Molecular characterization of a cancer-related single nucleotide polymorphism in the pro-inflammatory interleukin-1B gene

2012 ◽  
Vol 51 (S1) ◽  
pp. E168-E175 ◽  
Author(s):  
N.E. Landvik ◽  
X. Tekpli ◽  
K.H. Anmarkrud ◽  
A. Haugen ◽  
S. Zienolddiny
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Molecular Characterization ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

Molecular Characterization of Cacao (Theobroma cacao) Germplasm from Jamaica Using Single Nucleotide Polymorphism (SNP) Markers

2018 ◽  
Vol 11 (3-4) ◽  
pp. 93-106 ◽  
Author(s):  
Aliza A. Lindo ◽  
Dwight E. Robinson ◽  
Paula F. Tennant ◽  
Lyndel W. Meinhardt ◽  
Dapeng Zhang
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Molecular Characterization ◽  
Theobroma Cacao ◽  
Snp Markers ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

scholarly journals Use of Canonical Single Nucleotide Polymorphism (CanSNPs) to characterizeBacillus anthracisoutbreak strains in Zambia between 1990 and 2014

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5270 ◽  
Author(s):  
Antonio Fasanella ◽  
Luigina Serrecchia ◽  
Alexandra Chiaverini ◽  
Giuliano Garofolo ◽  
Geoffrey M. Muuka ◽  
...  
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Genetic Structure ◽  
Bacillus Anthracis ◽  
Molecular Characterization ◽  
Vaccine Strain ◽  
Southern Africa ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Ancestral Origin

Anthrax caused byBacillus anthracisis an old and neglected zoonosis that continues to raise concerns in Southern Africa. In this study, twenty (20) slides with suspected isolates ofB. anthracisfrom anthrax cases between 1990 and 2014 and two (2) from that of a vaccine strain were analysed using MLVA with 15 VNTRs and CanSNPs test. The results from the CanSNPs indicate that all anthrax outbreaks in Zambia between 1990 and 2014 were caused by the lineage A.Br.005/006 of the clade A. This indicates a common ancestral origin of theB. anthraciscirculating in the country. This data has described several environmental, wildlife, livestock and human cases that occurred in a 24 year period, from the major areas where anthrax is endemic. The molecular characterization of isolates from anthrax outbreaks in Zambia has revealed a genetic structure in agreement with previous studies from neighbouring countries. Further studies are needed to elucidate how to better manage anthrax outbreaks and define the risk maps of Zambia.

A single nucleotide polymorphism-based technique for specific characterization of YO and YN isolates of Potato virus Y (PVY).

2005 ◽  
Vol 125 (1) ◽  
pp. 83-93 ◽  
Author(s):  
Emmanuel Jacquot ◽  
Michel Tribodet ◽  
Flora Croizat ◽  
Valérie Balme-Sinibaldi ◽  
Camille Kerlan
Keyword(s):  
Single Nucleotide Polymorphism ◽  
Potato Virus ◽  
Potato Virus Y ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

scholarly journals Single Nucleotide Polymorphism Genotyping Analysis Shows That Vaccination Can Limit the Number and Diversity of Recombinant Progeny of Infectious Laryngotracheitis Viruses from the United States

2018 ◽  
Vol 84 (23) ◽  
Author(s):  
Carlos A. Loncoman ◽  
Carol A. Hartley ◽  
Mauricio J. C. Coppo ◽  
Glenn F. Browning ◽  
Gabriela Beltrán ◽  
...  
Keyword(s):  
United States ◽  
Single Nucleotide Polymorphism ◽  
Viral Replication ◽  
The United States ◽  
Snp Genotyping ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Genotyping Assay ◽  
Infectious Laryngotracheitis

ABSTRACT Infectious laryngotracheitis (ILTV; Gallid alphaherpesvirus 1) causes mild to severe respiratory disease in poultry worldwide. Recombination in this virus under natural (field) conditions was first described in 2012 and more recently has been studied under laboratory conditions. Previous studies have revealed that natural recombination is widespread in ILTV and have also demonstrated that recombination between two attenuated ILTV vaccine strains generated highly virulent viruses that produced widespread disease within poultry flocks in Australia. In the United States, natural ILTV recombination has also been detected, but not as frequently as in Australia. To better understand recombination in ILTV strains originating from the United States, we developed a TaqMan single nucleotide polymorphism (SNP) genotyping assay to detect recombination between two virulent U.S. field strains of ILTV (63140 and 1874c5) under experimental in vivo conditions. We also tested the capacity of the Innovax-ILT vaccine (a recombinant vaccine using herpesvirus of turkeys as a vector) and the Trachivax vaccine (a conventionally attenuated chicken embryo origin vaccine) to reduce recombination. The Trachivax vaccine prevented ILTV replication, and therefore recombination, in the trachea after challenge. The Innovax-ILT vaccine allowed the challenge viruses to replicate and to recombine, but at a significantly lower rate than in an unvaccinated group of birds. Our results demonstrate that the TaqMan SNP genotyping assay is a useful tool to study recombination between these ILTV strains and also show that vaccination can limit the number and diversity of recombinant progeny viruses. IMPORTANCE Recombination allows alphaherpesviruses to evolve over time and become more virulent. Historically, characterization of viral vaccines in poultry have mainly focused on limiting clinical disease, rather than limiting virus replication, but such approaches can allow field viruses to persist and evolve in vaccinated populations. In this study, we vaccinated chickens with Gallid alphaherpesvirus 1 vaccines that are commercially available in the United States and then performed coinoculations with two field strains of virus to measure the ability of the vaccines to prevent field strains from replicating and recombining. We found that vaccination reduced viral replication, recombination, and diversity compared to those in unvaccinated chickens, although the extent to which this occurred differed between vaccines. We suggest that characterization of vaccines could include studies to examine the ability of vaccines to reduce viral recombination in order to limit the rise of new virulent field strains due to recombination, especially for those vaccines that are known not to prevent viral replication following challenge.

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