Volume 34 Number 18 May 8-14, 2015
Antimicrobials, Vaccines, Interventions
Rational design of antibiotic treatment plans: A treatment strategy for managing evolution and reversing resistance. 
Mira Portia M et al. PLoS ONE 2015 (5) e0122283
Mira Portia M et al. PLoS ONE 2015 (5) e0122283
Proteomics as the final step in the functional metagenomics study of antimicrobial resistance.
Fouhy Fiona et al. Front Microbiol 2015 172
Fouhy Fiona et al. Front Microbiol 2015 172
Fecal microbiota transplantation for Clostridium difficile infection: A systematic review.
Drekonja Dimitri et al. Ann. Intern. Med. 2015 May 5. (9) 630-8
Drekonja Dimitri et al. Ann. Intern. Med. 2015 May 5. (9) 630-8
Monitoring meticillin resistant Staphylococcus aureus and its spread in Copenhagen, Denmark, 2013, through routine whole genome sequencing
Bartels MD, et al. Eurosurveill 2015;20(17):pii=21112.
Bartels MD, et al. Eurosurveill 2015;20(17):pii=21112.
The role of epidemic resistance plasmids and international high-risk clones in the spread of multidrug-resistant enterobacteriaceae.
Mathers Amy J et al. Clin. Microbiol. Rev. 2015 Jul (3) 565-591
Mathers Amy J et al. Clin. Microbiol. Rev. 2015 Jul (3) 565-591
u-CARE: user-friendly comprehensive antibiotic resistance repository of Escherichia coli.
Saha Saurav B et al. J. Clin. Pathol. 2015 May 2.
Saha Saurav B et al. J. Clin. Pathol. 2015 May 2.
Mutations upstream of fabI in triclosan resistant Staphylococcus aureus strains are associated with elevated fabI gene expression.
Grandgirard Denis et al. BMC Genomics 2015 (1) 345
Grandgirard Denis et al. BMC Genomics 2015 (1) 345
Characterization of MDR and XDR Streptococcus pneumoniae in Canada, 2007-13.
Golden Alyssa R et al. J. Antimicrob. Chemother. 2015 Apr 28.
Golden Alyssa R et al. J. Antimicrob. Chemother. 2015 Apr 28.
Determining the long-term effect of antibiotic administration on the human normal intestinal microbiota using culture and pyrosequencing methods.
Rashid Mamun-Ur et al. Clin. Infect. Dis. 2015 May 15. S77-84
Rashid Mamun-Ur et al. Clin. Infect. Dis. 2015 May 15. S77-84
Detection and Diagnosis
High molecular weight typing with MALDI-TOF MS - a novel method for rapid typing of Clostridium difficile.
Rizzardi Kristina et al. PLoS ONE 2015 (4) e0122457
Rizzardi Kristina et al. PLoS ONE 2015 (4) e0122457
A real-time assemblage-specific PCR assay for the detection of Giardia duodenalis assemblages A, B and E in fecal samples.
Lith Lindy Van et al. Vet. Parasitol. 2015 Apr 24.
Lith Lindy Van et al. Vet. Parasitol. 2015 Apr 24.
Diagnostics for invasive Salmonella infections: Current challenges and future directions.
Andrews Jason R et al. Vaccine 2015 Apr 30.
Andrews Jason R et al. Vaccine 2015 Apr 30.
Development of a comparative genomic fingerprinting assay for rapid and high resolution genotyping of Arcobacter butzleri.
Webb Andrew L et al. BMC Microbiol. 2015 May 7. (1) 94
Webb Andrew L et al. BMC Microbiol. 2015 May 7. (1) 94
Molecular subtyping of shiga toxin-producing Escherichia coli using a commercial repetitive sequence-based PCR assay.
Anderson Kimberly M et al. J. Food Prot. 2015 May (5) 902-911
Anderson Kimberly M et al. J. Food Prot. 2015 May (5) 902-911
Escherichia coli O-genotyping PCR; a comprehensive and practical platform for molecular O-serogrouping.
Iguchi Atsushi et al. J. Clin. Microbiol. 2015 Apr 29.
Iguchi Atsushi et al. J. Clin. Microbiol. 2015 Apr 29.
Mycobacterium abscessus complex identification with matrix-assisted laser desorption ionization time of flight (MALDI-TOF) mass spectrometry.
Panagea Theofano et al. J. Clin. Microbiol. 2015 May 6.
Panagea Theofano et al. J. Clin. Microbiol. 2015 May 6.
Defining pathogenic verocytotoxin-producing Escherichia coli (VTEC) from cases of human infection in the European Union, 2007-2010.
Messens W et al. Epidemiol. Infect. 2015 Jun (8) 1652-61
Messens W et al. Epidemiol. Infect. 2015 Jun (8) 1652-61
Epidemiology, Outbreaks, Transmission
Transmission of hepatitis C virus from organ donors despite nucleic acid test screening.
Suryaprasad A et al. Am. J. Transplant. 2015 May 5. (CDC Author)
Suryaprasad A et al. Am. J. Transplant. 2015 May 5. (CDC Author)
Molecular epidemiology of tuberculosis in Cambodian children.
Schopfer K et al. Epidemiol. Infect. 2015 Apr (5) 910-21
Schopfer K et al. Epidemiol. Infect. 2015 Apr (5) 910-21
Epidemiology and molecular characteristics of norovirus GII.4 Sydney outbreaks in Taiwan, January 2012-December 2013.
Wu Fang-Tzy et al. J. Med. Virol. 2015 May 6.
Wu Fang-Tzy et al. J. Med. Virol. 2015 May 6.
Modeling malaria genomics reveals transmission decline and rebound in Senegal.
Daniels Rachel F et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4.
Daniels Rachel F et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4.
Intercontinental dissemination of azithromycin-resistant shigellosis through sexual transmission: a cross-sectional study.
Baker Kate S et al. Lancet Infect Dis 2015 Apr 27.
Baker Kate S et al. Lancet Infect Dis 2015 Apr 27.
The utility and public health implications of PCR and whole genome sequencing for the detection and investigation of an outbreak of Shiga toxin-producing Escherichia coli serogroup O26:H11.
Dallman T J et al. Epidemiol. Infect. 2015 Jun (8) 1672-80
Dallman T J et al. Epidemiol. Infect. 2015 Jun (8) 1672-80
Evolution, Ecology, Pathogenicity, Populations
Sequence type 1 group B Streptococcus, an emerging cause of invasive disease in adults, evolves by small genetic changes.
Flores Anthony R et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4.
Flores Anthony R et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4.
Characterization of 3 megabase-sized circular replicons from Vibrio cholerae
Okada K, et al. Emerg Infect Dis, Jul 2015.
Okada K, et al. Emerg Infect Dis, Jul 2015.
Diversity of Bartonella spp. in bats, Southern Vietnam
Anh PH, et al. Emerg Infect Dis, Jul 2015. (CDC Author)
Anh PH, et al. Emerg Infect Dis, Jul 2015. (CDC Author)
Imputation-based population genetics analysis of Plasmodium falciparum malaria parasites.
Samad Hanif et al. PLoS Genet. 2015 Apr (4) e1005131
Samad Hanif et al. PLoS Genet. 2015 Apr (4) e1005131
Recombination of globally circulating Varicella Zoster virus.
Norberg Peter et al. J. Virol. 2015 Apr 29.
Norberg Peter et al. J. Virol. 2015 Apr 29.
Genetic diversity of Venezuelan Alphaviruses and circulation of a Venezuelan equine encephalitis virus subtype IAB strain during an interepizootic period.
Medina Gladys et al. Am. J. Trop. Med. Hyg. 2015 May 4.
Medina Gladys et al. Am. J. Trop. Med. Hyg. 2015 May 4.
Characterization of the Punta Toro species complex (genus Phlebovirus, family Bunyaviridae).
Palacios Gustavo et al. J. Gen. Virol. 2015 May 1.
Palacios Gustavo et al. J. Gen. Virol. 2015 May 1.
Lineage shift of dengue virus in Eastern India: an increased implication for DHF/DSS.
Shrivastava A et al. Epidemiol. Infect. 2015 Jun (8) 1599-605
Shrivastava A et al. Epidemiol. Infect. 2015 Jun (8) 1599-605
Host-Microbe Interactions
Epstein-barr virus genetic variation in lymphoblastoid cell lines derived from Kenyan pediatric population.
Simbiri Kenneth O et al. PLoS ONE 2015 (5) e0125420
Simbiri Kenneth O et al. PLoS ONE 2015 (5) e0125420
Antigenic cooperation among intrahost HCV variants organized into a complex network of cross-immunoreactivity.
Skums Pavel et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4. (CDC Author)
Skums Pavel et al. Proc. Natl. Acad. Sci. U.S.A. 2015 May 4. (CDC Author)
Cervical cancer screening should be done by primary HPV testing with genotyping and reflex cytology for women over the age of 25 years.
Stoler Mark H et al. J. Clin. Microbiol. 2015 May 6.
Stoler Mark H et al. J. Clin. Microbiol. 2015 May 6.
IL1B and DEFB1 polymorphisms increase susceptibility to invasive mold infection after solid-organ transplantation.
Wójtowicz Agnieszka et al. J. Infect. Dis. 2015 May 15. (10) 1646-57
Wójtowicz Agnieszka et al. J. Infect. Dis. 2015 May 15. (10) 1646-57
Methods
One chromosome, one contig: complete microbial genomes from long-read sequencing and assembly.
Koren Sergey et al. Curr. Opin. Microbiol. 2015 Feb 110-20
Koren Sergey et al. Curr. Opin. Microbiol. 2015 Feb 110-20
Using populations of human and microbial genomes for organism detection in metagenomes.
Ames Sasha K et al. Genome Res. 2015 Apr 29.
Ames Sasha K et al. Genome Res. 2015 Apr 29.
Assay for estimating total bacterial load: relative qPCR normalization of bacterial load with associated clinical implications
Brukner I, et al. Diagn Microbiol Infect Dis, May 2, 2015.
Brukner I, et al. Diagn Microbiol Infect Dis, May 2, 2015.
The theory and practice of genome sequence assembly.
Simpson Jared T et al. Annu Rev Genomics Hum Genet 2015 Apr 22.
Simpson Jared T et al. Annu Rev Genomics Hum Genet 2015 Apr 22.
MapMyFlu: visualizing spatio-temporal relationships between related influenza sequences.
Nolte Nicholas et al. Nucleic Acids Res. 2015 May 4.
Nolte Nicholas et al. Nucleic Acids Res. 2015 May 4.
Reviews, News and Commentaries
Researcher reports progress in metagenomic sequencing for pathogen ID using MiSeq, MinIon
Johnson M. GenomeWeb, May 7, 2015.
Johnson M. GenomeWeb, May 7, 2015.
Immunexpress to submit molecular 'immune response' sepsis assay to FDA in May
Butkus B. GenomeWeb, Apr 30, 2015.
Butkus B. GenomeWeb, Apr 30, 2015.
Q&A: BioMérieux's Christine Ginocchio chats about her clinical lab career arc, syndromic PCR panels
Johnson M. GenomeWeb, Apr30, 2015.
Johnson M. GenomeWeb, Apr30, 2015.
Immunology of protection from Ebola virus infection
Krause PR, et al. Sci Transl Med 6 May 2015; 7: 286ps11.
Krause PR, et al. Sci Transl Med 6 May 2015; 7: 286ps11.
Screening and treating UN peacekeepers to prevent the introduction of artemisinin-resistant malaria into Africa
Houston S, Houston A. PLoS Med 2015; 12(5): e1001822.
Houston S, Houston A. PLoS Med 2015; 12(5): e1001822.
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