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This study presents the first complete mitochondrial genome characterization of (Teleostei: Elopiformes: Elopidae), a basal teleost lineage critical for understanding early actinopterygian evolution. The assembled mitogenome, deposited under GenBank accession number PV294982, spans 16,712 bp and exhibits the canonical vertebrate mitochondrial gene organization, comprising 13 protein-coding genes, 22 tRNA genes, 2 rRNA genes, and a control region. Base composition analysis revealed 22.71% A, 17.36% C, 29.82% T, and 30.11% G, with a slight AT bias (A + T = 52.53%). Codon usage analysis of the 13 protein-coding genes identified CUA (L), CGA (R), GCC (A), and GGA (G) as the most frequent codons, with a pronounced preference for adenine at the third codon position. Amino acid composition analysis across 23 Elopomorpha species revealed consistently high leucine contents, and tRNA secondary structure prediction showed 21 tRNAs forming typical cloverleaf structures, except for (gct), which lacks the dihydrouridine (DHU) arm. Phylogenetic reconstruction using maximum likelihood and Bayesian inference methods, based on concatenated mitochondrial protein-coding genes from 23 Elopomorpha species, placed in a well-supported clade with , confirming their close evolutionary relationship. This study not only provides essential genomic resources for but also resolves key gaps in the mitochondrial genome and improves phylogenetic understanding of Elopomorpha.
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http://dx.doi.org/10.3390/biology14070739 | DOI Listing |
Plant Commun
September 2025
College of Horticulture, Bioinformatics Center, Academy for Advanced Interdisciplinary Studies, Nanjing Agricultural University, Nanjing 210095, China. Electronic address:
Molecular phylogenetics illustrates the evolution and divergence of green plants by employing sequence data from various sources. Interestingly, phylogenetic reconstruction based on mitochondrial genes tends to exhibit incongruence with those derived from nuclear and chloroplast genes. Although the uniparental inheritance and conservatively retained protein-coding genes of mitochondrial genomes inherently exclude certain potential factors that affect phylogenetic reconstruction, such as hybridization and gene loss, the utilization of mitochondrial genomes for phylogeny and divergence time estimation remains limited.
View Article and Find Full Text PDFMol Genet Genomics
September 2025
Institute of Genetics, Vetsuisse Faculty, University of Bern, 3012, Bern, Switzerland.
The aim of this study was to investigate three unrelated Simmental calves with atypical white coat color, identify potential genetic causes using a trio-based whole-genome sequencing approach, and assess the prevalence of the identified variants in the breed. Several inherited alleles affecting coat color, ranging from fawn to red spotted and white-headed, have been described in Simmental cattle originating from Switzerland. However, no genetic variant has yet been associated with an almost completely white coat in this breed.
View Article and Find Full Text PDFJ Biol Chem
September 2025
School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei 230027, China; CAS Key Laboratory of Tropical Plant Resources and Sustainable Use, Yunnan Key Laboratory of Crop Wild Relatives Omics, Xishuangbanna Tropical Botanical Garden, Chines
Long non-coding RNAs (lncRNAs) play crucial roles in plant growth, development, and stress responses. With the advancement of single-cell RNA sequencing (scRNA-seq) technology, it is now possible to investigate lncRNA expression and function at single-cell resolution. Although several plant single-cell transcriptome databases have been established, they predominantly focus on protein-coding genes while largely overlooking lncRNAs.
View Article and Find Full Text PDFProbiotics Antimicrob Proteins
September 2025
College of Fisheries, Henan Normal University, Xinxiang, 453007, PR China.
Clostridium butyricum has gained attention as a probiotic in aquaculture due to its ability to improve growth, gut health, and immune function. However, most strains currently used are derived from non-aquatic sources, which may limit their colonization and efficacy in fish. In this study, a novel strain, C.
View Article and Find Full Text PDFJ Hered
September 2025
Museum of Vertebrate Zoology, University of California Berkeley, Berkeley, CA 94720, United States.
The wrentit (Chamaea fasciata) is a chaparral and scrub specialist bird found from coastal Oregon to northern Baja California. We generated a draft reference assembly for the species using PacBio HiFi long read and Omni-C chromatin-proximity sequencing data as part of the California Conservation Genomics Project (CCGP). Sequenced reads were assembled into 1342 scaffolds totaling 1.
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