Restriction digest screening facilitates efficient detection of site-directed mutations introduced by CRISPR in C. albicans UME6 by Ben A. Evans, Olivia L. Smith, Ethan S. Pickerill, Mary K. York, Kristen J.P. Buenconsejo, Antonio E. Chambers, Douglas A. Bernstein

“…To more efficiently screen for correct transformants, we have identified restriction enzymes sites that encode for two identical amino acids or one or two stop codons. We used CRISPR to introduce these restriction sites directly upstream of the Candida albicans UME6 Zn2+-binding domain, a known regulator of C. albicans filamentation. …”
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The first determination and analysis of the complete mitochondrial genome of Ancistrus temmincki (Siluriformes: Loricariidae) by Fang Meng, Xiaolong Yin, Tao Zhang, Chunyan Zhao, Xianglong Xue, Xianglong Xia, Xintao Zhu, Zaixian Duan, Bingjian Liu, Yifan Liu

“…All protein-coding genes were started with ATG except for GTG in CO1, while stopped with the standard TAN codons or a single T. The control region (D-loop) ranging from 15,635 bp to 16,657 bp was 1023 bp in size. …”
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Skeletal muscle delimited myopathy and verapamil toxicity in SUR2 mutant mouse models of AIMS by Conor McClenaghan, Maya A Mukadam, Jacob Roeglin, Robert C Tryon, Manfred Grabner, Anamika Dayal, Gretchen A Meyer, Colin G Nichols

“…We found reduced exercise performance in mouse models of AIMS harboring premature stop codons in ABCC9. Given the roles of KATP channels in all muscles, we sought to determine how myopathy arises using tissue‐selective suppression of KATP and found that LoF in skeletal muscle, specifically, underlies myopathy. …”
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Novel Prion Protein Gene Polymorphisms in Awassi Sheep in Three Regions of the Fertile Crescent by Faisal S. Rashaydeh, Mehmet A. Yildiz, Abdulrahman S. Alharthi, Hani H. Al-Baadani, Ibrahim A. Alhidary, Hasan Meydan

“…There were seven alleles and eleven genotypes observed based on codons 136, 154, and 171 of <i>PRNP</i>. The ARQ allele was predominant in all populations. …”
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The Bluetongue Disabled Infectious Single Animal (DISA) Vaccine Platform Based on Deletion NS3/NS3a Protein Is Safe and Protective in Cattle and Enables DIVA by Piet A. van Rijn, Mieke A. Maris-Veldhuis, René G. P. van Gennip

“…In conclusion, the in-frame deletion of 72-aa codons in the BT DISA/DIVA vaccine platform is sufficient to fulfil all the criteria for modern veterinary vaccines.…”
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Structural Requirements in the Hemagglutinin Cleavage Site-Coding RNA Region for the Generation of Highly Pathogenic Avian Influenza Virus by Yurie Kida, Kosuke Okuya, Takeshi Saito, Junya Yamagishi, Aiko Ohnuma, Takanari Hattori, Hiroko Miyamoto, Rashid Manzoor, Reiko Yoshida, Naganori Nao, Masahiro Kajihara, Tokiko Watanabe, Ayato Takada

“…In virus particles generated by using reverse genetics, nucleotide insertions that created additional codons for basic amino acids were found in the RNA region encoding the cleavage site of an H5 HA gene but not in the mutated RNA region. …”
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In silico prediction of the metabolism of Blastocrithidia nonstop, a trypanosomatid with non-canonical genetic code by Fred R. Opperdoes, Kristína Záhonová, Ingrid Škodová-Sveráková, Barbora Bučková, Ľubomíra Chmelová, Julius Lukeš, Vyacheslav Yurchenko

“…This is the case of Blastocrithidia nonstop, a trypanosomatid flagellate that reassigned all three stop codons to encode amino acids. Results We in silico predicted the metabolism of B. nonstop and compared it with that of the well-studied human parasites Trypanosoma brucei and Leishmania major. …”
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Method for Rapid Analysis of Mutant RNA Polymerase Activity on Templates Containing Unnatural Nucleotides by Tatiana Egorova, Ekaterina Shuvalova, Sabina Mukba, Alexey Shuvalov, Peter Kolosov, Elena Alkalaeva

“…In general, an approach is used to engineer orthogonal systems capable of reading codons comprising artificial nucleotides; however, DNA and RNA polymerases capable of recognizing unnatural nucleotides are required for amplification and transcription of templates. …”
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Frequency and effects of mutations in the KRAS gene on the survival of patients after surgical treatment of intrahepatic cholangiocarcinoma by B. N. Gurmikov, D. V. Kalinin, I. G. Nikitin, T. A. Zhinzhilo, A. N. Shipilova, A. V. Chzhao

“…In the Russian population, the frequency of mutations in the KRAS gene in ICC was 27%, mainly in 12 (78%), 13 (33%), 61 (55%), 117 (44%) and 146 (44%) codons of 2, 3, 4 exons. In terms of KRAS gene mutations, intrahepatic cholangiocellular cancer is characterised by a pronounced heterogeneity. …”
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Comparative sequence analysis elucidates the evolutionary patterns of Yersinia pestis in New Mexico over thirty-two years by Mary E. Warren, Brett E. Pickett, Byron J. Adams, Crystal Villalva, Alyssa Applegate, Richard A. Robison

“…Results We identified four genes, including Yscp and locus tag YPO3944, which contained codons undergoing negative selection. We also observed 42 nucleotide sites displaying a statistically significant skew in the observed residue distribution based on the year of isolation. …”
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Restoration of functional PAX6 in aniridia patient iPSC-derived ocular tissue models using repurposed nonsense suppression drugs by Dulce Lima Cunha, Hajrah Sarkar, Jonathan Eintracht, Philippa Harding, Jo Huiqing Zhou, Mariya Moosajee

“…Translational readthrough-inducing drugs (TRIDs) have the ability to weaken the recognition of in-frame premature termination codons (PTCs), permitting full-length protein to be translated. …”
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Survey of Oxolinic Acid-Resistant Erwinia amylovora in Korean Apple and Pear Orchards, and the Fitness Impact of Constructed Mutants by Hyeonheui Ham, Ga-Ram Oh, Dong Suk Park, Yong Hoon Lee

“…Resistance was associated with mutations in the GyrA at codons 81 and 83, which result in glycine to cysteine and serine to arginine amino acid substitutions, respectively. …”
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DNA Code from Cyclic and Skew Cyclic Codes over <inline-formula><math display="inline"><semantics><mrow><msub><mi mathvariant="double-struck">F</mi><mn>4</mn></msub><mrow><mo>[</mo... by Om Prakash, Ashutosh Singh, Ram Krishna Verma, Patrick Solé, Wei Cheng

“…We show an association between the codons and the elements of <inline-formula><math xmlns="http://www.w3.org/1998/Math/MathML" display="inline"><semantics><mi mathvariant="script">R</mi></semantics></math></inline-formula> using a Gray map. …”
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Nonsense suppression induced readthrough of a novel PAX6 mutation in patient‐derived cells of congenital aniridia by Xiaoliang Liu, Yuanyuan Zhang, Bijun Zhang, Haiming Gao, Chuang Qiu

“…Most cases are caused by the paired box 6 (PAX6) gene mutations generating premature termination codons (PTCs). Methods Ophthalmic examination was performed on a Chinese pedigree with congenital aniridia. …”
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High production MBL2 polymorphisms protect against COVID-19 complications in critically ill patients: A retrospective cohort study by Lorena Viana de Andrade, Mirela Vanessa de Souza Sá, Beatriz Vasconcelos, Luydson Richardson Silva Vasconcelos, Ricardo Khouri, Carlos Dornels Freire de Souza, Anderson da Costa Armstrong, Rodrigo Feliciano do Carmo

“…Polymorphisms in MBL2 exon 1 (codons 52, 54 and 57) and promoter region (−550, −221, and +4) were determined by real-time PCR. …”
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Genetic Evolution and Variation of Human Adenovirus Serotype 31 Epidemic Strains in Beijing, China, during 2010–2022 by Liying Liu, Yuan Qian, Zhenzhi Han, Liping Jia, Huijin Dong, Linqing Zhao, Runan Zhu

“…Four out of the six predicted positive selection pressure codons were also in the knob of fiber. These results reveal the molecular evolution characteristics and variations of HAdV-31 in Beijing, and fiber may be one of the main evolution driving forces.…”
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Transcriptome Analysis of Alternative Splicing Events Induced by Arbuscular Mycorrhizal Fungi (<i>Rhizophagus irregularis</i>) in Pea (<i>Pisum sativum</i> L.) Roots by Evgeny A. Zorin, Alexey M. Afonin, Olga A. Kulaeva, Emma S. Gribchenko, Oksana Y. Shtark, Vladimir A. Zhukov

“…In pea mycorrhizal roots, the isoforms of these four genes with preliminary stop codons leading to a truncated ORFs were up-regulated. …”
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Combining nonsense mutation suppression therapy with nonsense-mediated decay inhibition in neurofibromatosis type 1 by Sara H. Osum, Eunice I. Oribamise, Stanislas M.A.S. Corbière, Mandy Taisto, Tyler Jubenville, Alex Coutts, Mark N. Kirstein, James Fisher, Christopher Moertel, Ming Du, David Bedwell, David A. Largaespada, Adrienne L. Watson

“…Twenty percent of NF1 patients harbor nonsense mutations resulting in premature termination codons (PTCs). Nonsense suppression therapies can facilitate ribosomal readthrough of PTCs to restore full-length protein, but their potential in NF1 is underexplored. …”
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Defining the Functional Interactome of Spliceosome-Associated G-Patch Protein Gpl1 in the Fission Yeast <i>Schizosaccharomyces pombe</i> by Tomas Selicky, Matus Jurcik, Barbora Mikolaskova, Alexandra Pitelova, Nina Mayerova, Miroslava Kretova, Michaela Osadska, Jan Jurcik, Roman Holic, Lenka Kohutova, Jana Bellova, Zsigmond Benko, Juraj Gregan, Silvia Bagelova Polakova, Peter Barath, Lubos Cipak, Ingrid Cipakova

“…Furthermore, RT-qPCR analysis of the splicing efficiency of deletion mutants indicated that the absence of any of the components of the Gpl1-Gih35-Wdr83 complex leads to defective splicing of <i>fet5</i> and <i>pwi1</i>, the reference genes whose unspliced isoforms harboring premature stop codons are targeted for degradation by the nonsense-mediated decay (NMD) pathway. …”
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Core Proteomics and Immunoinformatic Approaches to Design a Multiepitope Reverse Vaccine Candidate against Chagas Disease by Sk Injamamul Islam, Saloa Sanjida, Sheikh Sunzid Ahmed, Mazen Almehmadi, Mamdouh Allahyani, Abdulelah Aljuaid, Ahad Amer Alsaiari, Mustafa Halawi

“…Finally, by optimizing codons on <i>Escherichia coli</i> K12, a high GC content and CAI value were obtained, which were then incorporated into the cloning vector pET2+ (a). …”
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