Volume 35 Number 12 September 17-24, 2015
News/ Reviews/ Commentaries
Sequencing of serial clinical pathogen isolates IDs SNV responsible for drug resistance![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Heger M. GenomeWeb, Sep 11, 2015.
Heger M. GenomeWeb, Sep 11, 2015.
FDA clears Nanosphere's respiratory pathogen test![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
GenomeWeb, Sep 8, 2015.
GenomeWeb, Sep 8, 2015.
Study results suggest overdiagnosis of C. difficile with molecular testing![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Ashford M. GenomeWeb, Sep 15, 2015.
Ashford M. GenomeWeb, Sep 15, 2015.
"Molecular tweeting" could hold the key to busting superbugs ![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Greenemeier L. Sci Am, Aug 31, 2015.
Greenemeier L. Sci Am, Aug 31, 2015.
NGS-based genome mining technique could identify new antibacterial compounds![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Heger M. GenomeWeb, Sep 16, 2015.
Heger M. GenomeWeb, Sep 16, 2015.
Ten simple rules for a computational biologist's laboratory notebook.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Schnell S et al. PLoS Comput. Biol. 2015 Sep (9) e1004385
Schnell S et al. PLoS Comput. Biol. 2015 Sep (9) e1004385
Molecular detection and point-of-care testing in Ebola virus disease and other threats: a new global public health framework to stop outbreaks.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Kost GJ et al. Expert Rev. Mol. Diagn. 2015 Sep 14. 1-15
Kost GJ et al. Expert Rev. Mol. Diagn. 2015 Sep 14. 1-15
Middle East Respiratory syndrome coronavirus recombination and the evolution of science and public health in China.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Lipkin WI et al. MBio 2015 (5)
Lipkin WI et al. MBio 2015 (5)
Viral hemorrhagic fever diagnostics.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Racsa LD et al. Clin. Infect. Dis. 2015 Sep 9.
Racsa LD et al. Clin. Infect. Dis. 2015 Sep 9.
The great big clean-up![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Grens K. The Scientist, Sep 1, 2015.
Grens K. The Scientist, Sep 1, 2015.
The road to hell is paved with bioinformatics formats ![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Robison K. OMICS! OMICS!, Aug 26, 2015.
Robison K. OMICS! OMICS!, Aug 26, 2015.
The cell menagerie: human immune profiling![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Fessenden M. Nature, Sep 16, 2015.
Fessenden M. Nature, Sep 16, 2015.
Future directions for the European influenza reference laboratory network in influenza surveillance.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Goddard N et al. Euro Surveill. 2015 (30)
Goddard N et al. Euro Surveill. 2015 (30)
Ebola virus: Sensationalism, science, and human rights.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Bausch Daniel G et al. J. Infect. Dis. 2015 Oct 1. S79-83
Bausch Daniel G et al. J. Infect. Dis. 2015 Oct 1. S79-83
Policy
Flu study raises questions about U.S. ban![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Cohen J. Science, Sep 11, 2015.
Cohen J. Science, Sep 11, 2015.
Dual-use research of concern (DURC) review at American Society for Microbiology journals.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Casadevall A et al. MBio 2015 (4) e01236
Casadevall A et al. MBio 2015 (4) e01236
Methods/Tools
Bayesian mixture analysis for metagenomic community profiling.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Morfopoulou S et al. Bioinformatics 2015 Sep 15. (18) 2930-8
Morfopoulou S et al. Bioinformatics 2015 Sep 15. (18) 2930-8
High-throughput optical sensing of nucleic acids in a nanopore array.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Huang S et al. Nat Nanotechnol 2015 Aug 31.
Huang S et al. Nat Nanotechnol 2015 Aug 31.
Database of host-pathogen and related species interactions, and their global distribution![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Wardeh M, et al. Sci Data 2015; 2:150049.
Wardeh M, et al. Sci Data 2015; 2:150049.
Concordance and discordance of sequence survey methods for molecular epidemiology.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Castro-N E et al. PeerJ 2015 e761
Castro-N E et al. PeerJ 2015 e761
Single-molecule real-time sequencing combined with optical mapping yields completely finished fungal genome.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Faino L et al. MBio 2015 (4)
Faino L et al. MBio 2015 (4)
An improved reverse genetics system to overcome cell-type-dependent Ebola virus genome plasticity.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Tsuda Y et al. J. Infect. Dis. 2015 Oct 1. S129-37
Tsuda Y et al. J. Infect. Dis. 2015 Oct 1. S129-37
Evolution/ Ecology/ Populations
Origin and possible genetic recombination of the Middle East Respiratory syndrome coronavirus from the first imported case in China: Phylogenetics and coalescence analysis.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Wang Yanqun et al. MBio 2015 (5)
Wang Yanqun et al. MBio 2015 (5)
HIV-1 subtype diversity among clinical specimens submitted for routine antiviral drug resistance testing in the United States.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Germer JJ et al. Diagn. Microbiol. Infect. Dis. 2015 Jul 26.
Germer JJ et al. Diagn. Microbiol. Infect. Dis. 2015 Jul 26.
Complete genome sequences of three Neisseria gonorrhoeae laboratory reference strains, determined using PacBio single-molecule real-time technology.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Abrams AJ et al. Genome Announc 2015 (5) (CDC Author)
Abrams AJ et al. Genome Announc 2015 (5) (CDC Author)
Norovirus genotype diversity associated with gastroenteritis outbreaks in aged-care facilities.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Bruggink LD et al. Epidemiol. Infect. 2015 Oct (14) 3064-8
Bruggink LD et al. Epidemiol. Infect. 2015 Oct (14) 3064-8
Emergence of a new highly successful acapsular group A streptococcus clade of genotype emm89 in the United Kingdom.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Turner CE et al. MBio 2015 (4) e00622
Turner CE et al. MBio 2015 (4) e00622
A re-evaluation of the origin of hepatitis C virus genotype 2 in West Africa.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Purdy MA et al. J. Gen. Virol. 2015 Aug (8) 2157-64 (CDC Author)
Purdy MA et al. J. Gen. Virol. 2015 Aug (8) 2157-64 (CDC Author)
Comparative genomic analyses of freshly isolated Giardia intestinalis assemblage A isolates.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Ankarklev J et al. BMC Genomics 2015 (1) 697
Ankarklev J et al. BMC Genomics 2015 (1) 697
Phylogenetic analyzes of Influenza A (H1N1)pdm09 hemagglutinin gene during and after the pandemic event in Brazil.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Resende PC et al. Infect. Genet. Evol. 2015 Sep 11.
Resende PC et al. Infect. Genet. Evol. 2015 Sep 11.
Evolutionary characterization of the emerging porcine epidemic diarrhea virus worldwide and 2014 epidemic in Taiwan.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Sung Ming-Hua et al. Infect. Genet. Evol. 2015 Sep 13.
Sung Ming-Hua et al. Infect. Genet. Evol. 2015 Sep 13.
Mitochondrial genome analyses suggest multiple trichuris species in humans, baboons, and pigs from different geographical regions.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Hawash MBF et al. PLoS Negl Trop Dis 2015 Sep (9) e0004059
Hawash MBF et al. PLoS Negl Trop Dis 2015 Sep (9) e0004059
Pathogenicity / Antimicrobial Resistance
Genome-wide transcription study of Cryptococcus neoformans H99 clinical strain versus environmental strains.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Movahed El et al. PLoS ONE 2015 (9) e0137457
Movahed El et al. PLoS ONE 2015 (9) e0137457
Whole-genome sequencing identifies emergence of a quinolone resistance mutation in a case of Stenotrophomonas maltophilia bacteremia.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Pak TR et al. Antimicrob. Agents Chemother. 2015 Aug 31.
Pak TR et al. Antimicrob. Agents Chemother. 2015 Aug 31.
Rapid detection of B2-ST131 clonal group of extended-spectrum ?-lactamase-producing Escherichia coli by matrix-assisted laser desorption ionization-time-of-flight mass spectrometry: discovery of a peculiar amino acid substitution in B2-ST131 clonal group.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Nakamura A et al. Diagn. Microbiol. Infect. Dis. 2015 Jul 29.
Nakamura A et al. Diagn. Microbiol. Infect. Dis. 2015 Jul 29.
Strain features and distributions in pneumococci from children with invasive disease before and after 13 valent conjugate vaccine implementation in the United States.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Metcalf BJ et al. Clin. Microbiol. Infect. 2015 Sep 9. (CDC Author)
Metcalf BJ et al. Clin. Microbiol. Infect. 2015 Sep 9. (CDC Author)
Molecular epidemiology of multidrug-resistant Acinetobacter baumannii isolates in a university hospital in Nepal reveals the emergence of a novel epidemic clonal lineage.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Shrestha S et al. Int. J. Antimicrob. Agents 2015 Aug 28.
Shrestha S et al. Int. J. Antimicrob. Agents 2015 Aug 28.
Evolutionary trade-offs underlie the multi-faceted virulence of staphylococcus aureus.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Laabei M et al. PLoS Biol. 2015 Sep (9) e1002229
Laabei M et al. PLoS Biol. 2015 Sep (9) e1002229
Comparative genomics between human and animal associated subspecies of the Mycobacterium avium complex: a basis for pathogenicity.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Timms VJ et al. BMC Genomics 2015 (1) 695
Timms VJ et al. BMC Genomics 2015 (1) 695
Differential gene expression and infection profiles of cutaneous and mucosal leishmania braziliensis isolates from the same patient.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Alves-Ferreira EVC et al. PLoS Negl Trop Dis 2015 Sep (9) e0004018
Alves-Ferreira EVC et al. PLoS Negl Trop Dis 2015 Sep (9) e0004018
Detection/ Diagnosis
Overdiagnosis of clostridium difficile infection in the molecular test era.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Polage CR et al. JAMA Intern Med 2015 Sep 8. 1-10
Polage CR et al. JAMA Intern Med 2015 Sep 8. 1-10
Direct molecular testing to assess the incidence of meningococcal and other bacterial causes of meningitis among persons reported with unspecified bacterial meningitis.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Ramautar AE et al. Diagn. Microbiol. Infect. Dis. 2015 Jun 16.
Ramautar AE et al. Diagn. Microbiol. Infect. Dis. 2015 Jun 16.
Comparison between conventional culture and NAATs for the microbiological diagnosis in gonococcal infection.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Serra-Pladevall J et al. Diagn. Microbiol. Infect. Dis. 2015 Aug 8.
Serra-Pladevall J et al. Diagn. Microbiol. Infect. Dis. 2015 Aug 8.
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Rapid first-line discrimination of methicillin resistant Staphylococcus aureus strains using MALDI-TOF MS.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Clinical performance of a matrix-assisted laser desorption ionization time-of-flight mass spectrometry method for the detection of certain blaKPC-containing plasmids.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Comparing MALDI-TOF MS, phenotypic and molecular methods for the identification of species within the Streptococcus anginosus group.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Fluorescence in situ hybridization for the identification of Treponema pallidum in tissue sections.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Protocol for metagenomic virus detection in clinical specimens.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Kohl C et al. Emerging Infect. Dis. 2015 Jan (1) 48-57
Kohl C et al. Emerging Infect. Dis. 2015 Jan (1) 48-57
Diagnostic accuracy of rapid antigen detection tests for respiratory syncytial virus infection: systematic review and meta-analysis.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Chartrand C et al. J. Clin. Microbiol. 2015 Sep 9.
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Development of prototype filovirus recombinant antigen immunoassays.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Analysis of breath specimens for biomarkers of plasmodium falciparum infection.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Berna AZ et al. J. Infect. Dis. 2015 Oct 1. (7) 1120-8
Berna AZ et al. J. Infect. Dis. 2015 Oct 1. (7) 1120-8
Epidemiology/ Outbreaks/ Transmission
The role of sequencing of the heamagglutinin gene and the hypervariable region in the measles outbreak investigations in Sweden, 2013-2014.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
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Harvala H et al. J. Infect. Dis. 2015 Sep 7.
Case-based surveillance enhanced with measles virus detection/genotyping is essential to maintain measles elimination in Aichi Prefecture, Japan.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Minagawa H et al. Vaccine 2015 Sep 3.
Minagawa H et al. Vaccine 2015 Sep 3.
Use of sequence analysis of the P2 domain for characterization of norovirus strains causing a large multistate outbreak of norovirus gastroenteritis in Germany 2012.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Höhne M et al. Int. J. Med. Microbiol. 2015 Aug 21.
Höhne M et al. Int. J. Med. Microbiol. 2015 Aug 21.
Molecular epidemiology of Brucella abortus in Northern Ireland-1991 to 2012.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Allen A et al. PLoS ONE 2015 (9) e0136721
Allen A et al. PLoS ONE 2015 (9) e0136721
Phylogeographical pattern of Francisella tularensis in a nationwide outbreak of tularaemia in Norway, 2011.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Afset JE et al. Euro Surveill. 2015 (19) 9-14
Afset JE et al. Euro Surveill. 2015 (19) 9-14
European surveillance for enterovirus D68 during the emerging North-American outbreak in 2014.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Poelman R et al. J. Clin. Virol. 2015 Oct 1-9
Poelman R et al. J. Clin. Virol. 2015 Oct 1-9
The utility of whole genome sequencing of Escherichia coli O157 for outbreak detection and epidemiological surveillance.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Holmes A et al. J. Clin. Microbiol. 2015 Sep 9.
Holmes A et al. J. Clin. Microbiol. 2015 Sep 9.
Antimicrobials/ Vaccines/ Interventions
Emergence of Ebola virus escape variants in infected nonhuman primates treated with the MB-003 antibody cocktail.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Kugelman JR et al. Cell Rep 2015 Sep 9.
Kugelman JR et al. Cell Rep 2015 Sep 9.
Longitudinal detection and persistence of minority drug-resistant populations and their effect on salvage therapy.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Nishizawa M et al. PLoS ONE 2015 (9) e0135941 (CDC Author)
Nishizawa M et al. PLoS ONE 2015 (9) e0135941 (CDC Author)
Glycosylation analysis of engineered H3N2 influenza A virus hemagglutinins with sequentially added historically relevant glycosylation sites.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
An Y et al. J. Proteome Res. 2015 Sep 4. (9) 3957-69 (CDC Author)
An Y et al. J. Proteome Res. 2015 Sep 4. (9) 3957-69 (CDC Author)
Host-Microbe Interactions
Human genetic ancestral composition correlates with the origin of Mycobacterium leprae strains in a leprosy endemic population.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Cardona-Castro N et al. PLoS Negl Trop Dis 2015 Sep (9) e0004045
Cardona-Castro N et al. PLoS Negl Trop Dis 2015 Sep (9) e0004045
Gut DNA viromes of Malawian twins discordant for severe acute malnutrition.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Reyes A et al. Proc. Natl. Acad. Sci. U.S.A. 2015 Sep 8.
Reyes A et al. Proc. Natl. Acad. Sci. U.S.A. 2015 Sep 8.
MICROBIOME. Rethinking heritability of the microbiome.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
van Opstal EJ et al. Science 2015 Sep 11. (6253) 1172-3
van Opstal EJ et al. Science 2015 Sep 11. (6253) 1172-3
The human skin microbiome associates with the outcome of and is influenced by bacterial infection![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
van Rensburg JJ, et al. mBio, Sep 15, 2015.
van Rensburg JJ, et al. mBio, Sep 15, 2015.
Growth dynamics of gut microbiota in health and disease inferred from single metagenomic samples.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Korem T et al. Science 2015 Sep 4. (6252) 1101-6
Korem T et al. Science 2015 Sep 4. (6252) 1101-6
Excessive cytolytic responses predict tuberculosis relapse after apparently successful treatment.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Cliff JM et al. J. Infect. Dis. 2015 Sep 7.
Cliff JM et al. J. Infect. Dis. 2015 Sep 7.
IFITM3 rs12252 T>C polymorphism is associated with the risk of severe influenza: a meta-analysis.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Xuan Y et al. Epidemiol. Infect. 2015 Oct (14) 2975-84
Xuan Y et al. Epidemiol. Infect. 2015 Oct (14) 2975-84
Composition, taxonomy and functional diversity of the oropharynx microbiome in individuals with schizophrenia and controls.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Castro-Nallar E et al. PeerJ 2015 e1140
Castro-Nallar E et al. PeerJ 2015 e1140
The initial state of the human gut microbiome determines its reshaping by antibiotics.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Raymond F et al. ISME J 2015 Sep 11.
Raymond F et al. ISME J 2015 Sep 11.
Influence of genetic ancestry on INDEL markers of NFKβ1, CASP8, PAR1, IL4 and CYP19A1 genes in leprosy patients.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Pinto P et al. PLoS Negl Trop Dis 2015 Sep (9) e0004050
Pinto P et al. PLoS Negl Trop Dis 2015 Sep (9) e0004050
Frenemies: Signaling and nutritional integration in pathogen-microbiota-host interactions.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Cameron EA et al. Cell Host Microbe 2015 Sep 9. (3) 275-84
Cameron EA et al. Cell Host Microbe 2015 Sep 9. (3) 275-84
Pathogenic role of human herpesvirus 6B infection in mesial temporal lobe epilepsy.![External Web Site Icon External Web Site Icon](https://lh3.googleusercontent.com/blogger_img_proxy/AEn0k_tDi6j3k1p9CW3fwK58dJOPh4DhoUIQdEpD6QLKRpbGfeyOoCdYuNJ4Q3hIkmLykwG84cPR6CyxqinRxLL1zVRDPslVF8hxbk6iIx_2XaNoKxQ_Hl9wC8zI=s0-d)
Kawamura Y et al. J. Infect. Dis. 2015 Oct 1. (7) 1014-21
Kawamura Y et al. J. Infect. Dis. 2015 Oct 1. (7) 1014-21
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