Updated Phylogeny of Chikungunya Virus Suggests Lineage-Specific RNA Architecture

Chikungunya as a paradigm for emerging viral diseases: Evaluating disease impact and hurdles to vaccine development

(2019) Giovanni Rezza et al.   PLoS Neglected Tropical Diseases

Functional RNA Structures in the 3′UTR of Tick-Borne, Insect-Specific and No-Known-Vector Flaviviruses

(2019) Roman Ochsenreiter et al.   Viruses-Basel

RNA recombination at Chikungunya virus 3'UTR as an evolutionary mechanism that provides adaptability

(2019) Claudia V. Filomatori et al.   PLoS Pathogens

Assessing the Potential Interactions between Cellular miRNA and Arboviral Genomic RNA in the Yellow Fever Mosquito, Aedes aegypti

(2019) Pei-Shi Yen et al.   Viruses-Basel

Musashi binding elements in Zika and related Flavivirus 3′UTRs: A comparative study in silico

(2019) Adriano de Bernardi Schneider et al.   Scientific Reports

Aedes aegypti microRNA, miR-2944b-5p interacts with 3'UTR of chikungunya virus and cellular target vps-13 to regulate viral replication

(2019) Sunil Kumar Dubey et al.   PLoS Neglected Tropical Diseases

StrainHub: a phylogenetic tool to construct pathogen transmission networks

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Chikungunya Virus Disease among Travelers—United States, 2014–2016

(2018) Nicole P. Lindsey et al.   AMERICAN JOURNAL OF TROPICAL MEDICINE AND HYGIENE

Structural divergence creates new functional features in alphavirus genomes

(2018) Katrina M Kutchko et al.   NUCLEIC ACIDS RESEARCH

A new "American" subgroup of African-lineage Chikungunya virus detected in and isolated from mosquitoes collected in Haiti, 2016

(2018) Sarah Keller White et al.   PLoS One

Chikungunya Virus Strains Show Lineage-Specific Variations in Virulence and Cross-Protective Ability in Murine and Nonhuman Primate Models

(2018) Rose M. Langsjoen et al.   mBio

Mechanism and structural diversity of exoribonuclease-resistant RNA structures in flaviviral RNAs

(2018) Andrea MacFadden et al.   Nature Communications

Global expansion of chikungunya virus: mapping the 64-year history

(2017) Braira Wahid et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Neurodevelopmental protein Musashi-1 interacts with the Zika genome and promotes viral replication

(2017) Pavithra L. Chavali et al.   SCIENCE

Chikungunya: Its History in Africa and Asia and Its Spread to New Regions in 2013–2014

(2016) Herve Zeller et al.   JOURNAL OF INFECTIOUS DISEASES

Epidemiology of Chikungunya in the Americas

(2016) Sergio Yactayo et al.   JOURNAL OF INFECTIOUS DISEASES

Comprehensive Genome Scale Phylogenetic Study Provides New Insights on the Global Expansion of Chikungunya Virus

(2016) Rubing Chen et al.   JOURNAL OF VIROLOGY

ETE 3: Reconstruction, Analysis, and Visualization of Phylogenomic Data

(2016) Jaime Huerta-Cepas et al.   MOLECULAR BIOLOGY AND EVOLUTION

RNA Structure Duplications and Flavivirus Host Adaptation

(2016) Sergio M. Villordo et al.   TRENDS IN MICROBIOLOGY

Whole-Genome Sequencing Analysis from the Chikungunya Virus Caribbean Outbreak Reveals Novel Evolutionary Genomic Elements

(2016) Kenneth A. Stapleford et al.   PLoS Neglected Tropical Diseases

Chikungunya: Evolutionary history and recent epidemic spread

(2015) Scott C. Weaver et al.   ANTIVIRAL RESEARCH

Emergence and potential for spread of Chikungunya virus in Brazil

(2015) Marcio Roberto Teixeira Nunes et al.   BMC Medicine

Evidence for homologous recombination in Chikungunya Virus

(2015) Pablo E. Casal et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Chikungunya Virus and the Global Spread of a Mosquito-Borne Disease

(2015) Scott C. Weaver et al.   NEW ENGLAND JOURNAL OF MEDICINE

Climate change influences on global distributions of dengue and chikungunya virus vectors

(2015) L. P. Campbell et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The 5′ and 3′ ends of alphavirus RNAs – Non-coding is not non-functional

(2015) Jennifer L. Hyde et al.   VIRUS RESEARCH

AliView: a fast and lightweight alignment viewer and editor for large datasets

(2014) Anders Larsson   BIOINFORMATICS

Chikungunya outbreak in the Caribbean region, December 2013 to March 2014, and the significance for Europe

(2014) W Van Bortel et al.   Eurosurveillance

IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

(2014) Lam-Tung Nguyen et al.   MOLECULAR BIOLOGY AND EVOLUTION

A Viral RNA Structural Element Alters Host Recognition of Nonself RNA

(2014) J. L. Hyde et al.   SCIENCE

Defining viral species: making taxonomy useful

(2014) A Peterson   Virology Journal

Noncoding Subgenomic Flavivirus RNA: Multiple Functions in West Nile Virus Pathogenesis and Modulation of Host Responses

(2014) Justin Roby et al.   Viruses-Basel

Sponging of cellular proteins by viral RNAs

(2014) Phillida A Charley et al.   Current Opinion in Virology

RNA structures that resist degradation by Xrn1 produce a pathogenic Dengue virus RNA

(2014) Erich G Chapman et al.   eLife

Infernal 1.1: 100-fold faster RNA homology searches

(2013) E. P. Nawrocki et al.   BIOINFORMATICS

Ultrafast Approximation for Phylogenetic Bootstrap

(2013) B. Q. Minh et al.   MOLECULAR BIOLOGY AND EVOLUTION

MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

(2013) K. Katoh et al.   MOLECULAR BIOLOGY AND EVOLUTION

RNA viruses can hijack vertebrate microRNAs to suppress innate immunity

(2013) Derek W. Trobaugh et al.   NATURE

GenBank

(2013) Dennis A. Benson et al.   NUCLEIC ACIDS RESEARCH

Chikungunya Virus 3′ Untranslated Region: Adaptation to Mosquitoes and a Population Bottleneck as Major Evolutionary Forces

(2013) Rubing Chen et al.   PLoS Pathogens

Dephosphorylation of HuR Protein during Alphavirus Infection Is Associated with HuR Relocalization to the Cytoplasm

(2012) Alexa M. Dickson et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Complete Genome Sequence of a Chikungunya Virus Isolated in Guangdong, China

(2012) Xiao-Feng Li et al.   JOURNAL OF VIROLOGY

The HIV-1 Rev response element

(2012) Jason Fernandes et al.   RNA Biology

ViennaRNA Package 2.0

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Chikungunya in Southeast Asia: understanding the emergence and finding solutions

(2011) Rojjanaporn Pulmanausahakul et al.   INTERNATIONAL JOURNAL OF INFECTIOUS DISEASES

Genome-Scale Phylogeny of the Alphavirus Genus Suggests a Marine Origin

(2011) N. L. Forrester et al.   JOURNAL OF VIROLOGY

West Nile virus encodes a microRNA-like small RNA in the 3' untranslated region which up-regulates GATA4 mRNA and facilitates virus replication in mosquito cells

(2011) M. Hussain et al.   NUCLEIC ACIDS RESEARCH

phangorn: phylogenetic analysis in R

(2010) Klaus Peter Schliep   BIOINFORMATICS

Sindbis Virus Usurps the Cellular HuR Protein to Stabilize Its Transcripts and Promote Productive Infections in Mammalian and Mosquito Cells

(2010) Kevin J. Sokoloski et al.   Cell Host & Microbe

Genome-Scale Phylogenetic Analyses of Chikungunya Virus Reveal Independent Emergences of Recent Epidemics and Various Evolutionary Rates

(2010) S. M. Volk et al.   JOURNAL OF VIROLOGY

New Algorithms and Methods to Estimate Maximum-Likelihood Phylogenies: Assessing the Performance of PhyML 3.0

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Re-emergence of Chikungunya virus in South-east Asia: virological evidence from Sri Lanka and Singapore

(2009) H. C. Hapuarachchi et al.   JOURNAL OF GENERAL VIROLOGY

Structural and Functional Elements of the Promoter Encoded by the 5' Untranslated Region of the Venezuelan Equine Encephalitis Virus Genome

(2009) R. Kulasegaran-Shylini et al.   JOURNAL OF VIROLOGY

RNAalifold: improved consensus structure prediction for RNA alignments

(2008) Stephan H Bernhart et al.   BMC BIOINFORMATICS