Genomics|Update|Infectious Diseases ► Advanced Molecular Detection in Action

Genomics|Update|Infectious Diseases

Volume 34  Number 3  January 22-29, 2015

Advanced Molecular Detection in Action

• Antimicrobials, Vaccines, Interventions
• Detection & Diagnosis
• Epidemiology, Outbreaks, Transmission
• Evolution, Ecology, Pathogenicity, Populations

• Host-Pathogen Interactions
• Methods
• Policy
• Reviews, News & Commentaries

Antimicrobials, Vaccines, Interventions

Molecular analysis and antimicrobial susceptibility of enterotoxigenic Escherichia coli from diarrheal patients
Pan H, et al. Diag Microbiol Infect Dis 2015; 81(2): 126–131.

Escherichia coli ST131: the quintessential example of an international multiresistant high-risk clone
Mathers A, et al. Adv Appl Microbiol 2015;90:109-54.

Clonal distribution of multidrug-resistant Enterobacter cloacae
Girlich D, et al. Diag Microbiol Infect Dis, Jan 16, 2015.

Myriad RBM, Institut Pasteur to field test platform for TB
GenomeWeb, Jan 20, 2015.

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.

Genetic architecture of artemisinin-resistant Plasmodium falciparum
Miotto O, et al. Nat Genet, Jan 19, 2015.

Comment:
Understanding antimalarial drug resistance
Vence T. The Scientist, Jan 21, 2015.

Plasmodium falciparum dihydropteroate synthetase-A581G mutation reduces
effectiveness of sulfadoxine-pyrimethamine preventive therapy in Malawian pregnant
women
Gutman J, et al. J Infect Dis, Jan 6, 2015.

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Detection and Diagnosis

Diagnosis of community-acquired acute respiratory illness: From conventional microbiological methods to molecular detection (multiplex)
Bouvet D, et al. Pathol Biol (Paris). 2015 Jan 13.

Diagnostic pitfalls in Clostridium difficile infection 
Planche T, Wilcox M. Infect Dis Clin North Am, 2015 Jan 13.

Defining the phylogenomics of Shigella species: a pathway to diagnostics
Sahl JW, et al. J Clin Microbiol, Jan 14, 2015.

Immunoproteomic profile of Trichinella spiralis adult worm proteins recognized by early infection sera
Yang J, et al. Parasit Vectors 2015 Jan 13;8(1):20.

Molecular detection of Helicobacter pylori and its antimicrobial resistance in Brazzaville, Congo
Ontsira Ngoyi EN, et al. Helicobacter, 2015 Jan 13.

Molecular diagnosis of cause of anisakiasis in humans, South Korea 
Lim H, et al. Emerg Infect Dis, Feb 2015.

Performance of self-collected cervical samples in screening for future precancer using human papillomavirus DNA testing.
Porras C, et al. J Natl Cancer Inst. 2014 Dec 5;107(1):400.

Rapid and sensitive RT-QuIC detection of human Creutzfeldt-Jakob disease using cerebrospinal fluid
Orru CD, et al. mBio 2015; 6(1): e02451-14.

Viral genetic diversity and polymorphisms in a cohort of HIV-1 infected patients eligible for the initiation of antiretroviral therapy in Abuja, Nigeria
Yang C, et al. AIDS Res Hum Retroviruses. 2015 Jan 12. 

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Epidemiology, Outbreaks, Transmission

Analysis of a long-term outbreak of XDR Pseudomonas aeruginosa: a molecular epidemiological study
Willmann M, et al. J Antimicrob Chemother. 2015 Jan 11.

Evidence for Elizabethkingia anophelis transmission from mother to infant, Hong Kong 
Lau SK, et al. Emerg Infect Dis, Feb 2015.

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Evolution, Ecology, Pathogenicity, Populations

Potential spread of multidrug-resistant coagulase-negative staphylococci through healthcare waste
Nascimento DC, et al. J Infect Dev Ctries  2015 Jan 15;9(1):29-34.

Changes in the population structure of invasive Neisseria meningitidis in the United States
after quadrivalent meningococcal conjugate vaccine licensure
Wang X, et al. J Infect Dis, Jan 2, 2015.

Evolutionary history and global spread of the Mycobacterium tuberculosis Beijing lineage
Merker M, et al. Nat Genet, Jan 19, 2015.

Comment:
Tracking tuberculosis over time
Rood J. The Scientist, Jan 19, 2015.

With genomic analysis, researchers characterize tuberculosis lineage, history, and spread
GenomeWeb, Jan 19, 2015.

Genomic epidemiology of multidrug-resistant Mycobacterium tuberculosis during transcontinental spread
Coscolla M, et al. J Infect Dis, Jan 18, 2015.

Molecular epidemiology and phylogenetic analyses of influenza B virus in Thailand during 2010 to 2014
Tewawong N, et al. PLoS One. 2015 Jan 20;10(1):e0116302.

Close relationship between West Nile virus from Turkey and lineage 1 strain from Central African Republic
Ergunay K, et al. Emerg Infect Dis, Feb 2015.

Chikungunya virus mutation, Indonesia, 2011
Maha MS, et al. Emerg Infect Dis, Feb 2015.

Influenza D virus in cattle, France, 2011–2014
Ducatez MF, et al. Emerg Infect Dis, Feb 2015.

Comparative analysis of African swine fever virus genotypes and serogroups
Malogolovkin A, et al. Emerg Infect Dis, Feb 2015.

Pneumocystis jirovecii in the air surrounding patients with Pneumocystis pulmonary colonization 
Le Gal S, et al. Emerg Infect Dis, Jan 15, 2015.

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Host-Pathogen Interactions

Antibiotics in ingested human blood affect the mosquito microbiota and capacity to transmit malaria 
Gendrin M, et al. Nat Comm 2015; 6: 5921.

Variation in the human immune system is largely driven by non-heritable influences 
Brodin P, et al. Cell 2015; 160(1-2): 37–47.

Comment:
Disentangling inborn and acquired immunity in human twins 
Casanova JL, Abel L. Cell 2015; 160(1-2): 13-15.

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Methods

Inexpensive multiplexed library preparation for megabase-sized genomes
Baym M, et al. bioRxiv, Jan 16, 2015.

Comment:
New to the genome sequencing $8 menu: Nextera library preps!
Snyder-Mackler N. The Molecular Ecologist (blog), Jan 20, 2015.

DIA-Umpire: comprehensive computational framework for data-independent acquisition proteomics
Tsou CC, et al. Nat Methods, Jan 19, 2015.

New coronavirus outbreak. Lessons learned from the severe acute respiratory syndrome epidemic
Alvarez E, et al. Epidemiol Infect. 2015 Jan 16:1-12.

COIL: a methodology for evaluating malarial complexity of infection using likelihood from single nucleotide polymorphism data
Galinsky K, et al. Malaria J 2015, 14:4.

Application of a neutral community model to assess structuring of the human lung microbiome
Venkataraman A, et al. mBio 2015; 6(1): e02284-14.

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Policy

Awareness and support of release of genetically modified “sterile” mosquitoes, Key West, Florida, USA
Ernst KC, et al. Emerg Infect Dis, Feb 2015.

Tight margins, federal regulations constrain infectious disease MDx for animal health
Johnson M. GenomeWeb, Jan 15, 2015.

NHS England issues proposal for redesign of genomic laboratory services 
GenomeWeb, Jan 15, 2015.

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Reviews, News and Commentaries

EU commits €20M for animal and human pathogens genomic data-sharing consortium
GenomeWeb, Jan 21, 2015.

Genalyte developing differential Ebola test for Maverick chip-based system
Fong T. GenomeWeb, Jan 20, 2015.

Duke, UConn researchers use protein design algorithms to predict potential resistance mutations in MRSA
Thomas UG. GenomeWeb, Jan 8, 2015.

GM microbes created that can’t escape the lab
Dolgin E. Nature News, Jan 21, 2015.

PCORI takes up HCV treatment options 
Nature Biotechnol, Jan 9, 2015.

Tuberculosis cases in England will outnumber US in two years unless trends are reversed
Torjesen I. BMJ, Jan 20, 2015.

One scientist's race to help microbes help you
Courage KH. NPR (blog), Jan 18, 2015.

NIH commits $1M for big data educational grants
GenomeWeb, Jan 19, 2015.

Quashing stubborn hospital infections relies on genetic sequencing
Laidman J. Scientific American, Jan 16, 2015.

Emergency Ebola response: a new approach to the rapid design and development of vaccines against emerging diseases
Tully CM, et al. Lancet Infect Dis, Jan 14, 2015.

Bats as ‘special’ reservoirs for emerging zoonotic pathogens
Brook CE, Dobson AP. Trends Microbiol, Jan 5, 2015.

Effective risk response needs a prepared mindset 
Michel-Kerjan E. Nature, Jan 20, 2015.