scholarly journals Dynamic Expedition of Leading Mutations in SARS-CoV-2 Spike Glycoproteins

2021 ◽  
Author(s):  
Zhouyi He ◽  
Muhammad Hasan ◽  
Mengqi Jia ◽  
Kathiresan Natarajan ◽  
Shan Qi Yap ◽  
...  
Keyword(s):  
Amino Acid ◽  
Immune Escape ◽  
Vital Role ◽  
Single Amino Acid ◽  
Great Promise ◽  
Spike Glycoprotein ◽  
Amino Acid Polymorphism ◽  
Time Resolved ◽  
Single Amino Acid Polymorphism ◽  
Mutation Pattern

During the ongoing CoVID-19 epidemic, the continuous genomic evolution of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has been generating new variants with enhanced transmissibility and immune escape. Being one key target of antibodies, mutations of the spike glycoprotein play a vital role in the trajectory of virus evasion. Here, we present a time-resolved statistical method, dynamic expedition of leading mutations (deLemus), to analyze the evolution dynamics of the spike protein. Together with analysis on single amino-acid polymorphism (SAP), we proposed one L-index to quantify the mutation strength of each amino acid for unravelling mutation pattern of spike glycoprotein. The sites of interest (SOI) with high L-index hold great promise to detect potential signal of emergent variants.

scholarly journals A single amino acid polymorphism in the glycosyltransferase CpsK defines four Streptococcus suis serotypes

2017 ◽  
Vol 7 (1) ◽  
Author(s):  
David Roy ◽  
Taryn B. T. Athey ◽  
Jean-Philippe Auger ◽  
Guillaume Goyette-Desjardins ◽  
Marie-Rose Van Calsteren ◽  
...  
Keyword(s):  
Amino Acid ◽  
Streptococcus Suis ◽  
Single Amino Acid ◽  
Amino Acid Polymorphism ◽  
Single Amino Acid Polymorphism

scholarly journals Identification, immunomodulatory activity, and immunogenicity of the major helper T-cell epitope on the K blood group antigen

Blood ◽  
2012 ◽  
Vol 119 (23) ◽  
pp. 5563-5574 ◽  
Author(s):  
Jillian Stephen ◽  
Lindsay S. Cairns ◽  
Wendy J. Pickford ◽  
Mark A. Vickers ◽  
Stanislaw J. Urbaniak ◽  
...  
Keyword(s):  
Amino Acid ◽  
Blood Group ◽  
Mhc Class Ii ◽  
Cell Epitope ◽  
Single Amino Acid ◽  
Immunomodulatory Activity ◽  
Amino Acid Polymorphism ◽  
C Terminus ◽  
Single Amino Acid Polymorphism ◽  
Linked Suppression

Abstract The K blood group remains an important target in hemolytic disease of the newborn (HDN), with no immune prophylaxis available. The aim was to characterize the Th response to K as a key step in designing specific immunotherapy and understanding the immunogenicity of the Ag. PBMCs from K-negative women who had anti-K Abs after incompatible pregnancy, and PBMCs from unimmunized controls, were screened for proliferative responses to peptide panels spanning the K or k single amino acid polymorphism. A dominant K peptide with the polymorphism at the C terminus elicited proliferation in 90% of alloimmunized women, and it was confirmed that responding cells expressed helper CD3+CD4+ and “memory” CD45RO+ phenotypes, and were MHC class II restricted. A relatively high prevalence of background peptide responses independent of alloimmunization may contribute to K immunogenicity. First, cross-reactive environmental Ag(s) pre-prime Kell-reactive Th cells, and, second, the K substitution disrupts an N-glycosylation motif, allowing the exposed amino acid chain to stimulate a Th repertoire that is unconstrained by self-tolerance in K-negative individuals. The dominant K peptide was effective in inducing linked suppression in HLA-transgenic mice and can now be taken forward for immunotherapy to prevent HDN because of anti-K responses.

scholarly journals A Single-Amino-Acid Polymorphism in Reovirus Protein  2 Determines Repression of Interferon Signaling and Modulates Myocarditis

2011 ◽  
Vol 86 (4) ◽  
pp. 2302-2311 ◽  
Author(s):  
S. C. Irvin ◽  
J. Zurney ◽  
L. S. Ooms ◽  
J. D. Chappell ◽  
T. S. Dermody ◽  
...  
Keyword(s):  
Amino Acid ◽  
Single Amino Acid ◽  
Interferon Signaling ◽  
Amino Acid Polymorphism ◽  
Single Amino Acid Polymorphism

scholarly journals Finding new structural and sequence attributes to predict possible disease association of single amino acid polymorphism (SAP)

2007 ◽  
Vol 23 (12) ◽  
pp. 1444-1450 ◽  
Author(s):  
Z.-Q. Ye ◽  
S.-Q. Zhao ◽  
G. Gao ◽  
X.-Q. Liu ◽  
R. E. Langlois ◽  
...  
Keyword(s):  
Amino Acid ◽  
Disease Association ◽  
Single Amino Acid ◽  
Amino Acid Polymorphism ◽  
Single Amino Acid Polymorphism

scholarly journals Functional variation in phyllogen, a phyllody‐inducing phytoplasma effector family, attributable to a single amino acid polymorphism

2020 ◽  
Vol 21 (10) ◽  
pp. 1322-1336
Author(s):  
Nozomu Iwabuchi ◽  
Yugo Kitazawa ◽  
Kensaku Maejima ◽  
Hiroaki Koinuma ◽  
Akio Miyazaki ◽  
...  
Keyword(s):  
Amino Acid ◽  
Single Amino Acid ◽  
Amino Acid Polymorphism ◽  
Functional Variation ◽  
Single Amino Acid Polymorphism

Recognizing Single Amino Acid Polymorphism in Proteins

2003 ◽  
Vol 75 (19) ◽  
pp. 4956-4963 ◽  
Author(s):  
Peiran Liu ◽  
Fred E. Regnier
Keyword(s):  
Amino Acid ◽  
Single Amino Acid ◽  
Amino Acid Polymorphism ◽  
Single Amino Acid Polymorphism

scholarly journals Genetic basis of variation in heat and ethanol tolerance in Saccharomyces cerevisiae

2018 ◽  
Author(s):  
Linda Riles ◽  
Justin C. Fay
Keyword(s):  
Saccharomyces Cerevisiae ◽  
High Temperature ◽  
Amino Acid ◽  
Genetic Basis ◽  
Ethanol Tolerance ◽  
Temperature Tolerance ◽  
Single Amino Acid ◽  
Amino Acid Polymorphism ◽  
Fermentative Capacity ◽  
Single Amino Acid Polymorphism

ABSTRACTSaccharomyces cerevisiae has the capability of fermenting sugar to produce concentrations of ethanol that are toxic to most organisms. Other Saccharomyces species also have a strong fermentative capacity, but some are specialized to low temperatures, whereas S. cerevisiae is the most thermotolerant. Although S. cerevisiae has been extensively used to study the genetic basis of ethanol tolerance, much less is known about temperature dependent ethanol tolerance. In this study, we examined the genetic basis of ethanol tolerance at high temperature among strains of S. cerevisiae. We identified two amino acid polymorphisms in SEC24 that cause strong sensitivity to ethanol at high temperature and more limited sensitivity to temperature in the absence of ethanol. We also identified a single amino acid polymorphism in PSD1 that causes sensitivity to high temperature in a strain dependent fashion. The genes we identified provide further insight into genetic variation in ethanol and temperature tolerance and the interdependent nature of these two traits in S. cerevisiae.

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