Comprehensive Analysis of the Transcriptome-Wide m6A Methylation in Mouse Pachytene Spermatocytes and Round Spermatids by Shihao Hong, Xiaozhong Shen, Jinmei Cheng, Hanyu Tang, Fei Sun

“…The peaks were mainly concentrated in the coding region and the stop codon of the GGAC motif. In addition, enrichment analysis showed significant m6A methylation genes in related pathways in spermatogenesis. …”
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Comparative Plastomics of Ashwagandha (<i>Withania</i>, Solanaceae) and Identification of Mutational Hotspots for Barcoding Medicinal Plants by Furrukh Mehmood, Abdullah, Zartasha Ubaid, Yiming Bao, Peter Poczai, Bushra Mirza

“…We analyzed the structural organization, gene content and order, guanine-cytosine content, codon usage, RNA-editing sites, microsatellites, oligonucleotide and tandem repeats, and substitutions of <i>Withania</i> plastomes, which revealed high similarities among the species. …”
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Non-host class II ribonucleotide reductase in Thermus viruses: sequence adaptation and host interaction by Christoph Loderer, Karin Holmfeldt, Daniel Lundin

“…Phylogenetic analysis revealed a distant origin of the nrdJm gene with the most closely related sequences found in mesophiles or moderate thermophiles from the Firmicutes phylum. GC-content, codon usage and the ratio of coding to non-coding substitutions (dN/dS) suggest extensive adaptation of the gene in the virus in terms of nucleotide composition and amino acid sequence. …”
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Cloning and Expression of Cellular Glutathione Peroxidase (GPX1) in Japanese Quail (Coturnix japonica) by Sopon Wilaison, Makoto Mori

“…It contains putative selenocysteine residue which is encoded by an unusual stop codon TGA. Comparison of amino acid sequences showed that Japanese quail GPX1 shares 65-74% identity with GPX1 of other animals, suggesting that our clone is an authentic member of GPX1. …”
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In silico analysis and in planta production of recombinant ccl21/IL1β protein and characterization of its in vitro anti-tumor and immunogenic activity by Hasan Marashi, Maria Beihaghi, Masoud Chaboksavar, Samad Khaksar, Homan Tehrani, Ardavan Abiri

“…This study aimed to produce epitopes of CCL21 and IL1β as a recombinant protein and characterize its in vitro anti-tumor and immunogenic activity. A codon-optimized ccl21/IL1β gene was designed and synthesized from human genes. …”
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Hepatitis C Virus Translation Regulation by Michael Niepmann, Gesche K. Gerresheim

“…Moreover, some ITAFs can act as RNA chaperones that help to position the viral AUG start codon in the ribosomal 40S subunit entry channel. …”
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Clinicopathologic Spectrum of Nephrotic Syndrome in Elderly by Sheikh Zubair, Junaid Ahmed, Syed Mubashir Nissar, Muzamil Rashid Pala, Aabid Hussain, Murtaza Rashid Pala, Muzamil Latief

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The Asia 2 specific signal peptide region and other domains in fusion protein genes characterized Asia 1 and Asia 2 canine distemper viruses by Yamaguchi Ryoji, Lan Nguyen, Charoenvisal Nataya, Sultan Serageldeen, Maeda Ken, Kai Kazushige

“…</p> <p>Results</p> <p>The phylogenetic analysis of F and H gene sequences from fourteen CDV isolates obtained from diseased dogs in Japan and Thailand indicated that the F genes had a new initiation codon and extra 27 nucleotides upstream of the usual open reading frame (ORF) and the F proteins had extra 9 amino acids at the N-terminal position only in Asia 2 isolates. …”
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Full-length transcriptome characterization and comparative analysis of Gleditsia sinensis by Feng Xiao, Yang Zhao, Xiurong Wang, Xueyan Jian

“…AGA, AGG, and CCA were identified as the universal optimal codon in the genus of Gleditsia. EIF5A was selected as a suitable fluorescent quantitative reference gene. 315 Cytochrome P450 monooxygenases (CYP450s) and 147 uridine diphosphate (UDP)-glycosyltransferases (UGTs) were recognized through the PacBio SMRT transcriptome. …”
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Case report: FOXP1 syndrome caused by a de novo splicing variant (c.1652+5 G>A) of the FOXP1 gene by Min Chen, Yixi Sun, Yeqing Qian, Na Chen, Hongge Li, Liya Wang, Minyue Dong, Minyue Dong, Minyue Dong

“…Assessed by TA-cloning, the variant promoted the skipping of exon 18 and a premature stop codon (p.Asn511*), resulting in a predicted truncated protein. …”
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Mutation Detection in MYO15A Gene in an Iranian Family with Non-Syndromic Hearing Loss by Mostafa Neissi, Misagh Mohammadi-Asl, Mojdeh Roghani, Adnan Issa Al-Badran, Javad Mohammadi-Asl

“…The newly identified mutation, causing a new reading frame (p.Tyr393Serfs*38), results in an early encounter with a stop codon, leading to the formation of a shortened protein. …”
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Unusual presentation of hepatitis B serological markers in an Amerindian community of Venezuela with a majority of occult cases by Cardona Nathalia E, Loureiro Carmen L, Garzaro Domingo J, Duarte María C, García Daisy M, Pacheco Milian C, Chemin Isabelle, Pujol Flor H

“…One isolate exhibited the co-circulation of a wild type variant with a variant with a premature stop codon at the core protein, and a variant exhibiting a deletion of 28 amino acids.…”
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Pacing Dynamics Determines the Arrhythmogenic Mechanism of the CPVT2-Causing CASQ2^G112+5X Mutation in a Guinea Pig Ventricular Myocyte Computational Model by Roshan Paudel, Mohsin Saleet Jafri, Aman Ullah

“…CASQ2^G112+5X is a 16 bp (339–354) deletion CASQ2 mutation that prevents the protein expression due to premature stop codon. Understanding the subcellular mechanisms of CPVT2 is experimentally challenging because the occurrence of arrhythmia is rare. …”
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Engineered bacterial voltage-gated sodium channel platform for cardiac gene therapy by Hung X. Nguyen, Tianyu Wu, Daniel Needs, Hengtao Zhang, Robin M. Perelli, Sophia DeLuca, Rachel Yang, Michael Pan, Andrew P. Landstrom, Craig Henriquez, Nenad Bursac

“…Here, we report a platform utilizing small-size, codon-optimized engineered prokaryotic sodium channels (BacNav) driven by muscle-specific promoters that significantly enhance excitability and conduction in rat and human cardiomyocytes in vitro and adult cardiac tissues from multiple species in silico. …”
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The Complete Mitochondrial Genomes of Four Species in the Subfamily Limenitidinae (Lepidoptera, Nymphalidae) and a Phylogenetic Analysis by Ning Liu, Lijun Fang, Yalin Zhang

“…All four mitogenomes display similar nucleotide content and codon usage of protein-coding genes (PCGs). Typical cloverleaf secondary structures are identified in 21 tRNA genes, while <i>trnS1</i> (AGN) lacks the dihydrouridine (DHC) arm. …”
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Scarless Gene Tagging with One-Step Transformation and Two-Step Selection in Saccharomyces cerevisiae and Schizosaccharomyces pombe. by Dirk Landgraf, Dann Huh, Erinc Hallacli, Susan Lindquist

“…To illustrate the scarless N- and C-terminal gene tagging methods in S. cerevisiae, we tagged various genes including the E3 ubiquitin ligase RSP5, the proteasome subunit PRE1, and the eleven Rab GTPases with yeast codon-optimized mNeonGreen or mCherry; several of these represent essential genes. …”
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Alternative Splicing of the Aflatoxin-Associated Baeyer–Villiger Monooxygenase from <i>Aspergillus flavus</i>: Characterisation of MoxY Isoforms by Carmien Tolmie, Martha S. Smit, Diederik J. Opperman

“…Using mRNA data, an intron near the C-terminus was identified that is alternatively spliced, creating two possible MoxY isoforms which exist in vivo, while analysis of the genomic DNA suggests an alternative start codon leading to possible elongation of the N-terminus. …”
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Metatranscriptomic analysis uncovers prevalent viral ORFs compatible with mitochondrial translation by Adam Begeman, Artem Babaian, Samantha C. Lewis

“…We exploit this genetic diversity to identify new clades of Mitoviridae, annotate clade-specific sequence motifs that distinguish the mitoviral RdRp, and reveal patterns of RdRp codon usage consistent with translation on host cell mitoribosomes. …”
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Complete chloroplast genome sequence of Rhododendron mariesii and comparative genomics of related species in the family Ericaeae by Zhiliang Li, Zhiwei Huang, Xuchun Wan, Jiaojun Yu, Hongjin Dong, Jialiang Zhang, Chunyu Zhang, Shuzhen Wang

“…Leucine was the most representative amino acid, while cysteine was the lowest representative. Totally, 30 codons showed obvious codon usage bias, and most were A/U-ending codons. …”
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Characterization and Comparison of the Two Mitochondrial Genomes in the Genus <i>Rana</i> by Yan-Mei Wang, Chi-Ying Zhang, Si-Te Luo, Guo-Hua Ding, Fen Qiao

“…The mitogenomes of both species contained 37 genes, including 13 protein-coding genes (PCGs), two ribosomal RNA genes, 22 transfer RNA genes, and one control region; mitogenome size varied predominantly with the length of the control region. The two synonymous codon usages in 13 PCGs showed that T and A were used more frequently than G and C. …”
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