ArticleScientific reports2016
Subtype-specific structural constraints in the evolution of influenza A virus hemagglutinin genes.
Article in Scientific reports, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 31 citations in OpenAlex.
- Increased or decreased numbers of CpG dinucleotide motifs in the genome of influenza A virus do not affectJournal of virology · 2026Article
- Polymerase trapping as the mechanism of H5 highly pathogenic avian influenza virus genesis.Science (New York, N.Y.) · 2026Article
- Nucleotide sequence as key determinant driving insertions at influenza A virus hemagglutinin cleavage sites.Npj viruses · 2024Article
- Locations and structures of influenza A virus packaging-associated signals and other functional elements via an in silico pipeline for predicting constrained features in RNA viruses.PLoS computational biology · 2024Article
- Discovery of RNA secondary structural motifs using sequence-ordered thermodynamic stability and comparative sequence analysis.MethodsX · 2023Article
- Structural and Functional RNA Motifs of SARS-CoV-2 and Influenza A Virus as a Target of Viral Inhibitors.International journal of molecular sciences · 2023Review
- Comprehensive in virio structure probing analysis of the influenza A virus identifies functional RNA structures involved in viral genome replication.Computational and structural biotechnology journal · 2023Article
- Hemagglutinin Subtype Specificity and Mechanisms of Highly Pathogenic Avian Influenza Virus Genesis.Viruses · 2022Review
- In Silico Analyses of the Role of Codon Usage at the Hemagglutinin Cleavage Site in Highly Pathogenic Avian Influenza Genesis.Viruses · 2022Article
- In silico analysis of local RNA secondary structure in influenza virus A, B and C finds evidence of widespread ordered stability but little evidence of significant covariation.Scientific reports · 2022Article
- Structural Requirements in the Hemagglutinin Cleavage Site-Coding RNA Region for the Generation of Highly Pathogenic Avian Influenza Virus.Pathogens (Basel, Switzerland) · 2021Article
- Universal and strain specific structure features of segment 8 genomic RNA of influenza A virus-application of 4-thiouridine photocrosslinking.The Journal of biological chemistry · 2021Article
- Phylodynamic study of the conserved RNA structure encompassing the hemagglutinin cleavage site encoding region of H5 and H7 low pathogenic avian influenza viruses.Virus evolution · 2021Article
- Selective Genome Packaging Mechanisms of Influenza A Viruses.Cold Spring Harbor perspectives in medicine · 2021Review
- Article
- Insertions of codons encoding basic amino acids in H7 hemagglutinins of influenza A viruses occur by recombination with RNA at hotspots near snoRNA binding sites.RNA (New York, N.Y.) · 2021Article
- A risk marker of tribasic hemagglutinin cleavage site in influenza A (H9N2) virus.Communications biology · 2021Article
- Emergence and Selection of a Highly Pathogenic Avian Influenza H7N3 Virus.Journal of virology · 2020Article
- Review
- RNA Sequence Features Are at the Core of Influenza A Virus Genome Packaging.Journal of molecular biology · 2019Review
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Authors and funding
6 authors at 2 institutions in 1 country.
Funding
Abstract
The influenza A virus genome consists of eight RNA segments. RNA structures within these segments and complementary (cRNA) and protein-coding mRNAs may play a role in virus replication. Here, conserved putative secondary structures that impose significant evolutionary constraints on the gene segment encoding the surface glycoprotein hemagglutinin (HA) were investigated using available sequence data on tens of thousands of virus strains. Structural constraints were identified by analysis of covariations of nucleotides suggested to be paired by structure prediction algorithms. The significance of covariations was estimated by mutual information calculations and tracing multiple covariation events during virus evolution. Covariation patterns demonstrated that structured domains in HA RNAs were mostly subtype-specific, whereas some structures were conserved in several subtypes. The influence of RNA folding on virus replication was studied by plaque assays of mutant viruses with disrupted structures. The results suggest that over the whole length of the HA segment there are local structured domains which contribute to the virus fitness but individually are not essential for the virus. Existence of subtype-specific structured regions in the segments of the influenza A virus genome is apparently an important factor in virus evolution and reassortment of its genes.
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