met) and intergenic spacer regions were identified. Phylogenetic analysis based on the common protein-coding genes of most branches provided a high support value. ConclusionsWe sequenced and compared the mitochondrial genomes of three Mangifera species. The results showed that the gene content of Mangifera mitochondrial genomes is similar across various species. Gene transferred from the chloroplast genome to the mitochondrial genome were identified. This study provides valuable information for evolutionary and molecular studies of Mangifera and a basis for further studies on genomic breeding of mango.

scholarly journals Mitochondrial genome of the critically endangered Baer’s Pochard, Aythya baeri, and its phylogenetic relationship with other Anatidae species

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Dawei Liu ◽  
Yongwu Zhou ◽  
Yiling Fei ◽  
Chunping Xie ◽  
Senlin Hou
Keyword(s):  
Mitochondrial Genome ◽  
Complete Mitochondrial Genome ◽  
The Other ◽  
Rrna Genes ◽  
Trna Genes ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Recent Estimate ◽  
Maximum Likelihood Methods ◽  
Taxonomic Studies

AbstractHistorically, the diving duck, Baer’s Pochard (Aythya baeri) was widely distributed in East and South Asia, but according to a recent estimate, its global population is now less than 1000 individuals. To date, the mitochondrial genome of A. baeri has not been deposited and is not available in GenBank. Therefore, we aimed to sequence the complete mitochondrial genome of this species. The genome was 16,623 bp in length, double stranded, circular in shape, and contained 13 protein-coding genes, 22 tRNA genes, two rRNA genes, and one non-coding control region. Many structural and compositional similarities were discovered between A. baeri and the other three Aythya mitochondrial genomes. Among 13 protein-coding genes of the four Aythya species, the fastest-evolving gene was ATP8 while the slowest-evolving gene was COII. Furthermore, the phylogenetic tree of Anatidae based on Bayesian inference and maximum likelihood methods showed that the relationships among 15 genera of the Anatidae family were as follows: Dendrocygna was an early diverging lineage that was fairly distant from the other ingroup taxa; Cygnus, Branta, and Anser were clustered into one branch that corresponded to the Anserinae subfamily; and Aythya, Asarcornis, Netta, Anas, Mareca, Mergus, Lophodytes, Bucephala, Tadorna, Cairina, and Aix were clustered into another branch that corresponded to the Anatinae subfamily. Our target species and three other Aythya species formed a monophyletic group. These results provide new mitogenomic information to support further phylogenetic and taxonomic studies and genetic conservation of Anatidae species.

scholarly journals Characterization, Comparison of Four New Mitogenomes of Centrotinae (Hemiptera: Membracidae) and Phylogenetic Implications Supports New Synonymy

Life ◽  
2022 ◽  
Vol 12 (1) ◽  
pp. 61
Author(s):  
Ruitao Yu ◽  
Leining Feng ◽  
Christopher H. Dietrich ◽  
Xiangqun Yuan
Keyword(s):  
Secondary Structure ◽  
Mitochondrial Genome ◽  
Stop Codon ◽  
Phylogenetic Analyses ◽  
Sliding Window ◽  
Protein Coding ◽  
Protein Coding Genes ◽  
Genome Data ◽  
Phylogenetic Implications ◽  
New Synonymy

To explore the phylogenetic relationships of the subfamily Centrotinae from the mitochondrial genome data, four complete mitogenomes (Anchon lineatus, Anchon yunnanensis, Gargara genistae and Tricentrus longivalvulatus) were sequenced and analyzed. All the newly sequenced mitogenomes contain 37 genes. Among the 13 protein-coding genes (PCGs) of the Centrotinae mitogenomes, a sliding window analysis and the ratio of Ka/Ks suggest that atp8 is a relatively fast evolving gene, while cox1 is the slowest. All PCGs start with ATN, except for nad5 (start with TTG), and stop with TAA or the incomplete stop codon T, except for nad2 and cytb (terminate with TAG). All tRNAs can fold into the typical cloverleaf secondary structure, except for trnS1, which lacks the dihydrouridine (DHU) arm. The BI and ML phylogenetic analyses of concatenated alignments of 13 mitochondrial PCGs among the major lineages produce a well-resolved framework. Phylogenetic analyses show that Membracoidea, Smiliinae and Centrotinae, together with tribes Centrotypini and Leptobelini are recovered as well-supported monophyletic groups. The tribe Gargarini (sensu Wallace et al.) and its monophyly are supported.

Sign in / Sign up

Export Citation Format

Share Document