Search filters

List of works by Austin L. Hughes

A dominant role for CD8+-T-lymphocyte selection in simian immunodeficiency virus sequence variation

scientific article published on December 2004

A novel hepacivirus with an unusually long and intrinsically disordered NS5A protein in a wild Old World primate

scientific article published on 05 June 2013

A phylogenetic approach to gene expression data: evidence for the evolutionary origin of mammalian leukocyte phenotypes

scientific article

AIDS virus specific CD8+ T lymphocytes against an immunodominant cryptic epitope select for viral escape

scientific article

Acute phase CD8+ T lymphocytes against alternate reading frame epitopes select for rapid viral escape during SIV infection

scientific article

Acute phase cytotoxic T lymphocyte escape is a hallmark of simian immunodeficiency virus infection

scientific article published in May 2002

Alternative splicing, gene duplication and connectivity in the genetic interaction network of the nematode worm Caenorhabditis elegans

scientific article

Amino acid sequence constraint and gene expression pattern across the life history in the malaria parasite Plasmodium falciparum

scientific article published on 15 April 2005

Analysis of hepatitis C virus intrahost diversity across the coding region by ultradeep pyrosequencing

scientific article published on 25 January 2012

Ancient Genome Duplications Did Not Structure the Human <i>Hox</i>-Bearing Chromosomes

scientific article published in 2001

Ancient common ancestry of the merozoite surface protein 1 of Plasmodium vivax as inferred from its homologue in Plasmodium knowlesi

scientific article published on 22 November 2005

Arteriviruses, Pegiviruses, and Lentiviruses Are Common among Wild African Monkeys

scientific article published on 11 May 2016

Aspartic proteinase phylogeny and the origin of pregnancy-associated glycoproteins

scientific article published on 29 August 2003

Between-Host Evolution of Cytotoxic T-Lymphocyte Epitopes in Human Immunodeficiency Virus Type 1: an Approach Based on Phylogenetically Independent Comparisons

scientific article published in February 2005

Between-host evolution of cytotoxic T-lymphocyte epitopes in human immunodeficiency virus type 1: an approach based on phylogenetically independent comparisons

scientific article

Bottleneck effects on vaccine-candidate antigen diversity of malaria parasites in Thailand

scientific article

CD8+ T cells from SIV elite controller macaques recognize Mamu-B*08-bound epitopes and select for widespread viral variation

scientific article published on 14 November 2007

Characterization and phylogenetic relationship of prosimian MHC class I genes

scientific article

Characterization of 47 MHC class I sequences in Filipino cynomolgus macaques

scientific article (publication date: March 2009)

Characterization of full-length MHC class II sequences in Indonesian and Vietnamese cynomolgus macaques ⬇️

scientific article published on May 26, 2011

Class I molecules with similar peptide-binding specificities are the result of both common ancestry and convergent evolution

scientific article published on 14 February 2003

Coding sequence polymorphism in avian mitochondrial genomes reflects population histories

scientific article published on April 2007

Codon-based tests of positive selection, branch lengths, and the evolution of mammalian immune system genes

scientific article

Comparing effective population sizes of dominant marine alphaproteobacteria lineages

scientific article published on 5 December 2013

Comparison of the genomic structure and variation in the two human sodium-dependent vitamin C transporters, SLC23A1 and SLC23A2.

scientific article published on September 2004

Complete characterization of killer Ig-like receptor (KIR) haplotypes in Mauritian cynomolgus macaques: novel insights into nonhuman primate KIR gene content and organization

scientific article

Comprehensive characterization of MHC class II haplotypes in Mauritian cynomolgus macaques

scientific article

Comprehensive immunological evaluation reveals surprisingly few differences between elite controller and progressor Mamu-B*17-positive simian immunodeficiency virus-infected rhesus macaques

scientific article published on 2 April 2008

Conditional CD8+ T cell escape during acute simian immunodeficiency virus infection

scientific article published on 19 October 2011

Conditional Immune Escape during Chronic Simian Immunodeficiency Virus Infection

scientific article

Conflicting selection pressures target the NS3 protein in hepatitis C virus genotypes 1a and 1b.

scientific article

Cross-clade simultaneous HIV drug resistance genotyping for reverse transcriptase, protease, and integrase inhibitor mutations by Illumina MiSeq

scientific article

Dblox: a genome-wide test for ancient segmental duplication

scientific article published on 14 May 2004

Differential selective pressures on the merozoite surface protein 2 locus of Plasmodium falciparum in a low endemic area

scientific article

Distinctive pattern of sequence polymorphism in the NS3 protein of hepatitis C virus type 1b reflects conflicting evolutionary pressures

scientific article

Dynamics of haplotype frequency change in a CD8+TL epitope of simian immunodeficiency virus

scientific article

Ecology of malaria parasites infecting Southeast Asian macaques: evidence from cytochrome b sequences

scientific article

Effects of natural selection on interpopulation divergence at polymorphic sites in human protein-coding Loci

scientific article

Environmental kinetoplastid-like 18S rRNA sequences and phylogenetic relationships among Trypanosomatidae: Paraphyly of the genus Trypanosoma

scholarly article by Helen Piontkivska & Austin L Hughes published November 2005 in Molecular and Biochemical Parasitology

Escape from CD8(+) T cell responses in Mamu-B*00801(+) macaques differentiates progressors from elite controllers

scientific article published on 02 March 2012

Escape in one of two cytotoxic T-lymphocyte epitopes bound by a high-frequency major histocompatibility complex class I molecule, Mamu-A*02: a paradigm for virus evolution and persistence?

scientific article

Evolution of divergent life history strategies in marine alphaproteobacteria

scientific article (publication date: 9 July 2013)

Evolutionary analysis of a streamlined lineage of surface ocean Roseobacters

scientific article

Evolutionary diversification of the avian fatty acid-binding proteins ⬇️

scientific article published on December 15, 2011

Evolutionary diversification of the vertebrate transferrin multi-gene family

scientific article published on 22 August 2014

Experimental analysis of sources of error in evolutionary studies based on Roche/454 pyrosequencing of viral genomes

scientific article

Expression patterns of duplicate genes in the developing root in Arabidopsis thaliana

scientific article published in February 2005

Extensive polymorphism and ancient origin of Plasmodium falciparum

scientific article published in August 2002

Extraepitopic compensatory substitutions partially restore fitness to simian immunodeficiency virus variants that escape from an immunodominant cytotoxic-T-lymphocyte response

scientific article published on March 2004

Functional diversification of the toll-like receptor gene family

scientific article published on 16 April 2008

Gene duplication and the properties of biological networks

scientific article

Gene family content-based phylogeny of prokaryotes: the effect of criteria for inferring homology

scientific article published on 01 April 2005

Genome Reduction by Deletion of Paralogs in the Marine Cyanobacterium Prochlorococcus ⬇️

scientific article published on April 29, 2011

Genome sequences reveal divergence times of malaria parasite lineages

scientific article (publication date: November 2011)

Genome size reduction in the chicken has involved massive loss of ancestral protein-coding genes

scientific article published on 26 September 2008

Genome-wide SNP typing reveals signatures of population history

scientific article

Genome-wide patterns of nucleotide substitution reveal stringent functional constraints on the protein sequences of thermophiles

scientific article

Genome-wide survey for genes horizontally transferred from cellular organisms to baculoviruses

scientific article published on 25 April 2003

Genomewide pattern of synonymous nucleotide substitution in two complete genomes of Mycobacterium tuberculosis

scientific article

Genomics and diversity of the common marmoset monkey NK complex.

scientific article published in June 2007

High genetic diversity and adaptive potential of two simian hemorrhagic fever viruses in a wild primate population

scientific article

High level of functional polymorphism indicates a unique role of natural selection at human immune system loci

scientific article published on 29 October 2005

Identification of MHC class I sequences in Chinese-origin rhesus macaques

scientific article

Likelihood-ratio tests for positive selection of human and mouse duplicate genes reveal nonconservative and anomalous properties of widely used methods

scientific article published on 03 August 2006

Loss of ancestral genes in the genomic evolution of Ciona intestinalis

scientific article published in May 2005

Low level of sequence diversity at merozoite surface protein-1 locus of Plasmodium ovale curtisi and P. ovale wallikeri from Thai isolates

scientific article published in 2013

MHC class I characterization of Indonesian cynomolgus macaques

scientific article

MHC heterozygote advantage in simian immunodeficiency virus-infected Mauritian cynomolgus macaques

scientific article

Major histocompatibility complex class I alleles associated with slow simian immunodeficiency virus disease progression bind epitopes recognized by dominant acute-phase cytotoxic-T-lymphocyte responses

scientific article published on August 2003

Malaria parasite sequences from chimpanzee support the co-speciation hypothesis for the origin of virulent human malaria (Plasmodium falciparum)

scientific article

Mitochondrial genome sequences support ancient population expansion in Plasmodium vivax

scientific article

Molecular evolution of the NF-kappaB signaling system

scientific article published on 9 January 2002

Molecular phylogenetics of Trypanosomatidae: contrasting results from 18S rRNA and protein phylogenies ⬇️

scientific article published on October 28, 2003

More effective purifying selection on RNA viruses than in DNA viruses

scientific article (publication date: December 2007)

Natural selection maintains a stable polymorphism at the circumsporozoite protein locus of Plasmodium falciparum in a low endemic area

scientific article

Non-random association of transposable elements with duplicated genomic blocks in Arabidopsis thaliana ⬇️

scientific article published on December 1, 2003

Novel member of the CD209 (DC-SIGN) gene family in primates

scientific article

Nucleotide sequence polymorphism at the apical membrane antigen-1 locus reveals population history of Plasmodium vivax in Thailand

scientific article published on 28 July 2009

Nucleotide sequence polymorphism in circoviruses

scientific article published on 17 November 2007

Nucleotide substitution at the highly polymorphic K1 locus of human herpesvirus 8 (Kaposi's sarcoma-associated herpesvirus)

scientific article published on 24 July 2006

Ongoing purifying selection on intergenic spacers in group A streptococcus

scientific article

Parallel evolution by gene duplication in the genomes of two unicellular fungi

scientific article

Parallel evolution by gene duplication in the genomes of two unicellular fungi

scientific article published on 01 June 2003

Pattern of divergence of amino acid sequences encoded by paralogous genes in human and pufferfish

scientific article published in July 2004

Pattern of gene duplication in the Cotesia congregata Bracovirus

scientific article published on 4 January 2006

Patterns of nucleotide difference in overlapping and non-overlapping reading frames of papillomavirus genomes

scientific article published on November 2005

Patterns of sequence divergence in 5' intergenic spacers and linked coding regions in 10 species of pathogenic bacteria reveal distinct recombinational histories

scientific article

Phylogenetic analysis of genome rearrangements among five mammalian orders

scientific article

Phylogeny and recombination history of gallid herpesvirus 2 (Marek's disease virus) genomes

scientific article published on 12 June 2007

Phylogeny of Trypanosomatidae and Bodonidae (Kinetoplastida) based on 18S rRNA: evidence for paraphyly of Trypanosoma and six other genera

scientific article published on 2 April 2003

Polymorphism at the apical membrane antigen 1 locus reflects the world population history of Plasmodium vivax

scientific article published on 29 April 2008

Poxvirus genome evolution by gene gain and loss

scientific article published on 21 January 2005

Rapid fixation of a distinctive sequence motif in the 3′ noncoding region of the clade of West Nile virus invading North America ⬇️

scientific article (publication date: 15 September 2007)

Recent mammalian gene duplications: robust search for functionally divergent gene pairs

scientific article published on 01 July 2004

Reversion of CTL escape–variant immunodeficiency viruses in vivo

article

SIV Genome-Wide Pyrosequencing Provides a Comprehensive and Unbiased View of Variation within and outside CD8 T Lymphocyte Epitopes ⬇️

scientific article published on October 24, 2012

SNPGenie: estimating evolutionary parameters to detect natural selection using pooled next-generation sequencing data

scientific article published on 29 July 2015

Selection Maintains Low Genomic GC Content in Marine SAR11 Lineages

scientific article published on 27 June 2015

Selection on haemagglutinin imposes a bottleneck during mammalian transmission of reassortant H5N1 influenza viruses

scientific article

Selection-driven immune escape is not a significant factor in the failure of CD4 T cell responses in persistent hepatitis C virus infection

scientific article (publication date: February 2010)

Selective Bottlenecks Shape Evolutionary Pathways Taken during Mammalian Adaptation of a 1918-like Avian Influenza Virus

scientific article

Sharing of transcription factors after gene duplication in the yeast Saccharomyces cerevisiae

scientific article published on 04 August 2006

Shedding genomic ballast: extensive parallel loss of ancestral gene families in animals

scientific article published on 01 December 2004

Synonymous and nonsynonymous polymorphisms versus divergences in bacterial genomes

scientific article published on 30 July 2008

The effect of branch lengths on phylogeny: an empirical study using highly conserved orthologs from mammalian genomes

scientific article published on 18 May 2007

The evolutionary biology of poxviruses

scientific article

The extent of nucleotide polymorphism is highly variable across a 3-kb region on Plasmodium falciparum chromosome 2.

scientific article published in September 2002

The pattern of nucleotide difference at individual codons among mouse, rat, and human

scientific article published on 16 February 2005

The temporal distribution of gene duplication events in a set of highly conserved human gene families

scientific article published on January 2003

Transmission of clonal hepatitis C virus genomes reveals the dominant but transitory role of CD8⁺ T cells in early viral evolution

scientific article published on 7 September 2011

Transposable element distribution in the yeast genome reflects a role in repeated genomic rearrangement events on an evolutionary time scale

scientific article published in June 2004

Two patterns of genome organization in mammals: the chromosomal distribution of duplicate genes in human and mouse

scientific article published on 12 February 2004

Ultradeep pyrosequencing detects complex patterns of CD8+ T-lymphocyte escape in simian immunodeficiency virus-infected macaques

scientific article published on 10 June 2009

Unusually high frequency MHC class I alleles in Mauritian origin cynomolgus macaques

scientific article published in October 2005

Variable intensity of purifying selection on cytotoxic T-lymphocyte epitopes in hepatitis C virus

scientific article published on 26 September 2006

Variation in the pattern of synonymous and nonsynonymous difference between two fungal genomes

scientific article published on 02 March 2005

Whole-genome characterization of human and simian immunodeficiency virus intrahost diversity by ultradeep pyrosequencing

scientific article

Widespread purifying selection at polymorphic sites in human protein-coding loci

scientific article

Within-host evolution of CD8+-TL epitopes encoded by overlapping and non-overlapping reading frames of simian immunodeficiency virus

scientific article

Paulina is supported by:

About Paulina

Help