Both chimpanzee adenovirus-vectored and DNA vaccines induced long-term immunity against Nipah virus infection by Mingqing Lu, Yanfeng Yao, Xuekai Zhang, Hang Liu, Ge Gao, Yun Peng, Miaoyu Chen, Jiaxuan Zhao, XiaoYu Zhang, Chunhong Yin, Weiwei Guo, Peipei Yang, Xue Hu, Juhong Rao, Entao Li, Tong Chen, Sandra Chiu, Gary Wong, Zhiming Yuan, Jiaming Lan, Chao Shan

“…Here, a recombinant chimpanzee adenovirus-based vaccine (AdC68-G) and a DNA vaccine (DNA-G) were developed by expressing the codon-optimized full-length glycoprotein (G) of NiV. …”
Get full text

Cohort analysis of novel SPAST variants in SPG4 patients and implementation of in vitro and in vivo studies to identify the pathogenic mechanism caused by splicing mutations by Rosangela Ferese, Simona Scala, Antonio Suppa, Antonio Suppa, Rosa Campopiano, Francesco Asci, Alessandro Zampogna, Maria Antonietta Chiaravalloti, Annamaria Griguoli, Marianna Storto, Alba Di Pardo, Emiliano Giardina, Stefania Zampatti, Francesco Fornai, Francesco Fornai, Giuseppe Novelli, Giuseppe Novelli, Mirco Fanelli, Chiara Zecca, Giancarlo Logroscino, Diego Centonze, Diego Centonze, Stefano Gambardella, Stefano Gambardella

“…In contrast, the splicing variant c.1005-1delG differed from what was predicted (skipping exon 7), and the functional study indicates the loss of frame and formation of a premature stop codon. The present study evidenced the high splice variants in SPG4 patients and indicated the relevance of functional assays added to in silico analysis to decipher the pathogenic mechanism.…”
Get full text

RNA modification-related genes illuminate prognostic signature and mechanism in esophageal squamous cell carcinoma by Hui Han, Yucong Sun, Wei Wei, Zixin Huang, Maosheng Cheng, Hongshen Qiu, Juan Wang, Siyi Zheng, Lianlian Liu, Qiang Zhang, Canfeng Zhang, Jieyi Ma, Siyao Guo, Zhaoyu Wang, Zhenpeng Li, Xu Jiang, Shuibin Lin, Qianwen Liu, Shuishen Zhang

“…Mechanically, NSUN6 mediated tRNA m5C modifications selectively enhance the translation efficiency of CDH1 mRNA in a codon dependent manner. Rescue assays revealed that E-cadherin is an essential downstream target that mediates NSUN6’s function in the regulation of ESCC progression. …”
Get full text

CRISPR-Cas9 Toolkit for Genome Editing in an Autotrophic CO2-Fixing Methanogenic Archaeon by Jie Li, Liuyang Zhang, Qing Xu, Wenting Zhang, Zhihua Li, Lei Chen, Xiuzhu Dong

“…Mutations were introduced into an archaeal promoter BRE (transcription factor B [TFB] recognition element), a terminator U-tract region, and a gene coding region. Stop codon introduction into a gene through single-nucleotide substitution shut down its expression, providing an alternative strategy for gene inactivation. …”
Get full text

Genomic Analysis of Ceftazidime/Avibactam-Resistant GES-Producing Sequence Type 235 <i>Pseudomonas aeruginosa</i> Isolates by Raúl Recio, Jennifer Villa, Sara González-Bodí, Patricia Brañas, María Ángeles Orellana, Mikel Mancheño-Losa, Jaime Lora-Tamayo, Fernando Chaves, Esther Viedma

“…WGS revealed the presence of two mutations within the <i>bla</i>_GES-20 gene comprising two single-nucleotide substitutions, which caused aspartic acid/serine and leucine/premature stop codon amino acid changes at positions 165 (D165S) and 237 (L237X), respectively. …”
Get full text

The Cancer Driver Genes IDH1 and IDH2 and CD204 in WHO-Grade 4 Astrocytoma: Crosstalk Between Cancer Metabolism and Tumour Associated Macrophage Recruitment in Tumour Microenvironm... by Kurdi M, Mulla N, Katib Y, Alsinani T, Hakamy S, MJ Addas B, Malibary H, Halawa TF, S Farhan M, Faizo E, Baeesa S

“…The alteration hotspot in codon IDH1R132 and IDH2R172 was examined using direct sequencing. …”
Get full text

Effects of <i>Bt-Cry1Ah1</i> Transgenic Poplar on Target and Non-Target Pests and Their Parasitic Natural Enemy in Field and Laboratory Trials by Pu Wang, Hui Wei, Weibo Sun, Lingling Li, Peijun Zhou, Dawei Li, Zhuge Qiang

“…We generated a <i>Bt-Cry1Ah1</i> gene incorporating codon optimization and transferred it into <i>Populus deltoides</i> × <i>P. euramericana</i> cv “Nanlin895” using an Agrobacterium-mediated method. …”
Get full text

Mapping-by-sequencing using NGS-based 3′-MACE-Seq reveals a new mutant allele of the essential nodulation gene Sym33 (IPD3) in pea (Pisum sativum L.) by Aleksandr I. Zhernakov, Oksana Y. Shtark, Olga A. Kulaeva, Jaroslava V. Fedorina, Alexey M. Afonin, Anna B. Kitaeva, Viktor E. Tsyganov, Fabian Afonso-Grunz, Klaus Hoffmeier, Björn Rotter, Peter Winter, Igor A. Tikhonovich, Vladimir A. Zhukov

“…Sequencing of the Sym33 allele of the N24 (sym11) mutant revealed a single nucleotide deletion (c.C319del) in its third exon resulting in a codon shift in the open reading frame and premature translation termination. …”
Get full text

Aflatoxin B1: Mechanism of mutagenesis by Regina M. Santella

“…AFB1 exposure is also associated with a specific codon 249 AGG (arginine) to AGT (serine) mutation in the p53 tumor suppressor gene that inactivates the protein. …”
Get full text

Plastome evolution and phylogenomics of Trichosporeae (Gesneriaceae) with its morphological characters appraisal by Yan-Fang Cui, Peng Zhou, Kun-Li Xiang, Qiang Zhang, Hua Yan, Li-Guo Zhang, Bo Pan, Yu-Song Huang, Zhi-You Guo, Zhen-Yu Li, Xiao-Guo Xiang

“…The RSCU and ENC values indicated that the codon usage pattern was conserved in Trichosporeae. …”
Get full text

Comparative analyses and phylogenetic relationships of thirteen Pholidota species (Orchidaceae) inferred from complete chloroplast genomes by Lin Li, Wanyao Wang, Guoqiang Zhang, Kunlin Wu, Lin Fang, Mingzhi Li, Zhongjian Liu, Songjun Zeng

“…The annotation contained a total of 135 genes in each cp. genome, i.e., 89 protein-coding genes, 38 tRNA genes, and eight rRNA genes. The codon usage analysis indicated the preference of A/U-ending codons. …”
Get full text

The exon-skipping oligonucleotide, KitStop, depletes tissue-resident mast cells in vivo to ameliorate anaphylaxis by Barry A. Hedgespeth, Barry A. Hedgespeth, Barry A. Hedgespeth, Barry A. Hedgespeth, Douglas B. Snider, Douglas B. Snider, Douglas B. Snider, Douglas B. Snider, Katie J. Bitting, Glenn Cruse, Glenn Cruse

“…KitStop administration results in the integration of a premature stop codon within the mRNA transcript of the KIT receptor—a receptor tyrosine kinase found primarily on mast cells and whose gain-of-function mutation can lead to systemic mastocytosis. …”
Get full text

The chloroplast genome of Farsetia hamiltonii Royle, phylogenetic analysis, and comparative study with other members of Clade C of Brassicaceae by Nida Javaid, Musarrat Ramzan, Ishtiaq Ahmad Khan, Tahani Awad Alahmadi, Rahul Datta, Shah Fahad, Subhan Danish

“…The genomes of F. hamiltonii and F. occidentalis show shared amino acid frequencies and codon use, RNA editing sites, simple sequence repeats, and oligonucleotide repeats. …”
Get full text

Revisiting chloroplast genomic landscape and annotation towards comparative chloroplast genomes of Rhamnaceae by Kwanjeera Wanichthanarak, Intawat Nookaew, Phongthana Pasookhush, Thidathip Wongsurawat, Piroon Jenjaroenpun, Namkhang Leeratsuwan, Songsak Wattanachaisaereekul, Wonnop Visessanguan, Yongyut Sirivatanauksorn, Narong Nuntasaen, Chutima Kuhakarn, Vichai Reutrakul, Pravech Ajawatanawong, Sakda Khoomrung

“…The clustering based on codon usage was congruent with the molecular phylogenetic tree. …”
Get full text

Complete Chloroplast Genomes and the Phylogenetic Analysis of Three Native Species of Paeoniaceae from the Sino-Himalayan Flora Subkingdom by Hanbing Cai, Rong Xu, Ping Tian, Mengjie Zhang, Ling Zhu, Tuo Yin, Hanyao Zhang, Xiaozhen Liu

“…In addition, the genomes had 61–64 SSRs, with mononucleotide repeats being the most abundant. The codon bias patterns of the three species tend to use codons ending in A/U. …”
Get full text

The fluorescent protein iLOV as a reporter for screening of high‐yield production of antimicrobial peptides in Pichia pastoris by Annemette Kjeldsen, Jack E. Kay, Scott Baxter, Stephen McColm, Cristina Serrano‐Amatriain, Scott Parker, Ellis Robb, S. Alison Arnold, Craig Gilmour, Anna Raper, Graeme Robertson, Robert Fleming, Brian O. Smith, Ian G. Fotheringham, John M. Christie, Leonardo Magneschi

“…An easy and simple medium‐throughput plate‐based screen directly following transformation is demonstrated for low complexity screening, while a high‐throughput method using fluorescence‐activated cell sorting (FACS) allowed for comprehensive library screening. Both codon optimization of the iLOV_NI01 fusion cassettes and different integration strategies into the P. pastoris genome were tested to produce and isolate a high‐yielding strain. …”
Get full text

Developing genome-editing strategies to ameliorate HbE/beta-thalassaemia by Badat, M

“…Next base editors, a modular variant of the CRISPR/Cas9 system, were used to repair the pathogenic codon 26 mutation in the HBB gene that causes HbE/β-thalassaemia. …”

Vocal Cord Paralysis and Feeding Difficulties as Early Diagnostic Clues of Congenital Myasthenic Syndrome with Neonatal Onset: A Case Report and Review of Literature by Domenico Umberto De Rose, Sara Ronci, Stefano Caoci, Chiara Maddaloni, Daria Diodato, Michela Catteruccia, Fabiana Fattori, Luca Bosco, Stefano Pro, Immacolata Savarese, Iliana Bersani, Franco Randi, Marilena Trozzi, Duino Meucci, Flaminia Calzolari, Guglielmo Salvatori, Agostina Solinas, Andrea Dotta, Francesca Campi

“…In particular, the c.565C>T variant is novel and has never been described in the literature; it causes the insertion of a premature stop codon (p.Arg189Ter) likely leading to a consequent formation of a truncated nonfunctioning protein. …”
Get full text

Targeted and selective knockout of the TLQP-21 neuropeptide unmasks its unique role in energy homeostasis by Bhavani S. Sahu, Maria Razzoli, Seth McGonigle, Jean Pierre Pallais, Megin E. Nguyen, Masato Sadahiro, Cheng Jiang, Wei-Jye Lin, Kevin A. Kelley, Pedro Rodriguez, Rachel Mansk, Cheryl Cero, Giada Caviola, Paola Palanza, Loredana Rao, Megan Beetch, Emilyn Alejandro, Yuk Y. Sham, Andrea Frontini, Stephen R. Salton, Alessandro Bartolomucci

“…To achieve this goal, we used a knowledge-based approach by mutating a codon in the Vgf sequence leading to the substitution of the C-terminal Arginine of TLQP-21, which is the pharmacophore as well as an essential cleavage site from its precursor, into Alanine (R21→A). …”
Get full text

Molecular and hematological studies in a cohort of beta zero South East Asia deletion (β°-thal SEA) from Malaysian perspective by Norafiza Mohd Yasin, Faidatul Syazlin Abdul Hamid, Syahzuwan Hassan, Aziee Sudin, Haiyuni Yassim, Ermi Neiza Mohd Sahid, Yuslina Mat Yusoff, Ezalia Esa, Mohamed Saleem

“…The mean Hb for heterozygous β°-thal SEA deletion (13.44 ± 1.45 g/dl) was normal and significantly higher than heterozygous IVS 1-1 and Codon 41/42 (post hoc test, p &lt; 0.05). The medians for the MCV and MCH of β°-thal SEA deletion were significantly higher than for all heterozygote β°-thalassaemia traits (Mann Whitney test, p &lt; 0.05). …”
Get full text