1,652 results match your criteria shedding sequencing


Antibody Response to SARS-CoV-2 is Associated with Long-term Clinical Outcome in Patients with COVID-19: a Longitudinal Study.

J Clin Immunol 2021 Jul 17. Epub 2021 Jul 17.

Internal Medicine and Infectious Diseases Unit, Hospital General Universitario de Elche, Alicante, Spain.

Background: The relationship of host immune response and viral replication with health outcomes in patients with COVID-19 remains to be defined. We aimed to characterize the medium and long-term clinical, virological, and serological outcomes after hospitalization for COVID-19, and to identify predictors of long-COVID.

Methods: Prospective, longitudinal study conducted in COVID-19 patients confirmed by RT-PCR. Read More

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Pathogenic variants of meiotic double strand break (DSB) formation genes PRDM9 and ANKRD31 in premature ovarian insufficiency.

Genet Med 2021 Jul 13. Epub 2021 Jul 13.

Center for Reproductive Medicine, Cheeloo College of Medicine, Shandong University, Jinan, Shandong, China.

Purpose: The etiology of premature ovarian insufficiency (POI) is heterogeneous, and genetic factors account for 20-25% of the patients. The primordial follicle pool is determined by the meiosis process, which is initiated by programmed DNA double strand breaks (DSB) and homologous recombination. The objective of the study is to explore the role of DSB formation genes in POI pathogenesis. Read More

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Genome-wide analyses of human noroviruses provide insights on evolutionary dynamics and evidence of coexisting viral populations evolving under recombination constraints.

PLoS Pathog 2021 Jul 13;17(7):e1009744. Epub 2021 Jul 13.

Division of Viral Products, CBER, FDA, Silver Spring, Maryland, United States of America.

Norovirus is a major cause of acute gastroenteritis worldwide. Over 30 different genotypes, mostly from genogroup I (GI) and II (GII), have been shown to infect humans. Despite three decades of genome sequencing, our understanding of the role of genomic diversification across continents and time is incomplete. Read More

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Genomics of human congenital hydrocephalus.

Childs Nerv Syst 2021 Jul 7. Epub 2021 Jul 7.

Department of Neurosurgery, Yale University School of Medicine, New Haven, CT, USA.

Congenital hydrocephalus (CH), characterized by enlarged brain ventricles, is considered a disease of pathological cerebrospinal fluid (CSF) accumulation and, therefore, treated largely by neurosurgical CSF diversion. The persistence of ventriculomegaly and poor neurodevelopmental outcomes in some post-surgical patients highlights our limited knowledge of disease mechanisms. Recent whole-exome sequencing (WES) studies have shown that rare, damaging de novo and inherited mutations with large effect contribute to ~ 25% of sporadic CH. Read More

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Low-Level Anorectal HIV Shedding despite Effective Antiretroviral Therapy Is Not Driven by Mucosal Inflammation.

J Immunol 2021 Jul 2. Epub 2021 Jul 2.

Department of Immunology, University of Toronto, Toronto, Ontario, Canada.

Although antiretroviral treatment (ART) suppresses HIV RNA in blood and prevents transmission, low-level anorectal HIV RNA shedding persists in some ART-treated men who have sex with men. We collected anorectal biopsies and swabs from 55 men who have sex with men on effective ART, hypothesizing that anorectal shedding would be linked to microbiota-driven mucosal T cell activation. Lymphocytes were assessed by flow cytometry, soluble immune factors by multiplex immunoassay, neutrophils and epithelial integrity by immunofluorescence microscopy, and the anorectal microbiome by quantitative PCR and 16S rRNA gene sequencing. Read More

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Virus Adaptation Following Experimental Infection of Chickens with a Domestic Duck Low Pathogenic Avian Influenza Isolate from the 2017 USA H7N9 Outbreak Identifies Polymorphic Mutations in Multiple Gene Segments.

Viruses 2021 Jun 18;13(6). Epub 2021 Jun 18.

Southeast Poultry Research Laboratory, USA National Poultry Research Center, Agricultural Research Service, USA, Department of Agriculture, 934 College Station Road, Athens, GA 30605, USA.

In March 2017, highly pathogenic (HP) and low pathogenic (LP) avian influenza virus (AIV) subtype H7N9 were detected from poultry farms and backyard birds in several states in the southeast United States. Because interspecies transmission is a known mechanism for evolution of AIVs, we sought to characterize infection and transmission of a domestic duck-origin H7N9 LPAIV in chickens and genetically compare the viruses replicating in the chickens to the original H7N9 clinical field samples used as inoculum. The results of the experimental infection demonstrated virus replication and transmission in chickens, with overt clinical signs of disease and shedding through both oral and cloacal routes. Read More

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Profiling of Intestinal Microbiota in Patients Infected with Respiratory Influenza A and B Viruses.

Pathogens 2021 Jun 17;10(6). Epub 2021 Jun 17.

Biomedical Research Center, Qatar University, Doha 2713, Qatar.

Little is known about the association between respiratory viral infections and their impact on intestinal microbiota. Here, we compared the effect of influenza types, A and B, and influenza shedding in patients' stools on the gut microbiota diversity and composition. Deep sequencing analysis was performed for the V4 region of the 16S rRNA gene. Read More

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Report of a Novel ALOX12B Mutation in Self-Improving Collodion Ichthyosis with an Overview of the Genetic Background of the Collodion Baby Phenotype.

Life (Basel) 2021 Jun 27;11(7). Epub 2021 Jun 27.

Department of Dermatology, Venereology and Dermatooncology, Semmelweis University, 1085 Budapest, Hungary.

Collodion baby is a congenital, transient phenotype encountered in approximately 70-90% of autosomal recessive congenital ichthyosis and is an important entity of neonatal erythroderma. The clinical outcome after this severe condition is variable. Genetic mutations of components of the epidermal lipoxygenase pathway have been implicated in the majority of self-improving collodion ichthyosis (SICI). Read More

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Ecogenomics of Groundwater Phages Suggests Niche Differentiation Linked to Specific Environmental Tolerance.

mSystems 2021 Jun 29:e0053721. Epub 2021 Jun 29.

Biological Systems and Engineering, Lawrence Berkeley National Laboratorygrid.184769.5, Berkeley, California, USA.

Viruses are ubiquitous microbiome components, shaping ecosystems via strain-specific predation, horizontal gene transfer and redistribution of nutrients through host lysis. Viral impacts are important in groundwater ecosystems, where microbes drive many nutrient fluxes and metabolic processes; however, little is known about the diversity of viruses in these environments. We analyzed four groundwater plasmidomes (the entire plasmid content of an environment) and identified 200 viral sequences, which clustered into 41 genus-level viral clusters (approximately equivalent to viral genera) including 9 known and 32 putative new genera. Read More

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Identification of Novel Regulators of Zalcitabine-Induced Neuropathic Pain.

ACS Chem Neurosci 2021 Jul 29;12(14):2619-2628. Epub 2021 Jun 29.

BioFarma Research Group, Centro Singular de Investigación en Medicina Molecular y Enfermedades Crónicas (CIMUS), Universidade de Santiago de Compostela, 15782 Santiago de Compostela, Spain.

Neuropathic pain is one of the foremost adverse effects that worsens quality of life for patients undergoing an antiretroviral treatment. Currently, there are no effective analgesics for relieving it; thus, there is an urgent need to develop novel treatments for neuropathic pain. Previously, we described and validated F11 cells as a model of DRG (dorsal root ganglia) neurons. Read More

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Severe fever with thrombocytopenia syndrome with re-infection in China: a case report.

Infect Dis Poverty 2021 Jun 29;10(1):90. Epub 2021 Jun 29.

Graduate School of Anhui Medical University, Hefei, 230032, People's Republic of China.

Background: Severe fever with thrombocytopenia syndrome (SFTS), an emerging tickborne infectious disease caused by a novel banyangvirus (SFTS virus, SFTSV), was endemic in several Asian countries with a high mortality up to 30%. Until recently, SFTSV-associated re-infection have not been reported and investigated.

Case Presentation: A 42-year-old female patient was identified as a case of SFTS with re-infection, with two episodes of SFTSV infection on June 2018 and May 2020. Read More

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Genetic architecture of transmission stage production and virulence in schistosome parasites.

Virulence 2021 Dec;12(1):1508-1526

Texas Biomedical Research Institute, San Antonio, Texas, USA.

Both theory and experimental data from pathogens suggest that the production of transmission stages should be strongly associated with virulence, but the genetic bases of parasite transmission/virulence traits are poorly understood. The blood fluke shows extensive variation in numbers of cercariae larvae shed and in their virulence to infected snail hosts, consistent with expected trade-offs between parasite transmission and virulence. We crossed schistosomes from two populations that differ 8-fold in cercarial shedding and in their virulence to snail hosts, and determined four-week cercarial shedding profiles in F0 parents, F1 parents and 376 F2 progeny from two independent crosses in inbred snails. Read More

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December 2021

A review of Cyclospora cayetanensis in animals.

Zoonoses Public Health 2021 Jun 22. Epub 2021 Jun 22.

Department of Population Medicine, Ontario Veterinary College, University of Guelph, Guelph, ON, Canada.

Cyclosporiasis is a global, emerging disease in humans caused by Cyclospora cayetanensis. The role of animals in the epidemiology of cyclosporiasis is not fully understood. We conducted a narrative review of the published literature on C. Read More

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Prolonged SARS-CoV-2 RNA Shedding from Therapy Cat after Cluster Outbreak in Retirement Home.

Emerg Infect Dis 2021 07;27(7):1974-1976

We report a therapy cat in a nursing home in Germany infected with severe acute respiratory syndrome coronavirus 2 during a cluster outbreak in the home residents. Although we confirmed prolonged presence of virus RNA in the asymptomatic cat, genome sequencing showed no further role of the cat in human infections on site. Read More

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Hypermethylation of Hepatic Mitochondrial Provokes Systemic Insulin Resistance.

Adv Sci (Weinh) 2021 06 2;8(11):2004507. Epub 2021 May 2.

Center for Mitochondrial Biology and Medicine The Key Laboratory of Biomedical Information Engineering of Ministry of Education School of Life Science and Technology Xi'an Jiaotong University Xi'an Shaanxi 710049 China.

Mitochondrial epigenetics is rising as intriguing notion for its potential involvement in aging and diseases, while the details remain largely unexplored. Here it is shown that among the 13 mitochondrial DNA (mtDNA) encoded genes, NADH-dehydrogenase 6 () transcript is primarily decreased in obese and type 2 diabetes populations, which negatively correlates with its distinctive hypermethylation. Hepatic mtDNA sequencing in mice unveils that presents the highest methylation level, which dramatically increases under diabetic condition due to enhanced mitochondrial translocation of DNA methyltransferase 1 (DNMT1) promoted by free fatty acid through adenosine 5'-monophosphate (AMP)-activated protein kinase (AMPK) activation. Read More

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Transcriptomics Analysis Uncovers Transient Ceftazidime Tolerance in Biofilms.

ACS Infect Dis 2021 Jun 17. Epub 2021 Jun 17.

Department of Biochemistry, Faculty of Medicine, Khon Kaen University, Khon Kaen 40002, Thailand.

is an etiological agent of melioidosis, a severe community-acquired infectious disease. strain K96243 is sensitive to the drug ceftazidime (CAZ), but has been shown to exhibit transient CAZ tolerance when in a biofilm form. To investigate an observed shift in gene expression profile during CAZ tolerance condition and to better understand the mechanistic aspects of this transient tolerance, RNA-sequencing was performed on K96243 from the following three states: planktonic, biofilm, and planktonic shedding. Read More

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SARS-CoV-2 late shedding may be infectious between immunocompromised hosts.

Infect Dis (Lond) 2021 Jun 17:1-3. Epub 2021 Jun 17.

Department of Infectious Disease, Tampere University Hospital, Tampere, Finland.

Background: Immunocompromised patients shed SARS-CoV-2 for extended periods, but to our knowledge person-to-person transmission from late shedding has not been reported.

The Case: We present a case in which a COVID-19 patient infected another over 28 days after the patient's initial symptoms, past current guideline recommendations of 20 days for length of isolation in immunocompromised patients. Whole genome sequencing of their viruses was performed to ascertain the transmission. Read More

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Complete genome and molecular characterization of genotype VII velogenic Newcastle disease virus isolated in China.

Acta Virol 2021 ;65(2):149-159

Circulation of dominant genotype VII of Newcastle disease virus (NDV) causes significant economic losses to the poultry industry in China. Although most of genotype VII NDV has frequently been isolated in China to date, the genome sequence difference between duck-origin and chicken-origin NDVs remains largely unknown. In this study, a NDV strain of Chicken/China/HB/2017 (HB), isolated during an outbreak in China, was subjected to genetic, biological, phylogenetic and the pathogenicity characterization. Read More

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The Microbiome and Gynecologic Cancer: Current Evidence and Future Opportunities.

Curr Oncol Rep 2021 Jun 14;23(8):92. Epub 2021 Jun 14.

Division of Gynecologic Oncology; Obstetrics, Gynecology and Women's Health Institute, Cleveland Clinic, Desk A81, 9500 Euclid Avenue, Cleveland, OH, 44195, USA.

Purpose Of Review: We review the emerging evidence regarding the relationship between the microbiota of the gastrointestinal and female reproductive tracts and gynecologic cancer.

Recent Findings: The microbiome has essential roles in maintaining health. In recent years, the microbiota of the gastrointestinal and female reproductive tracts have been linked to many diseases, including gynecologic cancer. Read More

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Prior aerosol infection with lineage A SARS-CoV-2 variant protects hamsters from disease, but not reinfection with B.1.351 SARS-CoV-2 variant.

Emerg Microbes Infect 2021 Dec;10(1):1284-1292

Laboratory of Virology, Division of Intramural Research, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Hamilton, MT, USA.

The circulation of SARS-CoV-2 has resulted in the emergence of variants of concern (VOCs). It is currently unclear whether the previous infection with SARS-CoV-2 provides protection against reinfection with VOCs. Here, we show that low dose aerosol exposure to hCoV-19/human/USA/WA-CDC-WA1/2020 (WA1, lineage A), resulted in a productive mild infection. Read More

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December 2021

Clinical and molecular characteristics of COVID-19 patients with persistent SARS-CoV-2 infection.

Nat Commun 2021 06 9;12(1):3501. Epub 2021 Jun 9.

Department of Obstetrics and Gynecology, Tongji Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, China.

The characteristics of COVID-19 patients with persistent SARS-CoV-2 infection are not yet well described. Here, we compare the clinical and molecular features of patients with long duration of viral shedding (LDs) with those from patients with short duration patients (SDs), and healthy donors (HDs). We find that several cytokines and chemokines, such as interleukin (IL)-2, tumor necrosis factor (TNF) and lymphotoxin α (LT-α) are present at lower levels in LDs than SDs. Read More

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Bladder cancer therapy using a conformationally fluid tumoricidal peptide complex.

Nat Commun 2021 06 8;12(1):3427. Epub 2021 Jun 8.

Division of Microbiology, Immunology and Glycobiology, Department of Laboratory Medicine, Faculty of Medicine, Lund University, Lund, Sweden.

Partially unfolded alpha-lactalbumin forms the oleic acid complex HAMLET, with potent tumoricidal activity. Here we define a peptide-based molecular approach for targeting and killing tumor cells, and evidence of its clinical potential (ClinicalTrials.gov NCT03560479). Read More

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Study of the Genetic Variants in and Non- Genes in a Population-Based Cohort of 2155 Breast/Ovary Cancer Patients, Including 443 Triple-Negative Breast Cancer Patients, in Argentina.

Cancers (Basel) 2021 May 31;13(11). Epub 2021 May 31.

Genotipificación, Departamento de Análisis Clínicos, Centro de Estudios Médicos e Investigaciones Clínicas, Ciudad Autónoma de Buenos Aires C1431FWO, Argentina.

Gene/s sequencing in hereditary breast/ovary cancer (HBOC) in routine diagnosis is challenged by the analysis of panels. We aim to report a retrospective analysis of and non- gene sequencing in patients with breast/ovary cancer (BOC), including triple-negative breast cancer (TNBC), in our population. In total 2155 BOC patients (1900 analyzed in and 255 by multigenic panels) gave 372 (17. Read More

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Genome-Wide Characterization of WRKY Transcription Factors Revealed Gene Duplication and Diversification in Populations of Wild to Domesticated Barley.

Int J Mol Sci 2021 May 19;22(10). Epub 2021 May 19.

Institute of Crop Sciences, Chinese Academy of Agricultural Sciences (CAAS), Beijing 100081, China.

The WRKY transcription factors (WRKYs) are known for their crucial roles in biotic and abiotic stress responses, and developmental and physiological processes. In barley, early studies revealed their importance, whereas their diversity at the population scale remains hardly estimated. In this study, 98 and 103 have been identified from the reference genome of wild and cultivated barley, respectively. Read More

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Clinical Implication of Liquid Biopsy in Colorectal Cancer Patients Treated with Metastasectomy.

Cancers (Basel) 2021 May 6;13(9). Epub 2021 May 6.

Division of Medical Oncology and Hematology, Department of Internal Medicine, Korea University College of Medicine, Seoul 02841, Korea.

Background & Aims: The application of circulating tumor DNA (ctDNA) has been studied for predicting recurrent disease after surgery and treatment response during systemic treatment. Metastasectomy can be curative for well-selected patients with metastatic colorectal cancer (mCRC). This prospective study investigated the ctDNA level before and after metastasectomy in patients with mCRC to explore its potential as a predictive biomarker. Read More

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Assessing Antigen Structural Integrity through Glycosylation Analysis of the SARS-CoV-2 Viral Spike.

ACS Cent Sci 2021 Apr 31;7(4):586-593. Epub 2021 Mar 31.

Oxford Glycobiology Institute, Department of Biochemistry, University of Oxford, Oxford OX1 3QU, United Kingdom.

Severe acute respiratory syndrome coronavirus 2 is the causative pathogen of the COVID-19 pandemic which as of March 29, 2021, has claimed 2 776 175 lives worldwide. Vaccine development efforts focus on the viral trimeric spike glycoprotein as the main target of the humoral immune response. Viral spikes carry glycans that facilitate immune evasion by shielding specific protein epitopes from antibody neutralization, and antigen efficacy is influenced by spike glycoprotein production in vivo. Read More

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Alternative polyadenylated mRNAs behave as asynchronous rhythmic transcription in .

RNA Biol 2021 Jun 7:1-11. Epub 2021 Jun 7.

Graduate College of Biomedical Sciences, Western University of Health Sciences, Pomona, USA.

Alternative polyadenylation (APA) is a widespread post-transcriptional modification method that changes the 3' ends of transcripts by altering poly(A) site usage. However, the longitudinal transcriptomic 3' end profile and its mechanism of action are poorly understood. We applied diurnal time-course poly(A) tag sequencing (PAT-seq) for and identified 3284 genes that generated both rhythmic and arrhythmic transcripts. Read More

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Artificial Intelligence in Epigenetic Studies: Shedding Light on Rare Diseases.

Front Mol Biosci 2021 5;8:648012. Epub 2021 May 5.

Portuguese Association for CDG, Lisbon, Portugal.

More than 7,000 rare diseases (RDs) exist worldwide, affecting approximately 350 million people, out of which only 5% have treatment. The development of novel genome sequencing techniques has accelerated the discovery and diagnosis in RDs. However, most patients remain undiagnosed. Read More

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Community-based geographical distribution of Mycobacterium ulcerans VNTR-genotypes from the environment and humans in the Nyong valley, Cameroon.

Trop Med Health 2021 May 21;49(1):41. Epub 2021 May 21.

The AgroEcoHealth Platform, International Institute of Tropical Agriculture (IITA), 08 P.O. Box. 0932, Tri-Postal Cotonou, Cotonou, Bénin.

Background: Genotyping is a powerful tool for investigating outbreaks of infectious diseases and it can provide useful information such as identifying the source and route of transmission, and circulating strains involved in the outbreak. Genotyping techniques based on variable number of tandem repeats (VNTR) are instrumental in detecting heterogeneity in Mycobacterium ulcerans (MU) and also for discriminating MU from other mycobacteria species. Here, we describe and map the distribution of MU genotypes in Buruli ulcer (BU) endemic communities of the Nyong valley in Cameroon. Read More

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Shedding of Viable Virus in Asymptomatic SARS-CoV-2 Carriers.

mSphere 2021 05 19;6(3). Epub 2021 May 19.

Department of Infectious Diseases, Fujita Health University School of Medicine, Toyoake, Aichi, Japan.

Information regarding the infectivity of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) in asymptomatic carriers is scarce. In order to determine the duration of infectivity and its correlation with reverse transcription-PCR (RT-PCR) results and time since initial positive PCR test in this population, we evaluated SARS-CoV-2 cell infectivity in nasopharyngeal samples longitudinally obtained from asymptomatic carriers who disembarked from a cruise ship during a COVID-19 outbreak. Of 166 nasopharyngeal samples collected from 39 asymptomatic carriers every 48 h until two consecutive negative PCR test results were obtained, SARS-CoV-2 was successfully isolated from 9 PCR-positive samples which were obtained from 7 persons (18%; 7/39). Read More

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