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

Genomics|Update|Infectious Diseases

Volume 34  Number 17  April 30 - May 7, 2015

Advanced Molecular Detection in Action

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

• Host-Microbe Interactions
• Methods
• Reviews, News & Commentaries

Antimicrobials, Vaccines, Interventions

High frequency of resistance, lack of clinical benefit, and poor outcomes in capreomycin treated South African patients with extensively drug-resistant tuberculosis.
Pietersen E et al. PLoS ONE 2015 (4) e0123655

Collateral resistance and sensitivity modulate evolution of high-level resistance to drug combination treatment in Staphylococcus aureus.
Rodriguez de Evgrafov M et al. Mol. Biol. Evol. 2015 May (5) 1175-85

Top of Page

---

Detection and Diagnosis

Accuracy of loop-mediated isothermal amplification for the diagnosis of Clostridium difficile infection: a systematic review.
Lloyd A et al. Diagn. Microbiol. Infect. Dis. 2015 Feb 23.

Transdermal diagnosis of malaria using vapor nanobubbles. 
Lukianova-Hleb E, et al. Emerg Infect Dis, Jul 2015

Laboratory investigation and phylogenetic analysis of an imported Middle East Respiratory syndrome coronavirus case in Greece.
Kossyvakis A et al. PLoS ONE 2015 (4) e0125809 (CDC Author)

First isolation of Coxiella burnetii from clinical material by cell-free medium (ACCM2).
Boden K et al. Eur. J. Clin. Microbiol. Infect. Dis. 2015 May (5) 1017-22

Top of Page

---

Epidemiology, Outbreaks, Transmission

Outbreak of Salmonella enterica serovar Typhimurium phage type DT41 in Danish poultry production
Lofstrom C, et al. Vet Microbiol, Apr 25, 2015.

A molecular phylogenetics-based approach for identifying recent hepatitis C virus transmission events.
Olmstead AD et al. Infect. Genet. Evol. 2015 Apr 24. (CDC Author)

A multi-country Salmonella Enteritidis phage type 14b outbreak associated with eggs from a German producer: 'near real-time' application of whole genome sequencing and food chain investigations, United Kingdom, May to September 2014
Inns T, et al. Eurosurveillance, Apr 23,2015. 

Top of Page

---

Evolution, Ecology, Pathogenicity, Populations

Comparative genomic analysis reveals occurrence of genetic recombination in virulent Cryptosporidium hominis subtypes and telomeric gene duplications in Cryptosporidium parvum.
Guo Y et al. BMC Genomics 2015 320 (CDC Author)

Chlamydia psittaci comparative genomics reveals intraspecies variations in the putative outer membrane and type III secretion system genes.
Wolff BJ et al. Microbiology (Reading, Engl.) 2015 Apr 17. (CDC Author)

Virulence related sequences; insights provided by comparative genomics of Streptococcus uberis of differing virulence.
Hossain M et al. BMC Genomics 2015 Apr 23. (1) 334

Whole-genome sequence comparisons reveal the evolution of Vibrio cholerae O1.
Kim EJ et al. Trends Microbiol. 2015 Apr 23.

Monitoring of Ebola virus Makona evolution through establishment of advanced genomic capability in Liberia 
Kugelman JR, et al. Emerg Infect Dis, Jul 2015.

Discovery of a novel nidovirus in cattle with respiratory disease.
Tokarz R et al. J. Gen. Virol. 2015 Apr 27.

Evolutionary dynamics of methicillin-resistant Staphylococcus aureus within a healthcare system.
Hsu LY et al. Genome Biol. 2015 (1) 81

Genetic characterization of clinical and environmental Vibrio parahaemolyticus from the Northeast USA reveals emerging resident and non-indigenous pathogen lineages.
Xu F et al. Front Microbiol 2015 272

Hybrid Vibrio cholerae El Tor lacking SXT identified as the cause of a cholera outbreak in the Philippines.
Klinzing DC et al. MBio 2015 (2)

Extensive within-host diversity in fecally carried extended-spectrum beta-lactamase-producing Escherichia coli: implications for transmission analyses.
Stoesser N et al. J. Clin. Microbiol. 2015 Apr 22.

A recently discovered pathogenic paramyxovirus, sosuga virus, is present in Rousettus aegyptiacus fruit bats at multiple locations in Uganda.
Amman BR et al. J. Wildl. Dis. 2015 Apr 28. (CDC Author)

A phylogeographic investigation of African monkeypox.
Nakazawa Y et al. Viruses 2015 (4) 2168-2184 (CDC Author)

Discovery and full genome characterization of a new SIV lineage infecting red-tailed guenons (Cercopithecus ascanius schmidti) in Kibale National Park, Uganda.
Lauck M et al. Retrovirology 2014 55 (CDC Author)

Top of Page

---

Host-Microbe Interactions

The human gut resistome.
van Schaik W et al. Philos. Trans. R. Soc. Lond., B, Biol. Sci. 2015 Jun 5. (1670)

Infectious disease theme issue: The role of viral, host, and secondary bacterial factors in influenza pathogenesis.
Kash JC et al. Am. J. Pathol. 2015 Mar 5.

The identification of TMPRSS2 as the susceptible gene for severe illness of 2009 pandemic A(H1N1) influenza and infection of A(H7N9) influenza.
Cheng Z et al. J. Infect. Dis. 2015 Apr 22.

Single nucleotide polymorphisms in immune response genes in acute Q fever cases with differences in self-reported symptoms.
Wielders CC et al. Eur. J. Clin. Microbiol. Infect. Dis. 2015 May (5) 943-50

The avian transcriptome response to malaria infection.
Videvall E et al. Mol. Biol. Evol. 2015 May (5) 1255-67

Top of Page

---

Methods

Rapid antibiotic resistance predictions from genome sequence data for S. aureus and M. tuberculosis
Bradley P, et al. BioRxiv, Apr 26, 2015.

Genome assembly using Nanopore-guided long and error-free DNA reads 
Madoui MA, et al. BMC Genomics, Apr 10, 2015.

IslandViewer 3: more flexible, interactive genomic island discovery, visualization and analysis.
Dhillon BK et al. Nucleic Acids Res. 2015 Apr 27.

Optimized DNA extraction and metagenomic sequencing of airborne microbial communities.
Jiang W et al. Nat Protoc 2015 May (5) 768-79

Top of Page

---

Reviews, News and Commentaries

Bruker receives IVD CE mark for MALDI sepsityper kit
GenomeWeb, Apr 27, 2015.

uBiome launches CLIA lab
GenomeWeb, Apr 28, 2015.

Designing a hospital to better fight infection
Hotz RL. Wall Street Journal, Apr 27, 2015.

Scientists are skeptical about the secret blood test that has made Elizabeth Holmes a billionaire
Loria K. Business Insider, Apr 25, 2015.

Scientists find Cas9 enzyme that targets HCV in human cells
GenomeWeb, Apr 28, 2015.

Genoscope team develops hybrid assembly method combining Oxford nanopore, Illumina data
Heger M. GenomeWeb, Apr 28, 2015.

Import license approved in India for Epistem's TB MDx
GenomeWeb, Apr 23, 2015.

Rapidly expanding range of highly pathogenic avian influenza viruses 
Hall JS, et al. Emerg Infect Dis, Jul 2015.

Combatting viruses with RNA-targeted CRISPR
Keener AB. The Scientist, Apr 27, 2015.

Ebola and ethics: autopsy of a failure.
Gericke CA et al. BMJ 2015 h2105

Infectious disease theme issue: Molecular pathogenesis lessons from the world of infectious diseases research.
Musser JM et al. Am. J. Pathol. 2015 Apr 21