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Anna Sheveleva et al.
Virus genes, 47(2), 385-388 (2013-07-03)
The near-complete (99.7 %) genome sequence of a novel Russian Plum pox virus (PPV) isolate Pk, belonging to the strain Winona (W), has been determined by 454 pyrosequencing with the exception of the thirty-one 5'-terminal nucleotides. This region was amplified using
Corinne P Oechslin et al.
Frontiers in cellular and infection microbiology, 8, 375-375 (2018-11-09)
The etiologic cause of encephalitis, meningitis or meningo-encephalitis is unknown in up to 70% of cases. Clinical shotgun metagenomics combined with host depletion is a promising technique to identify infectious etiologies of central nervous system (CNS) infections. We developed a
Bert Vanmechelen et al.
Genome announcements, 5(21) (2017-05-27)
We report here the draft genome of a novel nairovirus, Grotenhout virus, isolated from deer ticks (Ixodes ricinus) in Belgium. The genome consists of two segments, L and S, and is most similar to the tick-borne South Bay virus, with
Jana Sachsenröder et al.
PloS one, 7(4), e34631-e34631 (2012-04-20)
Animal faeces comprise a community of many different microorganisms including bacteria and viruses. Only scarce information is available about the diversity of viruses present in the faeces of pigs. Here we describe a protocol, which was optimized for the purification
Jelena Mirkovic et al.
The Journal of pathology, 236(3), 265-271 (2015-03-19)
Recent studies have suggested the involvement of a unique population of cells at the cervical squamo-columnar junction (SCJ) in the pathogenesis of early (squamous intraepithelial lesion or SIL) and advanced (squamous cell and adeno-carcinomas) cervical neoplasia. However, there is little
Sandra Klur et al.
Genomics, 83(3), 508-517 (2004-02-14)
Various approaches have been developed for the preparation of samples for gene expression monitoring. For Affymetrix chips, a standard protocol is widely used; however, this is inefficient for small samples such as laser capture microdissections. Several amplification procedures for such
Nair Olguín et al.
Food microbiology, 51, 87-95 (2015-07-19)
The correct development of malolactic fermentation depends on the capacity of Oenococcus oeni to survive under harsh wine conditions. The presence of ethanol is one of the most stressful factors affecting O. oeni performance. In this study, the effect of ethanol
Christian Diniz Beduschi Travassos Alves et al.
Comparative immunology, microbiology and infectious diseases, 58, 36-43 (2018-09-25)
Astroviruses are a common cause of gastroenteritis in children worldwide and can also cause infection in a range of domestic and wild animal species. Canine astrovirus (formally named as Mamastrovirus 5, MAstV5) has been reported worldwide, and its role as
Wei Zhang et al.
The Prostate, 75(6), 653-661 (2015-01-20)
Long non-coding RNA (LncRNA) PCA3 has been a well-established urine biomarker for the detection of prostate cancer (PCa). Our previous study showed a novel LncRNA FR0348383 is up-regulated in over 70% of PCa compared with matched benign tissues. The aim
Michael C Risk et al.
Clinical cancer research : an official journal of the American Association for Cancer Research, 16(22), 5414-5423 (2010-10-12)
Several malignancies are known to exhibit a "field effect," whereby regions beyond tumor boundaries harbor histologic or molecular changes that are associated with cancer. We sought to determine if histologically benign prostate epithelium collected from men with prostate cancer exhibits
Éva Korpos et al.
Diabetes, 62(2), 531-542 (2012-11-10)
We provide the first comprehensive analysis of the extracellular matrix (ECM) composition of peri-islet capsules, composed of the peri-islet basement membrane (BM) and subjacent interstitial matrix (IM), in development of type 1 diabetes in NOD mice and in human type
Sarah A Dick et al.
Nature immunology, 20(1), 29-39 (2018-12-13)
Macrophages promote both injury and repair after myocardial infarction, but discriminating functions within mixed populations remains challenging. Here we used fate mapping, parabiosis and single-cell transcriptomics to demonstrate that at steady state, TIMD4+LYVE1+MHC-IIloCCR2- resident cardiac macrophages self-renew with negligible blood
Muhammad Farooq Rai et al.
Journal of orthopaedic research : official publication of the Orthopaedic Research Society, 36(1), 484-497 (2017-07-28)
Microarrays and RNA-seq are at the forefront of high throughput transcriptome analyses. Since these methodologies are based on different principles, there are concerns about the concordance of data between the two techniques. The concordance of RNA-seq and microarrays for genome-wide
Carolyn J Decker et al.
Cell reports, 7(3), 898-906 (2014-04-29)
Double-stranded RNA (dsRNA) can function as genetic information and may have served as genomic material before the existence of DNA-based life. By developing a method to purify dsRNA, we have investigated the diversity of dsRNA in microbial populations. We detect
Marion Claudia Salzer et al.
Cell, 175(6), 1575-1590 (2018-11-13)
During aging, stromal functions are thought to be impaired, but little is known whether this stems from changes of fibroblasts. Using population- and single-cell transcriptomics, as well as long-term lineage tracing, we studied whether murine dermal fibroblasts are altered during
Eva Trojnar et al.
The Journal of general virology, 94(Pt 1), 136-142 (2012-10-12)
Group A rotaviruses (RVAs) are an important cause of diarrhoeal illness in humans, as well as in mammalian and avian animal species. Previous sequence analyses indicated that avian RVAs are related only distantly to mammalian RVAs. Here, the complete genomes
Valeria Barili et al.
Nature communications, 11(1), 604-604 (2020-02-01)
Hepatitis C virus infection (HCV) represents a unique model to characterize, from early to late stages of infection, the T cell differentiation process leading to exhaustion of human CD8+ T cells. Here we show that in early HCV infection, exhaustion-committed
Anne-Laure Vivant et al.
Applied and environmental microbiology, 81(15), 5073-5084 (2015-05-24)
In a recent paper, we demonstrated that inactivation of the Agr system affects the patterns of survival of Listeria monocytogenes (A.-L. Vivant, D. Garmyn, L. Gal, and P. Piveteau, Front Cell Infect Microbiol 4:160, In this study, we investigated
Comparative Metagenomics of Viral Assemblages Inhabiting Four Phyla of Marine Invertebrates
Gudenkauf, et al.
Frontiers in Marine Science, 3, 23-23 (2016)
Tiphaine Parrot et al.
Scientific reports, 10(1), 5900-5900 (2020-04-05)
Peripheral CD4+CD8+ double positive (DP) T cells are a phenotypically and functionally heterogeneous population depending on their origin and pathologic context. We previously identified among tumour infiltrating lymphocytes in melanoma, a tumour-reactive MHC class-I restricted CD4lowCD8high DP αβ T-cell subpopulation
Youn Hee Nam et al.
Journal of ginseng research, 45(1), 183-190 (2021-01-14)
The circadian rhythm is the internal clock that controls sleep-wake cycles, metabolism, cognition, and several processes in the body, and its disruption has been associated with aging. The differentiated embryo chondrocyte (Dec) gene is related to circadian rhythm. To our
Ken Cadwell et al.
Cell, 141(7), 1135-1145 (2010-07-07)
It is unclear why disease occurs in only a small proportion of persons carrying common risk alleles of disease susceptibility genes. Here we demonstrate that an interaction between a specific virus infection and a mutation in the Crohn's disease susceptibility
Ahrin Huh et al.
American journal of orthodontics and dentofacial orthopedics : official publication of the American Association of Orthodontists, its constituent societies, and the American Board of Orthodontics, 144(4), 568-576 (2013-10-01)
Genetic influences on the development of malocclusion include heritable effects on both masticatory muscles and jaw skeletal morphology. Beyond genetic variations, however, the characteristics of muscle and bone are also influenced by epigenetic mechanisms that produce differences in gene expression.
Fernanda Visioli et al.
PloS one, 9(6), e101053-e101053 (2014-06-26)
This study was designed to investigate the activation of the unfolded protein response (UPR) in tumor associated endothelial cells (TECs) and its association with chemoresistance during acidic pH stress. Endothelial cells from human oral squamous cell carcinomas (OSCC) were excised
Bert Vanmechelen et al.
Virus evolution, 7(2), veab066-veab066 (2021-09-18)
Recent metagenomics studies have revealed several tick species to host a variety of previously undiscovered RNA viruses. Ixodes ricinus, which is known to be a vector for many viral, bacterial, and protozoan pathogens, is the most prevalent tick species in
Omaththage P Perera et al.
PloS one, 10(6), e0128563-e0128563 (2015-06-06)
Heliothine pests such as the tobacco budworm, Heliothis virescens (F.), pose a significant threat to production of a variety of crops and ornamental plants and are models for developmental and physiological studies. The efforts to develop new control measures for
Ilya A Shestopalov et al.
Nature chemical biology, 8(3), 270-276 (2012-01-31)
Transcription factors have diverse roles during embryonic development, combinatorially controlling cellular states in a spatially and temporally defined manner. Resolving the dynamic transcriptional profiles that underlie these patterning processes is essential for understanding embryogenesis at the molecular level. Here we
John L Mokili et al.
PloS one, 8(3), e58404-e58404 (2013-04-05)
As part of a virus discovery investigation using a metagenomic approach, a highly divergent novel Human papillomavirus type was identified in pooled convenience nasal/oropharyngeal swab samples collected from patients with febrile respiratory illness. Phylogenetic analysis of the whole genome and
Don A Baldwin et al.
mBio, 5(5), e01714-e01714 (2014-09-18)
Screening for thousands of viruses and other pathogenic microorganisms, including bacteria, fungi, and parasites, in human tumor tissues will provide a better understanding of the contributory role of the microbiome in the predisposition for, causes of, and therapeutic responses to
Kalyan C Chapalamadugu et al.
PloS one, 9(2), e89096-e89096 (2014-03-04)
Conditions during fetal development influence health and disease in adulthood, especially during critical windows of organogenesis. Fetal exposure to the endocrine disrupting chemical, bisphenol A (BPA) affects the development of multiple organ systems in rodents and monkeys. However, effects of
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