An in Silico Approach to Identifying TF Binding Sites: Analysis of the Regulatory Regions of BUSCO Genes from Fungal Species in the <i>Ceratocystidaceae</i> Family by Nomaswazi N. Maseko, Emma T. Steenkamp, Brenda D. Wingfield, P. Markus Wilken

“…This study targeted the 1000 base-pair region upstream of the start codon of 20 single-copy genes from the BUSCO dataset for motif discovery. …”
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Mechanisms Affecting the Biosynthesis and Incorporation Rate of Selenocysteine by Jing-Jing Peng, Shi-Yang Yue, Yu-Hui Fang, Xiao-Ling Liu, Cheng-Hua Wang

“…Due to the particularity of the codon encoding Sec, the selenoprotein synthesis needs to be completed by unique mechanisms in specific biological systems. …”
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Potential of In Vitro Culture of <i>Scutellaria baicalensis</i> in the Formation of Genetic Variation Confirmed by ScoT Markers by Jacek Gawroński, Magdalena Dyduch-Siemińska

“…The paper presents a protocol for obtaining <i>Scutellaria baicalensis</i> regenerants by indirect organogenesis and the assessment of their genetic variability with the use of start codon-targeted markers. The most intense process of indirect shoot organogenesis was observed on Murashige and Skoog medium supplemented with kinetin and 6-Benzylaminopurine (0.5 mg × dm⁻³ each)—7.4 shoot per explant on average. …”
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Acute Hepatitis by Bartonella henselae Infection in an Adult Patient with Decompensated Liver Cirrhosis by Jorge Alonso Garay Ortega, Louis Fernando Robles Fernandes, Vianey Guadalupe Tellez Bolaños, Karla Paulina Sandoval Mosqueda, Karla Daniela Salgado Guizar

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Adaptive evidence of mitochondrial genes in Pteromalidae and Eulophidae (Hymenoptera: Chalcidoidea). by Ning Kang, Hongying Hu

“…We further examined the codon usage preferences (RSCU, ENC-GC3s, neutrality, and PR2 bias plot) in these mitochondrial protein-coding sequences and conducted positive selection analysis based on their Bayesian phylogenetic relationships, and identified positive selection sites in the ATP6, ATP8, COX1, COX3, and CYTB genes, emphasizing the crucial role of mitochondrial gene adaptive evolution in the adaptation of Pteromalidae and Eulophidae to alpine environments. …”
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Multichromosomal mitochondrial genome of Punica granatum: comparative evolutionary analysis and gene transformation from chloroplast genomes by Lijuan Feng, Zenghui Wang, Chuanzeng Wang, Xuemei Yang, Mengmeng An, Yanlei Yin

“…The mitogenome analysis identified 114SSRs and 466 RNA editing sites. Analyses of codon usage, nucleotide diversity and gene migration from chloroplast to mitochondrial were also conducted. …”
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Renal Cell Carcinoma Arising from Isthmus of Horseshoe K by Sanjay M. Khaladkar, Sai Sabari Vinay Kumar Parripati, Deepak Koganti, Satvik Dhirawani, Urvashi Agarwal

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Complete mitochondrial genome of Anthus richardi (Passeriformes: Motacillidae) by Longfei Wang, Yuanqiu Dong, Jun Xuan, Fengling Zhang, Rong Fu, Gang Liu, Xingjia Xiang, Lizhi Zhou

“…The A, T, G, and C base composition of the mitochondrial DNA are 29.73%, 23.12%, 14.59% and 32.56%, respectively. The starting codon of protein-coding genes is typical ATG, except for the ND2 which starts with ATA. …”
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The complete mitochondrial genome and phylogenetic analysis of Fusinus longicaudus (Gastropoda: Fasciolariidae) by Jiantong Feng, Zeqin Fu, Yahong Guo, Yingying Ye, Jiji Li, Baoying Guo, Zhenming Lü

“…In 13 protein-coding genes, the nad4 gene starts with ATT, the other eleven genes start with ATG. For the stop codon, atp6, nad4l, nad5 and nad6 end with TAG, other 9 genes end with TAA. …”
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New data on the mitochondrial genome of the winter crane fly (Diptera: Trichoceridae) with phylogenetic analysis by Tingting Ci, Zehui Kang

“…Stop codons of 12 PCGs are invariably complete TAA and TAG, while COII ends with a single thymine stop codon. …”
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Cytokine gene polymorphism and parasite susceptibility in free-living rodents: Importance of non-coding variants. by Agnieszka Kloch, Ewa J Mierzejewska, Renata Welc-Falęciak, Anna Bajer, Aleksandra Biedrzycka

“…Each SNP associated with parasite load was located in or next to a codon under selection, three codons displayed signatures of positive selection, and one of purifying selection. …”
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MYCT1-TV, a novel MYCT1 transcript, is regulated by c-Myc and may participate in laryngeal carcinogenesis. by Shuang Fu, Yan Guo, Hong Chen, Zhen-Ming Xu, Guang-Bin Qiu, Ming Zhong, Kai-Lai Sun, Wei-Neng Fu

“…METHODOLOGY/PRINCIPAL FINDINGS: Using RACE assay, we cloned a 1106 bp transcript named Myc target 1 transcript variant 1 (MYCT1-TV) and confirmed its transcriptional start site was located at 140 bp upstream of the ATG start codon of MYCT1-TV. Luciferase, electrophoretic mobility shift and chromatin immunoprecipitation assays confirmed c-Myc could regulate the promoter activity of MYCT1-TV by specifically binding to the E-box elements within -886 to -655 bp region. …”
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The mitochondrial genome of Eurycantha calcarata Lucas, 1869 (Phasmatodea: Lonchodinae) and its phylogeny by Ke-Ke Xu, Qing-Ping Chen, Jia-Yin Guan, Zi-Yi Zhang, Kenneth B. Storey, Dan-Na Yu, Jia-Yong Zhang

“…All PCGs used ATN as the start codon, and most PCGs used TAA/TAG as the stop codons excluding COX2 (T), COX3 (TA), and ND5 (TA). …”
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Splicing of human chloride channel 1 by Takumi Nakamura, Natsumi Ohsawa-Yoshida, Yimeng Zhao, Michinori Koebis, Kosuke Oana, Hiroaki Mitsuhashi, Shoichi Ishiura

“…This increase in abnormal splicing variants containing exons 6B, 7A or the insertion of a TAG stop codon just before exon 7 leads to a decrease in expression of the normal splice pattern. …”
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The complete mitochondrial genome of Onustus exutus(Gastropoda: Xenophoridae) by Ming Xu, Yingying Ye, Huai Yang, Zhongtian Xu, Baoying Guo, Kaida Xu, Lianwei Liu, Pengfei Li

“…Thirteen protein-coding genes start with ATG. For the stop codon, CYTB, ND6, ND4L, and ND4 end with TAG, other 9 genes end with TAA. …”
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The Age Dependent Progression of Hajdu-Cheney Syndrome in Two Families by Jitka Jirečková, Martin Magner, Lukáš Lambert, Alice Baxová, Alena Leiská, Lenka Kopečková, Lenka Fajkusová, Jiří Zeman

“…Molecular analyses performed in two patients revealed that they are heterozygotes for a c.6255T>A (p.Cys2085*) variant in the NOTCH2 gene, resulting in a premature stop-codon. Bone mineral density (Z-score < –2) did not improved in a girl treated with calcium and vitamin D supplementation during childhood and bisphosphonate during adolescence. …”
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On the Importance of Asymmetry in the Phenotypic Expression of the Genetic Code upon the Molecular Evolution of Proteins by Marco V. José, Gabriel S. Zamudio

“…The standard genetic code (SGC) is a mapping between the 64 possible arrangements of the four RNA nucleotides (C, A, U, G) into triplets or codons, where 61 codons are assigned to a specific amino acid and the other three are stop codons for terminating protein synthesis. …”
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Structural Features and Phylogenetic Implications of Four New Mitogenomes of Caliscelidae (Hemiptera: Fulgoromorpha) by Nian Gong, Lin Yang, Xiang-Sheng Chen

“…All protein-coding genes (PCGs) started with a canonical ATN or GTG and ended with TAA or an incomplete stop codon single T. Except for two transfer RNAs (tRNAs; trnS1 and trnV) lacking a dihydrouridine arm in the four species and trnC lacking a dihydrouridine stem in the <i>Youtuus</i> species, the remaining tRNAs could fold into canonical cloverleaf secondary structures. …”
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Comparative Mitogenomics Reveals Cryptic Species in <i>Sillago ingenuua</i> McKay, 1985 (Perciformes: Sillaginidae) by Tianxiang Gao, Yijia Shi, Jiaguang Xiao

“…Their nucleotide composition and codon usage were also similar. A phylogenetic analysis was performed based on 13 concatenated PCGs from eight <i>Sillago</i> species. …”
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The Oligopeptide Permease Opp Mediates Illicit Transport of the Bacterial P-site Decoding Inhibitor GE81112 by Alessandro Maio, Letizia Brandi, Stefano Donadio, Claudio O. Gualerzi

“…GE81112 is a tetrapeptide antibiotic that binds to the 30S ribosomal subunit and specifically inhibits P-site decoding of the mRNA initiation codon by the fMet-tRNA anticodon. GE81112 displays excellent microbiological activity against some Gram-positive and Gram-negative bacteria in both minimal and complete, chemically defined, broth, but is essentially inactive in complete complex media. …”
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