The Mediation of Circulating Inflammatory Proteins in the Causal Pathway from Immune Cells to COPD by Yan K, Wang Y, Xin P

“…The objective of this study was to ascertain the causal relationship between immune cells and COPD and to quantify the potential role of circulating inflammatory proteins as mediators.Methods: A two-sample Mendelian randomisation analysis was conducted involving 731 immune cells, 91 inflammatory proteins and COPD, utilising summary-level data from genome-wide association studies. The causal relationships between immune cells, inflammatory proteins and COPD were sequentially analysed by multivariate Mendelian randomisation and validated using Bayesian weighted Mendelian randomisation. …”
Get full text

Prevalence of Ticks Infesting Dairy Cattle and the Pathogens They Harbour in Smallholder Farms in Peri-Urban Areas of Nairobi, Kenya by Shepelo Getrude Peter, Hellen Wambui Kariuki, Gabriel Oluga Aboge, Daniel Waweru Gakuya, Ndichu Maingi, Charles Matiku Mulei

“…Each animal was examined for attached ticks followed by morphological tick identification at the species level. Genomic DNA was extracted from each of the ticks, and 16S rDNA gene was amplified for pathogen identification. …”
Get full text

Molecular Assessment of Domain I of Apical Membrane Antigen I Gene in Plasmodium falciparum: Implications in Plasmodium Invasion, Taxonomy, Vaccine Development, and Drug Discovery by Che Roland Achungu, Damian Nota Anong, Robert Adamu Shey, Cevie Jesenta Tabe

“…The creation of a universal malaria vaccine based on the AMA1 antigen is challenging due to these knowledge limitations. This study used genome mining techniques to look for these particular short peptides in PfAMA1. …”
Get full text

Isolation, characterization and therapeutic efficacy of lytic bacteriophage ZK22 against Salmonella Typhimurium in mice by Yihong Sun, Qing Qu, Yanhua Huang, Shuo Zhou, Hua Xiang, Wei Wang

“…It exhibited favorable capability against 20 strains of S. Typhimurium. The genome of ZK22 consisted of a double-stranded DNA with a total length of 47,066 base pairs and a GC content of 45.71%. …”
Get full text

The problem of conservation of gene pools of domesticated animals by Yu. A. Stolpovskiy, I. A. Zakharov-Gezekhus

“…Using various DNA markers, methods of genomic and genetic breeding in nature conservation and genetic selection of domesticated species provides an opportunity to obtain data on the genetic potential (value, originality) of the breed, which is important for scientific justification of its preservation.…”
Get full text

Comparative lipidome and transcriptome provide novel insights into zero-valent iron nanoparticle-treated Fremyella diplosiphon by Yavuz S. Yalcin, Samson Gichuki, Huan Chen, Anithachristy Sigamani Arumanayagam, Shyama Malika Malwalage, Viji Sitther

Get full text

Transcriptomic data reveals MYC as an upstream regulator in laying hen follicular recruitment by Ashley E Kramer, Kathryn M Ellwood, Nicole Guarino, Cong-Jun Li, Aditya Dutta

Get full text

Determining the Potential Roles of Branched-Chain Amino Acids in the Regulation of Muscle Growth in Common Carp (Cyprinus carpio) Based on Transcriptome and MicroRNA Sequencing by Xianglin Cao, Han Cui, Xinyu Ji, Baohua Li, Ronghua Lu, Yuru Zhang, Jianjun Chen

“…Kyoto Encyclopedia of Genes and Genome pathways, including the proteasome, phagosome, autophagy in animals, proteasome activator complex, and ubiquitin-dependent protein catabolic process, were enriched for these DEGs and DEMs. …”
Get full text

Multi-modal comparison of molecular programs driving nurse cell death and clearance in Drosophila melanogaster oogenesis. by Shruthi Bandyadka, Diane P V Lebo, Albert A Mondragon, Sandy B Serizier, Julian Kwan, Jeanne S Peterson, Alexandra Y Chasse, Victoria K Jenkins, Anoush Calikyan, Anthony J Ortega, Joshua D Campbell, Andrew Emili, Kimberly McCall

“…To identify and contrast the molecular pathways underlying these morphologically and genetically distinct cell death paradigms, both mediated by follicle cells, we compared their genome-wide transcriptional, translational, and secretion profiles before and after differentiating to acquire a phagocytic capability, as well as during well-fed and nutrient-deprived conditions. …”
Get full text

Fast and accurate imputation of genotypes from noisy low-coverage sequencing data in bi-parental populations. by Cécile Triay, Alice Boizet, Christopher Fragoso, Anestis Gkanogiannis, Jean-François Rami, Mathias Lorieux

“…The main issues with these low-coverage genotyping methods are (1) poor performance at heterozygous loci, (2) high percentage of missing data, (3) local errors due to erroneous mapping of sequencing reads and reference genome mistakes, and (4) global, technical errors inherent to NGS itself. …”
Get full text

Phylogenetic and pangenomic analyses of members of the family <i>Micrococcaceae</i> related to a plant-growth-promoting rhizobacterium isolated from the rhizosphere of potato (<i>S... by S. Yu. Shchyogolev, G. L. Burygin, L. A. Dykman, L. Yu. Matora

“…In these studies, we used whole-genome phylogenetic tests and pangenomic analysis. …”
Get full text

Microbiome of <i>Hyalomma dromedarii</i> (Ixodida: Ixodidae) Ticks: Variation in Community Structure with Regard to Sex and Host Habitat by Nighat Perveen, Alejandro Cabezas-Cruz, Daniil Iliashevich, Lianet Abuin-Denis, Olivier Andre Sparagano, Arve Lee Willingham

“…A total of 40 ticks (male (15), female (15), and nymph (10)) were selected from tick samples collected from camels and processed for genomic DNA and next-generation sequencing using the Illumina MiSeq platform. …”
Get full text

Ki-67 and CDK1 control the dynamic association of nuclear lipids with mitotic chromosomes by Hsiao-Tang Hu, Ueh-Ting Tim Wang, Bi-Chang Chen, Yi-Ping Hsueh, Ting-Fang Wang

“…Given that Ki-67 has been proposed to promote chromosome individualization and establish chromosome-cytoplasmic compartmentalization during open mitosis in vertebrates, our results reveal that nuclear lipid enrichment at the perichromosomal layer enhances the ability of Ki-67 to form a protective perichromosomal barrier (chromosome envelope), which is critical for correct chromosome segregation and maintenance of genome integrity during mitosis.…”
Get full text

Developing a novel model for predicting overall survival in late-onset colon adenocarcinoma patients based on LODDS: a study based on the SEER database and external validation by Chen Chen, Heng-Bo Xia, Wei-Wei Yuan, Meng-Ci Zhou, Xue Zhang, A.-Man Xu

“…Results A total of 103,291 and 100 patients with late-onset colon adenocarcinoma (50–80 years old) were screened from the Surveillance, Epidemiology, and End Results (SEER) and The Cancer Genome Atlas (TCGA) databases, respectively. Cox regression analysis revealed independent risk factors for OS and CSS, including age, gender, race, size, LODDS stage, PLN stage, LNR stage, and TNM stage. …”
Get full text

Epigenome-wide DNA methylation profiling in septic and non-septic patients with similar infections: potential use as sepsis biomarkers by Ian López-Cruz, Ian López-Cruz, José Luis García-Giménez, José Luis García-Giménez, José Luis García-Giménez, Manuel Madrazo, Manuel Madrazo, Judit García-Guallarte, Laura Piles, Federico V. Pallardó, Federico V. Pallardó, Federico V. Pallardó, Arturo Artero, Arturo Artero

“…Whole blood samples from these patients were analyzed using the Infinium MethylationEPIC v2.0 kit, enabling genome-wide methylation analysis. Selected genes with differential methylation were validated by pyrosequencing.ResultsSignificant differential DNA methylation patterns were identified between septic and non-septic individuals uising. …”
Get full text

Characterization of <i>Streptococcus pyogenes</i> Strains from Tonsillopharyngitis and Scarlet Fever Resurgence, 2023—FIRST Detection of M1_UK in Bulgaria by Emma Keuleyan, Theodor Todorov, Deyan Donchev, Ani Kevorkyan, Radoslava Vazharova, Alexander Kukov, Georgi Todorov, Boriana Georgieva, Iskra Altankova, Yordanka Uzunova

“…Virulence factors were identified using multiplex PCR and whole genome sequencing (WGS). Immune responses were measured through detection of serum complement levels, lymphocyte subsets, and cytokine profiling. …”
Get full text

Metagenomic analysis of DNA viruses from posttransplant lymphoproliferative disorders by Vikas R. Dharnidharka, Marianna B. Ruzinova, Chun‐Cheng Chen, Priyanka Parameswaran, Harry O'Gorman, Charles W. Goss, Hongjie Gu, Gregory A. Storch, Kristine Wylie

“…Most clinical/epidemiological/tumor characteristics do not consistently associate with worse patient survival, so our aim was to identify if other viral genomic characteristics associated better with survival. …”
Get full text

TP53 Mutation Predicts Worse Survival and Earlier Local Progression in Patients with Hepatocellular Carcinoma Treated with Transarterial Embolization by Ken Zhao, Anita Karimi, Luke Kelly, Elena Petre, Brett Marinelli, Erica S. Alexander, Vlasios S. Sotirchos, Joseph P. Erinjeri, Anne Covey, Constantinos T. Sofocleous, James J. Harding, William Jarnagin, Carlie Sigel, Efsevia Vakiani, Etay Ziv, Hooman Yarmohammadi

“…This single-institution study included patients from 1/2014 to 6/2022 who underwent TAE of HCC and genomic analysis of tumoral tissue. The primary outcome was overall survival (OS) with relation to TP53 status, and the secondary outcome was the time to progression. …”
Get full text

Therapeutic benefit of the dual ALK/FAK inhibitor ESK440 in ALK-driven neuroblastoma by Seema Chugh, Jean C. Tien, Jennifer Hon, Carson Kenum, Rahul Mannan, Yunhui Cheng, Chi Chiang Li, Zainab I. Taher, Andrew D. Delekta, Pushpinder Singh Bawa, Ingrid J. Apel, Stephanie J. Miner, Xuhong Cao, Rohit Mehra, Saravana M. Dhanasekaran, Yuanyuan Qiao, Rajen Mody, Arul M. Chinnaiyan

“…Standard therapy involves highly toxic chemotherapy, surgery, radiation, and immunotherapy, and less toxic, more specific targeted therapies are urgently needed. Genomic studies have identified common driver aberrations in high-risk NB, such as MYCN amplification. …”
Get full text

Carbon monoxide-oxidising Pseudomonadota on volcanic deposits by Robin A. Dawson, Nicola Fantom, Tamara Martin-Pozas, Patricia Aguila, Gary M. King, Marcela Hernández

“…Both strains oxidise CO across a broad range of concentrations (< 100 ppmv – 10,000 ppmv), and genome sequence analysis revealed a candidate form-I carbon monoxide dehydrogenase (CODH), which is likely to catalyse this process. …”
Get full text