Ebola Virus: Epidemiology and Evolution - August 11, 2015

Genomics|Features|Ebola

Ebola

Ebola Virus: Epidemiology and Evolution - August 11, 2015

CDC Info

• Improving Ebola diagnostics: field lab in Bo, Sierra Leone
• CDC information on Ebola: Getting to zero
• CDC laboratories produce first genomic sequence of Liberian Ebola
• Updated cumulative reported cases graphs
• Updated case counts
• The 2014 Ebola outbreak is the largest Ebola outbreak in history
• CDC information on Ebola diagnosis
• Ebola 2014 — new challenges, new global response and responsibility.Thomas R. Frieden, et al. N Engl J Med 2014; 371:1177-1180

Proposed Ebola biobank would strengthen African science, by Erika Check Hayden, Nature News, August 10, 2015

Interdisciplinarity and infectious diseases: An Ebola case study
Ezenwa VO et al. PLoS Pathogens, August 2015

Ebolavirus comparative genomics.
Jun Se-Ran et al. FEMS Microbiol. Rev. 2015 Jul 14.

Getting to the root of epidemic spread with phylodynamic analysis of genomic data.
du Plessis L et al. Trends Microbiol. 2015 Jul (7) 383-6

Keeping a watchful eye on Ebola
N Attar, Nature Reviews Genetics, July 14, 2015

CDC information: Improving Ebola diagnostics: field lab in Bo, Sierra Leone

Ebola virus epidemiology, transmission, and evolution during seven months in Sierra Leone.
Park DJ et al. Cell 2015 Jun 18. 161(7) 1516-26

US, European research teams track evolution, transmission of Ebola virus in West African outbreak
Karow J. GenomeWeb, June 18, 2015.

Monitoring of Ebola virus Makona evolution through establishment of advanced genomic capability in Liberia.
Kugelman JR et al. Emerging Infect. Dis. 2015 Jul (7) 1135-43

Distinct lineages of Ebola virus in Guinea during the 2014 West African epidemic.
Simon-Loriere E et al. Nature 2015 Jun 24.

Evaluation of signature erosion in Ebola virus due to genomic drift and its impact on the performance of diagnostic assays.
Sozhamannan S et al. Viruses 2015 (6) 3130-54

Temporal and spatial analysis of the 2014-2015 Ebola virus outbreak in West Africa.
Carroll MW et al. Nature 2015 Jun 17.

The case for improved diagnostic tools to control Ebola virus disease in West Africa and how to get there.
Chua AC et al. PLoS Negl Trop Dis 2015 Jun (6) e0003734

Ebola: Ongoing Genomic Insights - June 24, 2015

Genome studies show how Ebola spread initially, by Sheri Fink, New York Times, June 19

Molecular characterization of the first Ebola virus isolated in Italy, from a health care worker repatriated from Sierra Leone.
Castilletti C et al. Genome Announc 2015 (3)

Temporal and spatial analysis of the 2014-2015 Ebola virus outbreak in West Africa.
Carroll MW et al. Nature 2015 Jun 17.

Genome sequence analysis of Ebola virus in clinical samples from three British healthcare workers, August 2014 to March 2015
Bel A l et al. Eurosurveillance, May 2015

Systematic Genome-wide screening and prediction of microRNAs in EBOV during the 2014 Ebolavirus outbreak.
Teng Yue et al. Sci Rep 2015 9912

Network of co-mutations in Ebola virus genome predicts the disease lethality.
Deng L et al. Cell Res. 2015 May 15.

Genetic diversity and evolutionary dynamics of Ebola virus in Sierra Leone
Tong YG et al, Nature, May 13, 2015

Latest Ebola data rule out rapid mutation
Genetic-sequence haul shows that the virus evolved differently - but no faster - than in previous epidemics, Nature News, May 13

Tracing the Ebola outbreak, scientists hunt a silent epidemic,by S Fink, New York Times, May 5, 2015

Ebolavirus is evolving but not changing: No evidence for functional change in EBOV from 1976 to the 2014 outbreak.
Olabode AS et al. Virology 2015 Apr 13. 202-207

Amino acid mutations in Ebola virus glycoprotein of the 2014 epidemic.
Giovanetti M et al. J. Med. Virol. 2015 Jun (6) 893-8

Identifying the pattern of molecular evolution for Zaire ebolavirus in the 2014 outbreak in West Africa.
Liu Si-Qing et al. Infect. Genet. Evol. 2015 Jun 51-9

Three minimal sequences found in Ebola virus genomes and absent from human DNA.
Silva Raquel M et al. Bioinformatics 2015 Apr 2.

Ebola One Year Later: Genomics and Public Health - March 27, 2015

CDC information on Ebola: Getting to zero

An improved reverse genetics system to overcome cell-type-dependent Ebola virus genome plasticity.
Tsuda Y et al. J. Infect. Dis. 2015 Mar 24.

Amino acid mutations in Ebola virus glycoprotein of the 2014 epidemic.
Giovanetti M et al. J. Med. Virol. 2015 Mar 17.

Identifying the pattern of molecular evolution for Zaire ebolavirus in the 2014 outbreak in West Africa.
Liu SQ et al. Infect. Genet. Evol. 2015 Mar 4. 51-59

Ebola virus evolution tracked by genetic data 
Mutations reduce one experimental therapy's effectiveness, analysis suggests, by A Yeager, Science News, February 2015

From diagnosis to surveillance: Using next gen genomics in outbreak response
Stephen Gire, Abstract, AAAS, February 2015

World Health Organization: One year into the Ebola epidemic: a deadly, tenacious and unforgiving virus,  January 2015

CDC information: Updated cumulative reported cases graphs, Jan 16

CDC information: Updated case counts, Jan 16

Complete genome sequences of three Ebola virus isolates from the 2014 outbreak in West Africa. 
Hoenen T, et al. Genome Announc. 2014 Dec 18;2(6).

365 days: 2014 in science. 
Morello L, et al. Nature. 2014 Dec 18;516(7531):300-3.

Epidemiological and viral genomic sequence analysis of the 2014 Ebola outbreak reveals clustered transmission. 
Scarpino SV, et al. Clin Infect Dis. 2014 Dec 15

Evaluation of the potential impact of Ebola virus genomic drift on the efficacy of sequence-based candidate therapeutics
Kugelman JR, et al. mBio 2015; 6(1): e02227-14.

Comment:
USAMRIID-led study tracks genomic changes in Ebola virus in recent history
GenomeWeb, Jan 20, 2015.

Next generation sequencing reveals a controlled immune response to Zaire Ebola virus challenge in cynomolgus macaques immunized with VSVΔG/EBOVgp
Barrenas F, et al. Clin Vaccine Immunol. 2015 Jan 14.

Ebola: Role of Genomics in Diagnosis and Pathogenicity - December 4, 2014

Enhanced methods for unbiased deep sequencing of Lassa and Ebola RNA viruses in clinical and biological samples
Christian B Matranga et al. Genome Biology, November 2014

Elucidating variations in the nucleotide sequence of Ebola virus associated with increasing pathogenicity.
Dowall SD, et al. Genome Biol. 2014 Nov 22;15(11):540.

Sifting through genes in search of answers on Ebola, by Gina Kolata, New York Times, Dec 1

Ebola Pathogenicity: Recent Genetic Insights - November 6, 2014

Host genetic diversity enables Ebola hemorrhagic fever pathogenesis and resistance. 
Angela L. Rasmussen, Science, October 30, 2014 

Genes influence how mice react to ebola, study says in ‘significant advance’, by Gina Kolata, New York Times, Oct 30

Genetic factors behind surviving or dying from Ebola shown in mouse study. The new model could speed drug and vaccine development by reflecting diversity of reactions to the virus, by Leila Grey, Eureka Alert, Oct 30

Call to action: Time to ramp up science’s contribution to controlling the Ebola outbreak
Nature, Oct 29, 2014.

Researchers seek crucial tool: A fast, finger-prick Ebola test, by Andrew Pollack, New York Times, Nov 4

Researchers study Ebola link to gene in rare disease, The Wall Street Journal, Nov 2

More on Ebola: Genomics and Public Health - October 22, 2014

CDC information: The 2014 Ebola outbreak is the largest Ebola outbreak in history

CDC information on Ebola diagnosis

Ebola 2014 — new challenges, new global response and responsibility. 
Thomas R. Frieden, et al. N Engl J Med 2014; 371:1177-1180

CDC laboratories produce first genomic sequence of Liberian Ebola

Ebola is simple, subtle, yet deadly. You can do a lot of damage with just seven genes, the Economist, Oct 18

UC Santa Cruz Genomics Institute releases bioinformatic tool to assist vaccine efforts, Oct 1

UCSC Ebola Genome Portal

NIH Research Matters: Genetics of the 2014 Ebola Outbreak, Sept 15

Investigating the Genomic Origins of the 2014 Ebola Outbreak. Genome Advance of the Month, By Leigh Finnegan, National Human Genome Research Institute, October 2014 

Genomic surveillance elucidates Ebola virus origin and transmission during the 2014 outbreak 
Stephen K. Gire et al. Science, August 28, 2014  

Ebola genome clarifies origins of West African outbreak. A single person infected with the virus probably sparked the epidemic.  
Tina Hesman Saey, Science, August 28, 2014

The Ebola wars How genomics research can help contain the outbreak, by Richard Preston, New Yorker, Oct 27