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Blood DNA virome associates with autoimmune diseases and COVID-19.
Nat Genet
January 2025
Department of Statistical Genetics, Osaka University Graduate School of Medicine, Suita, Japan.
Aberrant immune responses to viral pathogens contribute to pathogenesis, but our understanding of pathological immune responses caused by viruses within the human virome, especially at a population scale, remains limited. We analyzed whole-genome sequencing datasets of 6,321 Japanese individuals, including patients with autoimmune diseases (psoriasis vulgaris, rheumatoid arthritis (RA), systemic lupus erythematosus (SLE), pulmonary alveolar proteinosis (PAP) or multiple sclerosis) and coronavirus disease 2019 (COVID-19), or healthy controls. We systematically quantified two constituents of the blood DNA virome, endogenous HHV-6 (eHHV-6) and anellovirus.
View Article and Find Full Text PDFSubfamily evolution analysis using nuclear and chloroplast data from the same reads.
Sci Rep
January 2025
Analytical Research Center for Experimental Sciences, Saga University, Saga, Japan.
The chloroplast (cp) genome is a widely used tool for exploring plant evolutionary relationships, yet its effectiveness in fully resolving these relationships remains uncertain. Integrating cp genome data with nuclear DNA information offers a more comprehensive view but often requires separate datasets. In response, we employed the same raw read sequencing data to construct cp genome-based trees and nuclear DNA phylogenetic trees using Read2Tree, a cost-efficient method for extracting conserved nuclear gene sequences from raw read data, focusing on the Aurantioideae subfamily, which includes Citrus and its relatives.
View Article and Find Full Text PDFCorrelation between polygenic risk scores of depression and cortical morphology networks.
J Psychiatry Neurosci
January 2025
From the Department of Psychiatry, Renmin Hospital of Wuhan University, Wuhan, China (Gong, Wang, Nie, Ma, Zhou, Deng, Xie, Lyu, Chen, Kang, Liu); the Taikang Center for Life and Medical Sciences, Wuhan University, Wuhan, China (Liu)
Background: Cortical morphometry is an intermediate phenotype that is closely related to the genetics and onset of major depressive disorder (MDD), and cortical morphometric networks are considered more relevant to disease mechanisms than brain regions. We sought to investigate changes in cortical morphometric networks in MDD and their relationship with genetic risk in healthy controls.
Methods: We recruited healthy controls and patients with MDD of Han Chinese descent.
Application of the Sm1-7-qPCR system for identifying S. mansoni DNA in experimentally infected mice.
Acta Trop
January 2025
Parasitology Department, Schistosomiasis Reference Laboratory. Aggeu Magalhães Institute/FIOCRUZ-PE.
Schistosomiasis presents a significant public health challenge, especially in regions with inadequate sanitation. Current diagnostic methods, including the Kato-Katz technique, often lack sensitivity in detecting low parasite loads, prompting the search for more precise alternatives. This study introduces the Sm1-7-qPCR system as a highly sensitive and specific diagnostic tool for identifying S.
View Article and Find Full Text PDFA competitive aptamer binding-based CRISPR-cas biosensor for sensitive detection of tetracycline residues in biological samples.
Talanta
December 2024
School of Environment, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences, Hangzhou 310024, China. Electronic address:
Tetracycline (TC) is widely used in veterinary medicine and animal feed; however, TC residues in food pose a risk to human health. Thus, the sensitive and selective detection of TC is needed to ensure food safety. Herein, we developed a CRISPR-Cas12a biosensor with competitive aptamer binding to detect TC residues.
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