Enzymes enabling the biosynthesis of various C20 polyunsaturated fatty acids in a sea urchin Hemicentrotus pulcherrimus by Yingying Peng, Yutaka Haga, Naoki Kabeya

“…Specifically, 3 fatty acid desaturases (FadsA, FadsC1 and FadsC2) and 13 elongation of very-long-chain fatty acids proteins (Elovl-like, Elovl1/7-like, Elovl2/5-like, Elovl4-like, Elovl8-like and Elovl6-like A–H) were identified in their genome and transcriptomes. Functional analysis showed that FadsA and FadsC2 function as a Δ5 desaturase and a Δ8 desaturase, respectively, enabling the conversion of 18:2n-6 and 18:3n-3 into ARA and EPA, respectively, along with Elovl, particularly Elovl6-like C. …”
Get full text

Activin levels correlate with lymphocytic infiltration in epithelial ovarian cancer by Elizabeth T. Evans, Emily F. Page, Alex Seok Choi, Zainab Shonibare, Andrea G. Kahn, Rebecca C. Arend, Karthikeyan Mythreye

“…Immune gene expression profile was further explored within the TCGA‐OV cohort derived from The Cancer Genome Atlas (TCGA). Immunohistochemical analysis was performed to evaluate activin A and T‐cell markers CD8 and FoxP3 at the protein level. …”
Get full text

Characterization of the First Marine Pestivirus, Phocoena Pestivirus (PhoPeV) by Lars Söder, Denise Meyer, Olaf Isken, Norbert Tautz, Matthias König, Alexander Postel, Paul Becher

“…No degradation of IRF3 and an increased expression of the type 1 interferon-stimulated antiviral protein Mx1 was observed in porcine cells infected with PhoPeV whose genome lacks the N^pro encoding region. …”
Get full text

Clinical Utility of Combined Tissue and Plasma Next-Generation Sequencing in Patients With Advanced, Treatment-Naïve NSCLC by Helena Bote-de Cabo, MD, Marco Siringo, MD, Esther Conde, MD, PhD, Susana Hernández, PhD, Fernando López-Ríos, MD, PhD, Alicia Castelo-Loureiro, MD, Esther García-Lorenzo, MD, Javier Baena, MD-PhD, Mercedes Herrera, MD, Ana Belén Enguita, MD, Yolanda Ruano, PhD, Jon Zugazagoitia, MD, PhD, Luis Paz-Ares, MD, PhD

“…Methods: We retrospectively collected clinical and genomic data from 275 patients with treatment-naïve advanced NSCLC who had undergone plasma-based NGS at diagnosis in our institution. …”
Get full text

Aberrant Expression of JAM2 Inhibits Invasion and Migration in Lung Adenocarcinoma by Jun Chen, Yuan Cui, Zhimeng Chen, Hao Ding, Chang Li, Sheng Ju, Cheng Ding, Chun Xu, Jun Zhao, Xin Tong

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses were conducted among co‐expression genes in different JAM2 subgroups. …”
Get full text

Whole blood transcriptome profiles of trypanotolerant and trypanosusceptible cattle highlight a differential modulation of metabolism and immune response during infection by Trypan... by Peylhard, Moana, Berthier, David, Dayo, Guiguigbaza-Kossigan, Chantal, Isabelle, Sylla, Souleymane, Nidelet, Sabine, Dubois, Emeric, Martin, Guillaume, Sempéré, Guilhem, Flori, Laurence, Thévenon, Sophie

“…To this end, whole blood genome-wide transcriptome of three trypanotolerant taurine breeds (N’Dama, Lagune and Baoulé), one susceptible zebu (Zebu Fulani) and one African taurine x zebu admixed breed (Borgou) were profiled by RNA sequencing at four time points, one before and three during infection. …”
Get full text

Revisiting ABC Transporters and Their Clinical Significance in Glioblastoma by Brandon Wee Siang Phon, Shalini Sundramurthi Chelliah, Dina El-Rabie Osman, Saatheeyavaane Bhuvanendran, Ammu Kutty Radhakrishnan, Muhamad Noor Alfarizal Kamarudin

“…Using the datasets in The Cancer Genome Atlas and Gene Expression Omnibus, we found upregulated ABC transporters that either negatively impacted survival in univariate analyses (ABCA1, ABCA13, ABCB9, ABCD4) or were independent negative prognosis factors for patients with GBM (ABCA13, ABCB9). …”
Get full text

Exercise-induced methylation of the Serhl2 promoter and implication for lipid metabolism in rat skeletal muscle by Mutsumi Katayama, Kazuhiro Nomura, Jonathan M. Mudry, Alexander V. Chibalin, Anna Krook, Juleen R. Zierath

“…To determine the skeletal muscle DNA methylation signature of endurance swim training, we used whole-genome methylated DNA immunoprecipitation (MeDIP) sequencing. …”
Get full text

Сandidate SNP-markers of rheumatoid arthritis that can significantly alter the affinity of the TATA-binding protein for human gene promoters by I. V. Chadaeva, D. A. Rasskazov, E. B. Sharypova, I. A. Drachkova, E. A. Oshchepkova, L. K. Savinkova, P. M. Ponomarenko, M. P. Ponomarenko, N. A. Kolchanov, V. A. Kozlov

“…That is why, RA fits the main idea of postgenomic predictive-preventive personalized medicine that is to give a chance to those who would like to reduce his/her risk of diseases by bringing his/her conditions and lifestyle in line with the data on his/her genome sequenced. This is very important, since doctors consider RA as one of the most frequent causes of disability. …”
Get full text

Expression and prognostic value of ferritinophagy-related NCOA4 gene in low-grade glioma: integration of bioinformatics and experimental validation by Guangtang Chen, Xueping Shi, Rukai Jiao, Jiacai Qian, Xiaolin Du, Jian Liu, Xi Zeng

“…Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses indicated that NCOA4’s primary function in LGG is related to autophagy processes (all p < 0.05). …”
Get full text

Soil warming increases the active antibiotic resistome in the gut of invasive giant African snails by Yiyue Zhang, Hong-Zhe Li, Martin Breed, Zhonghui Tang, Li Cui, Yong-Guan Zhu, Xin Sun

“…Among 299 high-quality ARG-carrying metagenome-assembled genomes (MAGs), we further revealed that the soil warming enhances the abundance of “supercarriers” including human pathogens with multiple ARGs and virulence factors. …”
Get full text

A DNA-Methylated Sight on Autoimmune Inflammation Network across RA, pSS, and SLE by Xingqiang Wang, Dongyun Lei, Jie Ding, Shuang Liu, Li Tao, Fan Zhang, Jiangyun Peng, Jian Xu

“…In this study, we integrated 5 Cytokine-Chips from genome-wide DNA methylation datasets of the 3 kind of AIDs, delta-beta value was calculated for intergroup difference, and comprehensive bioinformatics analyses of cytokine genes with aberrant methylations were performed. 125 shared differential methylation variabilities (DMVs) were identified. …”
Get full text

Tumour DNA methylation markers associated with breast cancer survival: a replication study by Elaheh Zarean, Shuai Li, Ee Ming Wong, Enes Makalic, Roger L. Milne, Graham G. Giles, Catriona McLean, Melissa C. Southey, Pierre-Antoine Dugué

“…Candidate methylation sites (N = 22) and signatures (N = 3) potentially associated with breast cancer survival were identified from five prior studies that used The Cancer Genome Atlas (TCGA) methylation dataset, which shares key characteristics with the MCCS: comparable sample size, tissue type (formalin-fixed paraffin-embedded; FFPE), technology (Illumina HumanMethylation450 array), and participant characteristics (age, ancestry, and disease subtype and severity). …”
Get full text

Cell-free DNA release following psychosocial and physical stress in women and men by A. S. Limberg, F. Berg, E. Köper, C. Lindgraf, C. Gevers, R. Kumsta, E. M. Hummel, D. A. Moser

“…To overcome this, a multiplex quantitative polymerase chain reaction (qPCR) protocol targeting L1PA2 elements, which are prevalent in the human genome, was utilized. The analysis indicated significantly elevated levels of cf-nDNA in both plasma and saliva in all participants, irrespective of gender, following psychosocial and physical stress. …”
Get full text

Causal associations of ambient particulate matter 10 and Alzheimer’s disease: result from a two-sample multivariable Mendelian randomization study by Zehan Huang, Guodong He, Shuo Sun, Yingqing Feng, Yuqing Huang

“…Material and methods Genome-wide association studies (GWAS) for PM10 from UK Biobank, AD from EBI GWAS and IEU OpenGWAS were used for discovery and replication, respectively. …”
Get full text

Effects of the auxin-dependent degradation of the cohesin and condensin complexes on the repair of distant DNA double-strand breaks in mouse embryonic stem cells by A. V. Smirnov, A. S. Ryzhkova, A. M. Yunusova

“…Cohesin knockdown was recently shown to stimulate frequencies of genomic deletions produced by distant paired DSBs, but does not affect DNA repair of a single or close DSBs. …”
Get full text

Phage display as a tool for identifying HIV-1 broadly neutralizing antibodies by A. N. Chikaev, A. P. Rudometov, Yu. A. Merkulyeva, L. I. Karpenko

“…Each phage particle in a library displays peptides or proteins fused to its coat protein and simultaneously carries the DNA sequence encoding the displayed peptide/protein in its genome. The biopanning procedure allows isolation of specific clones for almost any target, and due to the physical link between the genotype and the phenotype of recombinant phage particles it is possible to determine the structure of selected molecules. …”
Get full text

Identification of a transcription factor AoMsn2 of the Hog1 signaling pathway contributes to fungal growth, development and pathogenicity in Arthrobotrys oligospora by Qianqian Liu, Kexin Jiang, Shipeng Duan, Na Zhao, Yanmei Shen, Lirong Zhu, Ke-Qin Zhang, Jinkui Yang

“…Furtherly, we analyzed the protein interaction network of AoMsn2 based on the Kyoto Encyclopedia of Genes and Genomes pathway map and the online website STRING. …”
Get full text

Common themes in architecture and interactions of prokaryotic PolB2 and Pol V mutasomes inferred from in silico studies by Kęstutis Timinskas, Albertas Timinskas, Česlovas Venclovas

“…We used highly accurate AlphaFold structural models, coupled with protein sequence and genome context analysis to comprehensively characterize PolB2 and its associated proteins, PPB2, a small helical protein, and iRadA, a catalytically inactive Rad51 homolog. …”
Get full text

Therapeutic target genes and regulatory networks of gallic acid in cervical cancer by Zhixi You, Ye Lei, Yongkang Yang, Zhihui Zhou, Xu Chao, Keyi Ju, Songyi Wang, Yuanyuan Li, Yuanyuan Li

“…By combining the results of the Gene Expression Omnibus (GEO) and the Cancer Genome Atlas (TCGA) analysis and RNA-seq, the differentially expressed genes (DEGs), including those upregulated and downregulated genes in CC compared with the normal cervix in the GEO and TCGA database, while expressed reversed after treatment with GA, were identified. …”
Get full text