Artigos de revistas: "Viral diversity"

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Gross, Kimber L., Travis C. Porco, and Robert M. Grant. "HIV-1 superinfection and viral diversity." AIDS 18, no. 11 (2004): 1513–20. http://dx.doi.org/10.1097/01.aids.0000131361.75328.47.

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McCartney, Stephen A., and Marco Colonna. "Viral sensors: diversity in pathogen recognition." Immunological Reviews 227, no. 1 (2009): 87–94. http://dx.doi.org/10.1111/j.1600-065x.2008.00726.x.

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Janaki, Chintalapati, Manoharan Malini, Nidhi Tyagi, and Narayanaswamy Srinivasan. "Unity and diversity among viral kinases." Gene 723 (January 2020): 144134. http://dx.doi.org/10.1016/j.gene.2019.144134.

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Joos, Beda, Alexandra Trkola, Marek Fischer, et al. "Low Human Immunodeficiency Virus Envelope Diversity Correlates with Low In Vitro Replication Capacity and Predicts Spontaneous Control of Plasma Viremia after Treatment Interruptions." Journal of Virology 79, no. 14 (2005): 9026–37. http://dx.doi.org/10.1128/jvi.79.14.9026-9037.2005.

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ABSTRACT Genetic diversity of viral isolates in human immunodeficiency virus (HIV)-infected individuals varies substantially. However, it remains unclear whether HIV-related disease progresses more rapidly in patients harboring virus swarms with low or high diversity and, in the same context, whether high or low diversity is required to induce potent humoral and cellular immune responses. To explore whether viral diversity predicts virologic control, we studied HIV-infected patients who received antiretroviral therapy (ART) for years before undergoing structured treatment interruptions (STI).

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Mani, Indu, Peter Gilbert, Jean-Louis Sankalé, Geoffrey Eisen, Souleymane Mboup, and Phyllis J. Kanki. "Intrapatient Diversity and Its Correlation with Viral Setpoint in Human Immunodeficiency Virus Type 1 CRF02_A/G-IbNG Infection." Journal of Virology 76, no. 21 (2002): 10745–55. http://dx.doi.org/10.1128/jvi.76.21.10745-10755.2002.

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ABSTRACT The human immunodeficiency virus type 1 (HIV-1) viral setpoint during the disease-free interval has been strongly associated with future risk of disease progression. An awareness of the correlation between viral setpoint and HIV-1 genetic evolution over time is important in the understanding of viral dynamics and infection. We examined genetic diversity in HIV-1 CRF02_A/G-IbNG-infected seroincident women in Dakar, Senegal; determined whether a viral setpoint kinetic pattern existed for CRF02_A/G-IbNG during the disease-free interval; and correlated viral load level and diversity. Samp

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Salmier, Arielle, Sourakhata Tirera, Thoisy Benoit de, et al. "Virome analysis of two sympatric bat species (Desmodus rotundus and Molossus molossus) in French Guiana." PloS One 12, no. 11 (2017): e0186943. https://doi.org/10.5281/zenodo.13532122.

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(Uploaded by Plazi for the Bat Literature Project) Environmental disturbances in the Neotropics (e.g., deforestation, agriculture intensification, urbanization) contribute to an increasing risk of cross-species transmission of microorganisms and to disease outbreaks due to changing ecosystems of reservoir hosts. Although Amazonia encompasses the greatest diversity of reservoir species, the outsized viral population diversity (virome) has yet to be investigated. Here, through a metagenomic approach, we identified 10,991 viral sequences in the saliva and feces of two bat species, Desmodus rotund

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Salmier, Arielle, Sourakhata Tirera, Thoisy Benoit de, et al. "Virome analysis of two sympatric bat species (Desmodus rotundus and Molossus molossus) in French Guiana." PloS One 12, no. 11 (2017): e0186943. https://doi.org/10.5281/zenodo.13532122.

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(Uploaded by Plazi for the Bat Literature Project) Environmental disturbances in the Neotropics (e.g., deforestation, agriculture intensification, urbanization) contribute to an increasing risk of cross-species transmission of microorganisms and to disease outbreaks due to changing ecosystems of reservoir hosts. Although Amazonia encompasses the greatest diversity of reservoir species, the outsized viral population diversity (virome) has yet to be investigated. Here, through a metagenomic approach, we identified 10,991 viral sequences in the saliva and feces of two bat species, Desmodus rotund

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Iwami, Shingo, Shinji Nakaoka, and Yasuhiro Takeuchi. "Viral diversity limits immune diversity in asymptomatic phase of HIV infection." Theoretical Population Biology 73, no. 3 (2008): 332–41. http://dx.doi.org/10.1016/j.tpb.2008.01.003.

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Emerson, Joanne B., Brian C. Thomas, Karen Andrade, Karla B. Heidelberg, and Jillian F. Banfield. "New Approaches Indicate Constant Viral Diversity despite Shifts in Assemblage Structure in an Australian Hypersaline Lake." Applied and Environmental Microbiology 79, no. 21 (2013): 6755–64. http://dx.doi.org/10.1128/aem.01946-13.

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ABSTRACTIt is widely stated that viruses represent the most significant source of biodiversity on Earth, yet characterizing the diversity of viral assemblages in natural systems remains difficult. Viral diversity studies are challenging because viruses lack universally present, phylogenetically informative genes. Here, we developed an approach to estimate viral diversity using a series of functional and novel conserved genes. This approach provides direct estimates of viral assemblage diversity while retaining resolution at the level of individual viral populations in a natural system. We char

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Hevroni, Gur, Hagay Enav, Forest Rohwer, and Oded Béjà. "Diversity of viral photosystem-I psaA genes." ISME Journal 9, no. 8 (2014): 1892–98. http://dx.doi.org/10.1038/ismej.2014.244.

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Goñi, Sandra E., Betina I. Stephan, Javier A. Iserte, Marta S. Contigiani, Mario E. Lozano, and Antonio Tenorio. "Viral diversity of Junín virus field strains." Virus Research 160, no. 1-2 (2011): 150–58. http://dx.doi.org/10.1016/j.virusres.2011.06.004.

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Schulze, Irene T., and Ian D. Manger. "Viral glycoprotein heterogeneity-enhancement of functional diversity." Glycoconjugate Journal 9, no. 2 (1992): 63–66. http://dx.doi.org/10.1007/bf00731698.

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Vončina, Darko, Maher Al Rwahnih, Adib Rowhani, Mona Gouran, and Rodrigo P. P. Almeida. "Viral Diversity in Autochthonous Croatian Grapevine Cultivars." Plant Disease 101, no. 7 (2017): 1230–35. http://dx.doi.org/10.1094/pdis-10-16-1543-re.

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A survey was conducted on nine autochthonous grapevine cultivars grown along the Croatian coastal region. In total, 48 vines (44 from germplasm collection, 4 from vineyards) originating from 23 sites were tested for 26 viruses using molecular methods. Results revealed high infection rates with Grapevine leafroll-associated virus 3 (GLRaV-3); Grapevine virus A (GVA, both 91.7%); Grapevine fleck virus (GFkV, 87.5%); and Grapevine rupestris stem pitting-associated virus (GRSPaV, 83.3%). Other detected viruses were: Grapevine fanleaf virus (GFLV); Grapevine leafroll-associated viruses 1, 2, and st

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Kelsey, Rebecca. "Arctic an unexpected hotspot for viral diversity." Nature Reviews Microbiology 17, no. 7 (2019): 398. http://dx.doi.org/10.1038/s41579-019-0211-8.

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Balvay, Laurent, Ricardo Soto Rifo, Emiliano P. Ricci, Didier Decimo, and Théophile Ohlmann. "Structural and functional diversity of viral IRESes." Biochimica et Biophysica Acta (BBA) - Gene Regulatory Mechanisms 1789, no. 9-10 (2009): 542–57. http://dx.doi.org/10.1016/j.bbagrm.2009.07.005.

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Ng, Terry Fei Fan, Dana L. Willner, Yan Wei Lim, et al. "Broad Surveys of DNA Viral Diversity Obtained through Viral Metagenomics of Mosquitoes." PLoS ONE 6, no. 6 (2011): e20579. http://dx.doi.org/10.1371/journal.pone.0020579.

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Parameswaran, Poornima, Patrick Charlebois, Yolanda Tellez, et al. "Genome-Wide Patterns of Intrahuman Dengue Virus Diversity Reveal Associations with Viral Phylogenetic Clade and Interhost Diversity." Journal of Virology 86, no. 16 (2012): 8546–58. http://dx.doi.org/10.1128/jvi.00736-12.

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Analogous to observations in RNA viruses such as human immunodeficiency virus, genetic variation associated with intrahost dengue virus (DENV) populations has been postulated to influence viral fitness and disease pathogenesis. Previous attempts to investigate intrahost genetic variation in DENV characterized only a few viral genes or a limited number of full-length genomes. We developed a whole-genome amplification approach coupled with deep sequencing to capture intrahost diversity across the entire coding region of DENV-2. Using this approach, we sequenced DENV-2 genomes from the serum of 2

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Bergner, Laura M., Richard J. Orton, Julio A. Benavides, et al. "Demographic and environmental drivers of metagenomic viral diversity in vampire bats." Molecular Ecology 29, no. 1 (2020): 26–39. https://doi.org/10.5281/zenodo.13514819.

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(Uploaded by Plazi for the Bat Literature Project) Abstract Viruses infect all forms of life and play critical roles as agents of disease, drivers of biochemical cycles and sources of genetic diversity for their hosts. Our understanding of viral diversity derives primarily from comparisons among host species, precluding insight into how intraspecific variation in host ecology affects viral communities or how predictable viral communities are across populations. Here we test spatial, demographic and environmental hypotheses explaining viral richness and community composition across populations

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Bergner, Laura M., Richard J. Orton, Julio A. Benavides, et al. "Demographic and environmental drivers of metagenomic viral diversity in vampire bats." Molecular Ecology 29, no. 1 (2020): 26–39. https://doi.org/10.5281/zenodo.13514819.

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(Uploaded by Plazi for the Bat Literature Project) Abstract Viruses infect all forms of life and play critical roles as agents of disease, drivers of biochemical cycles and sources of genetic diversity for their hosts. Our understanding of viral diversity derives primarily from comparisons among host species, precluding insight into how intraspecific variation in host ecology affects viral communities or how predictable viral communities are across populations. Here we test spatial, demographic and environmental hypotheses explaining viral richness and community composition across populations

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Bergner, Laura M., Richard J. Orton, Julio A. Benavides, et al. "Demographic and environmental drivers of metagenomic viral diversity in vampire bats." Molecular Ecology 29, no. 1 (2020): 26–39. https://doi.org/10.5281/zenodo.13514819.

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(Uploaded by Plazi for the Bat Literature Project) Abstract Viruses infect all forms of life and play critical roles as agents of disease, drivers of biochemical cycles and sources of genetic diversity for their hosts. Our understanding of viral diversity derives primarily from comparisons among host species, precluding insight into how intraspecific variation in host ecology affects viral communities or how predictable viral communities are across populations. Here we test spatial, demographic and environmental hypotheses explaining viral richness and community composition across populations

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Bergner, Laura M., Richard J. Orton, Julio A. Benavides, et al. "Demographic and environmental drivers of metagenomic viral diversity in vampire bats." Molecular Ecology 29, no. 1 (2020): 26–39. https://doi.org/10.5281/zenodo.13514819.

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(Uploaded by Plazi for the Bat Literature Project) Abstract Viruses infect all forms of life and play critical roles as agents of disease, drivers of biochemical cycles and sources of genetic diversity for their hosts. Our understanding of viral diversity derives primarily from comparisons among host species, precluding insight into how intraspecific variation in host ecology affects viral communities or how predictable viral communities are across populations. Here we test spatial, demographic and environmental hypotheses explaining viral richness and community composition across populations

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Tirera, Sourakhata, Benoit de Thoisy, Damien Donato, et al. "The Influence of Habitat on Viral Diversity in Neotropical Rodent Hosts." Viruses 13, no. 9 (2021): 1690. http://dx.doi.org/10.3390/v13091690.

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Rodents are important reservoirs of numerous viruses, some of which have significant impacts on public health. Ecosystem disturbances and decreased host species richness have been associated with the emergence of zoonotic diseases. In this study, we aimed at (a) characterizing the viral diversity in seven neotropical rodent species living in four types of habitats and (b) exploring how the extent of environmental disturbance influences this diversity. Through a metagenomic approach, we identified 77,767 viral sequences from spleen, kidney, and serum samples. These viral sequences were attribut

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Bittner, B., and L. M. Wahl. "Immune Responses against Conserved and Variable Viral Epitopes." Journal of Theoretical Medicine 3, no. 1 (2000): 37–49. http://dx.doi.org/10.1080/10273660008833063.

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We extend well-known mathematical models of viral infection to examine the response of cytotoxic T lymphocytes (CTL) to both conserved and variable viral epitopes. Because most viruses are subject to error-prone reproduction, CTL recognition may be faced with highly variable epitopes, while other CTL epitopes may remain conserved across viral strains. In this paper we examine the steady state conditions for a simple model of viral-immune system dynamics in which the viral strain can be limited by either a specific immune response, a cross-reactive immune response, or host cell availability. We

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Russell, Magdalena L., Carolyn S. Fish, Sara Drescher, et al. "Using viral sequence diversity to estimate time of HIV infection in infants." PLOS Pathogens 19, no. 12 (2023): e1011861. http://dx.doi.org/10.1371/journal.ppat.1011861.

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Age at HIV acquisition may influence viral pathogenesis in infants, and yet infection timing (i.e. date of infection) is not always known. Adult studies have estimated infection timing using rates of HIV RNA diversification, however, it is unknown whether adult-trained models can provide accurate predictions when used for infants due to possible differences in viral dynamics. While rates of viral diversification have been well defined for adults, there are limited data characterizing these dynamics for infants. Here, we performed Illumina sequencing of gag and pol using longitudinal plasma sam

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Ott Rutar, Sabina, and Dusan Kordis. "Analysis of the RNA virome of basal hexapods." PeerJ 8 (January 9, 2020): e8336. http://dx.doi.org/10.7717/peerj.8336.

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The diversity and evolution of RNA viruses has been well studied in arthropods and especially in insects. However, the diversity of RNA viruses in the basal hexapods has not been analysed yet. To better understand their diversity, evolutionary histories and genome organizations, we searched for RNA viruses in transcriptome and genome databases of basal hexapods. We discovered 40 novel RNA viruses, some of which are also present as endogenous viral elements derived from RNA viruses. Here, we demonstrated that basal hexapods host 14 RNA viral clades that have been recently identified in inverteb

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Feuer, Ralph, John D. Boone, Dale Netski, Sergey P. Morzunov, and Stephen C. St. Jeor. "Temporal and Spatial Analysis of Sin Nombre Virus Quasispecies in Naturally Infected Rodents." Journal of Virology 73, no. 11 (1999): 9544–54. http://dx.doi.org/10.1128/jvi.73.11.9544-9554.1999.

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ABSTRACT Sin Nombre virus (SNV) is thought to establish a persistent infection in its natural reservoir, the deer mouse (Peromyscus maniculatus), despite a strong host immune response. SNV-specific neutralizing antibodies were routinely detected in deer mice which maintained virus RNA in the blood and lungs. To determine whether viral diversity played a role in SNV persistence and immune escape in deer mice, we measured the prevalence of virus quasispecies in infected rodents over time in a natural setting. Mark-recapture studies provided serial blood samples from naturally infected deer mice,

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Chong, Li Chuin, Wei Lun Lim, Kenneth Hon Kim Ban, and Asif M. Khan. "An Alignment-Independent Approach for the Study of Viral Sequence Diversity at Any Given Rank of Taxonomy Lineage." Biology 10, no. 9 (2021): 853. http://dx.doi.org/10.3390/biology10090853.

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The study of viral diversity is imperative in understanding sequence change and its implications for intervention strategies. The widely used alignment-dependent approaches to study viral diversity are limited in their utility as sequence dissimilarity increases, particularly when expanded to the genus or higher ranks of viral species lineage. Herein, we present an alignment-independent algorithm, implemented as a tool, UNIQmin, to determine the effective viral sequence diversity at any rank of the viral taxonomy lineage. This is done by performing an exhaustive search to generate the minimal

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Lefebvre, Marie, Sébastien Theil, Yuxin Ma, and Thierry Candresse. "The VirAnnot Pipeline: A Resource for Automated Viral Diversity Estimation and Operational Taxonomy Units Assignation for Virome Sequencing Data." Phytobiomes Journal 3, no. 4 (2019): 256–59. http://dx.doi.org/10.1094/pbiomes-07-19-0037-a.

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Viral metagenomics relies on high-throughput sequencing and on bioinformatic analyses to access the genetic content and diversity of entire viral communities. No universally accepted strategy or tool currently exists to define operational taxonomy units (OTUs) and evaluate viral alpha or beta diversity from virome data. Here we present a new bioinformatic resource, the VirAnnot (automated viral diversity estimation) pipeline, which performs the automated identification of OTUs. Reverse-position-specific BLAST (RPS-Blastn) is used to detect conserved viral protein motifs. The corresponding cont

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Helton, Rebekah R., and K. Eric Wommack. "Seasonal Dynamics and Metagenomic Characterization of Estuarine Viriobenthos Assemblages by Randomly Amplified Polymorphic DNA PCR." Applied and Environmental Microbiology 75, no. 8 (2009): 2259–65. http://dx.doi.org/10.1128/aem.02551-08.

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ABSTRACT Direct enumeration and genetic analyses indicate that aquatic sediments harbor abundant and diverse viral communities. Thus far, synecological analysis of estuarine sediment viral diversity over an annual cycle has not been reported. This oversight is due in large part to a lack of molecular genetic approaches for assessing viral diversity within a large collection of environmental samples. Here, randomly amplified polymorphic DNA PCR (RAPD-PCR) was used to examine viral genotypic diversity within Chesapeake Bay sediments. Using a single 10-mer oligonucleotide primer for all samples,

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Willoughby, Anna, Kendra Phelps, and Kevin Olival. "A Comparative Analysis of Viral Richness and Viral Sharing in Cave-Roosting Bats." Diversity 9, no. 3 (2017): 1–16. https://doi.org/10.3390/d9030035.

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Willoughby, Anna, Phelps, Kendra, Olival, Kevin (2017): A Comparative Analysis of Viral Richness and Viral Sharing in Cave-Roosting Bats. Diversity (Basel, Switzerland) 9 (3): 1-16, DOI: 10.3390/d9030035, URL: http://dx.doi.org/10.3390/d9030035

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Wasik, Szymon, Paulina Jackowiak, Jacek B. Krawczyk, et al. "Towards Prediction of HCV Therapy Efficiency." Computational and Mathematical Methods in Medicine 11, no. 2 (2010): 185–99. http://dx.doi.org/10.1080/17486700903170712.

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We investigate a correlation between genetic diversity of hepatitis C virus population and the level of viral RNA accumulation in patient blood. Genetic diversity is defined as the mean Hamming distance between all pairs of virus RNA sequences representing the population. We have found that a low Hamming distance (i.e. low genetic diversity) correlates with a high RNA level; symmetrically, high diversity corresponds to a low RNA level. We contend that the obtained correlation strength justifies the use of the viral RNA level as a measure enabling prediction of efficiency of an established ther

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Giles, Brendan M., and Ted M. Ross. "Computationally optimized antigens to overcome influenza viral diversity." Expert Review of Vaccines 11, no. 3 (2012): 267–69. http://dx.doi.org/10.1586/erv.12.3.

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Gilbert, Clément, and Carole Belliardo. "The diversity of endogenous viral elements in insects." Current Opinion in Insect Science 49 (February 2022): 48–55. http://dx.doi.org/10.1016/j.cois.2021.11.007.

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Fuhrmann, Lara, Kim Philipp Jablonski, and Niko Beerenwinkel. "Quantitative measures of within-host viral genetic diversity." Current Opinion in Virology 49 (August 2021): 157–63. http://dx.doi.org/10.1016/j.coviro.2021.06.002.

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McBurney, Sean P., and Ted M. Ross. "Viral sequence diversity: challenges for AIDS vaccine designs." Expert Review of Vaccines 7, no. 9 (2008): 1405–17. http://dx.doi.org/10.1586/14760584.7.9.1405.

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Retel, Cas, Hanna Märkle, Lutz Becks, and Philine Feulner. "Ecological and Evolutionary Processes Shaping Viral Genetic Diversity." Viruses 11, no. 3 (2019): 220. http://dx.doi.org/10.3390/v11030220.

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The contemporary genomic diversity of viruses is a result of the continuous and dynamic interaction of past ecological and evolutionary processes. Thus, genome sequences of viruses can be a valuable source of information about these processes. In this review, we first describe the relevant processes shaping viral genomic variation, with a focus on the role of host–virus coevolution and its potential to give rise to eco-evolutionary feedback loops. We further give a brief overview of available methodology designed to extract information about these processes from genomic data. Short generation

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Gales, Jón Pol, Julie Kubina, Angèle Geldreich, and Maria Dimitrova. "Strength in Diversity: Nuclear Export of Viral RNAs." Viruses 12, no. 9 (2020): 1014. http://dx.doi.org/10.3390/v12091014.

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The nuclear export of cellular mRNAs is a complex process that requires the orchestrated participation of many proteins that are recruited during the early steps of mRNA synthesis and processing. This strategy allows the cell to guarantee the conformity of the messengers accessing the cytoplasm and the translation machinery. Most transcripts are exported by the exportin dimer Nuclear RNA export factor 1 (NXF1)–NTF2-related export protein 1 (NXT1) and the transcription–export complex 1 (TREX1). Some mRNAs that do not possess all the common messenger characteristics use either variants of the NX

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Astrovskaya, Irina, Bo Liu, and Mihai Pop. "Viral diversity in children with diarrhea in Gambia." Genome Biology 12, Suppl 1 (2011): P2. http://dx.doi.org/10.1186/gb-2011-12-s1-p2.

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Nickle, David C., Morgane Rolland, Mark A. Jensen, et al. "Coping with Viral Diversity in HIV Vaccine Design." PLoS Computational Biology 3, no. 4 (2007): e75. http://dx.doi.org/10.1371/journal.pcbi.0030075.

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Fuhrman, Jed A., John F. Griffith, and Michael S. Schwalbach. "Prokaryotic and viral diversity patterns in marine plankton." Ecological Research 17, no. 2 (2002): 183–94. http://dx.doi.org/10.1046/j.1440-1703.2002.00478.x.

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Snyder, Jamie C., Benjamin Bolduc, and Mark J. Young. "40 Years of archaeal virology: Expanding viral diversity." Virology 479-480 (May 2015): 369–78. http://dx.doi.org/10.1016/j.virol.2015.03.031.

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Breitbart, Mya, Matthew Haynes, Scott Kelley, et al. "Viral diversity and dynamics in an infant gut." Research in Microbiology 159, no. 5 (2008): 367–73. http://dx.doi.org/10.1016/j.resmic.2008.04.006.

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Frahm, Nicole, and Christian Brander. "HIV viral diversity and escape from cellular immunity." Current Infectious Disease Reports 9, no. 2 (2007): 161–66. http://dx.doi.org/10.1007/s11908-007-0012-5.

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Goudsmit, Jaap. "The Role of Viral Diversity in HIV Pathogenesis." Journal of Acquired Immune Deficiency Syndromes & Human Retrovirology 10, Supplement (1995): S20. http://dx.doi.org/10.1097/00042560-199510001-00004.

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Artigos de revistas sobre o tema "Viral diversity"

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