Bioinformatic prediction of polymerase elements in the rotavirus VP1 protein

Carpió, Rodrigo Vásquez-Del; Morales, Jaime L; Barro, Mario; Ricardo, Alba; Spencer, Eugenio

doi:10.4067/s0716-97602006000500008

Cited by 7 publications

(1 citation statement)

References 29 publications

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“…VP1 is located in the core of the virus particle and is an RNA polymeraseenzyme. [30] In an infected cell this enzyme produces mRNA transcripts for the synthesis of viral proteins and produces copies of the rotavirus genome RNA segments for newly produced virus particles. [31] VP2 forms the core layer of the virion and binds the RNA genome.…”

Section: Proteinsmentioning

confidence: 99%

Rotavirus

Beards¹

2017

Wiki J Med

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Rotavirus is the most common cause of diarrhoeal disease among infants and young children. [1] It is a genus of double-stranded RNA viruses in the family Reoviridae. Nearly every child in the world is infected with rotavirus at least once by the age of five. [2] Immunity develops with each infection, so subsequent infections are less severe; adults are rarely affected. [3] There are eight species of this virus, referred to as A, B, C, D, E, F, G and H. Rotavirus A, the most common species, causes more than 90% of rotavirus infections in humans.The virus is transmitted by the faecal-oral route. It infects and damages the cells that line the small intestine and causes gastroenteritis (which is often called "stomach flu" despite having no relation to influenza). Although rotavirus was discovered in 1973 by Ruth Bishop and her colleagues by electron micrograph images [4] and accounts for approximately one third of hospitalisations for severe diarrhoea in infants and children, [5] its importance has historically been underestimated within the public health community, particularly in developing countries. [6] In addition to its impact on human health, rotavirus also infects animals, and is a pathogen of livestock. [7] Rotavirus is usually an easily managed disease of childhood, but in 2013, rotavirus caused 37 percent of deaths of children from diarrhoea and 215,000 deaths worldwide, [8] and almost two million more become severely ill. [6] Most of these deaths occurred in developing countries. [9] In the United States, before initiation of the rotavirus vaccination programme, rotavirus caused about 2.7 million cases of severe gastroenteritis in children, almost 60,000 hospitalisations, and around 37 deaths each year. [10] Following rotavirus vaccine introduction in the United States, hospitalisation rates have fallen significantly. [11][12] Public health campaigns to combat rotavirus focus on providing oral rehydration therapy for infected children and vaccination to prevent the disease. [13] The incidence and severity of rotavirus infections has declined significantly in countries that have added rotavirus vaccine to their routine childhood immunisation policies. [14][15] [16] Virology Types of rotavirusThere are eight species of rotavirus, referred to as groups A, B, C, D, E, F, G, and H. [17] Humans are primarily infected by species A, B and C, most commonly by species A. A-E species cause disease in other animals, [18] species E and H in pigs, and D, F and G in birds.[19] [20] Within rotavirus A there are different strains, called serotypes.[21] As with influenza virus, a dual classification system is used based on two proteins on the surface of the virus. The glycoprotein VP7 defines the G serotypes and the protease-sensitive protein VP4 defines P serotypes.[22] Because the two genes that determine G-types and P-types can be passed on separately to progeny viruses, different combinations are found.[22] A whole genome genotyping system has been established for group A rotaviruses, which has been used to ...

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Section: Proteinsmentioning

confidence: 99%

Rotavirus

Beards¹

2017

Wiki J Med

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Common and unique features of viral RNA-dependent polymerases

Velthuis

2014

Cell. Mol. Life Sci.

231

210

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Eukaryotes and bacteria can be infected with a wide variety of RNA viruses. On average, these pathogens share little sequence similarity and use different replication and transcription strategies. Nevertheless, the members of nearly all RNA virus families depend on the activity of a virally encoded RNA-dependent polymerase for the condensation of nucleotide triphosphates. This review provides an overview of our current understanding of the viral RNA-dependent polymerase structure and the biochemistry and biophysics that is involved in replicating and transcribing the genetic material of RNA viruses.

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Whole-genome consensus sequence analysis of a South African rotavirus SA11 sample reveals a mixed infection with two close derivatives of the SA11-H96 strain

et al. 2012

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Whole-genome, sequence-independent amplification and 454(®) pyrosequencing of a rotavirus SA11 cell culture sample with an unknown passage history yielded consensus sequences of twelve complete genome segments. Two distinct sequences for genome segment 8 (encoding NSP2) were present, indicating a mixed infection with two rotavirus SA11 strains. The genotypes of the viruses were G3-P[2]-I2-R2-C5-M5-A5-Nx-T5-E2-H5, where x was either 5 or 2. The strains were named RVA/Simian-tc/ZAF/SA11-N5/1958/G3P[2] and RVA/Simian-tc/ZAF/SA11-N2/1958/G3P[2]. The genotype (N2) and sequence of genome segment 8 of RVA/Simian-tc/ZAF/SA11-N2/1958/G3P[2] were identical to that of the bovine rotavirus O agent. Five novel amino acids were detected in minor population variants of three genome segments. Genome segment 1 (VP1) has a high nucleotide substitution rate, but the substitutions are synonymous. Distance matrices and Bayesian molecular clock phylogenetics showed that SA11-N2 is a reassortant containing genome segment 8 from the O agent, whereas SA11-N5 is a very close derivative of the prototype SA11-H96.

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Bioinformatic prediction of polymerase elements in the rotavirus VP1 protein

Cited by 7 publications

References 29 publications

Rotavirus

Rotavirus

Common and unique features of viral RNA-dependent polymerases

Whole-genome consensus sequence analysis of a South African rotavirus SA11 sample reveals a mixed infection with two close derivatives of the SA11-H96 strain

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