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Infectious Diseases
What's New
Last Posted: Jul 25, 2017
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A CRISPR toolbox to study virus-host interactions.
Puschnik Andreas S et al. Nature reviews. Microbiology 2017 Jun (6) 351-364 -
Experimental HIV vaccine regimen is well-tolerated, elicits immune responses
NIH, July 24, 2017 -
There's a promising new HIV vaccine candidate in the pipeline-
The mosaic vaccine tackles the viruss incredible genetic diversity.
J Belluz, VOX, July 24, 2017 -
Zika virus genome biology and molecular pathogenesis.
Wang Anyou et al. Emerging microbes & infections 2017 Mar (3) e13 -
Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of a Pneumocystis jirovecii Pneumonia Outbreak
Charpentier E, et al. Emerg Infect Dis, Aug 2017. -
Donor-derived Mycoplasma hominis and an apparent cluster of M. hominis cases in solid organ transplant recipients
Smibert OC, et al. Clin Infect Dis, Jul 5, 2017. -
Genetic Diversity of Highly Pathogenic Avian Influenza A(H5N8/H5N5) Viruses in Italy, 2016-17.
Fusaro Alice et al. Emerging infectious diseases 2017 Sep (9) -
Viral Surveillance in Serum Samples from Patients with Acute Liver Failure by Metagenomic Next-Generation Sequencing
Somasekar S, et al. Clin Infect Dis, Jul 19, 2017. -
Viruses Associated with Unexplained Acute Liver Failure: Next Generation Reveals the Last Generation
Fredricks DN. Clin Infect Dis, Jul 19, 2017. -
A Genome-Wide Association Study to Identify Diagnostic Markers for Human Pathogenic Campylobacter jejuni Strains.
Buchanan Cody J et al. Frontiers in microbiology 2017 1224
About Infectious Diseases PHGKB
The Infectious Diseases Public Health Genomics Knowledge Base (PHGKB) is an online, continuously updated, searchable database of published scientific literature, CDC resources, and other materials that address the translation of genomic discoveries into improved
Advanced Molecular Detection Clips (current edition) Published on Jul 20, 2017
Advanced Molecular Detection Clips (AMD Clips) are selected weekly from a variety of sources, including PubMed, journal tables of contents, and online media. Special emphasis is given to the use of next-generation genetic sequencing in infectious disease public health surveillance, investigation, and development of new diagnostics and interventions. The collection is not comprehensive but aims to capture highlights, while surveying a wide range of topics. CDC-authored articles are flagged. Items marked I&E address aspects of implementation or evaluation in clinical or public health practice.
NEWS
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Mini-Metagenomics Leads to Microbial Discovery
Olena A. The Scientist, July 14, 2017. -
We may now know how a rare, lethal microbe infected dozens of people across the globe
Price M. Science, Jul 12, 2017. -
Meningitis vaccine shows protection against gonorrhea
Healio, Jul 13, 2017. -
Vaccines promoted as key to stamping out drug-resistant microbes
Abbott A. Nature, Jul 19, 2017. -
Malaria Parasite Genome Study Reveals Potential Drug Targets
GenomeWeb, Jul 13, 2017. -
Mosquitoes less likely than people to spread disease via air travel
Crist C. Reuters, Jul 18, 2017. -
UC Riverside Team Wins $14.9M DARPA Grant for Genetic Mosquito Control Research
GenomeWeb, Jul 20, 2017.
EVENTS / TRAINING / WEB RESOURCES
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New releases from NCBI: Multiple Sequence Alignment Viewer 1.6, Tree Viewer 1.6.0, and Genome Workbench 2.12.0
(blog post) NCBI Insights, Jul 14, 2017.
POLICY
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Final NIH Policy on the Use of a Single Institutional Review Board for Multisite Research.
Gordon V M et al. Clinical and translational science 2017 May (3) 130-132
CONCEPTS / COMMENTS
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The selfish germ.
Read Andrew F et al. PLoS biology 2017 Jul (7) e2003250 -
Building the biomedical data science workforce.
Dunn Michelle C et al. PLoS biology 2017 Jul (7) e2003082 -
Mycobacterium chimaera: unraveling a mystery through genomics.
Gardy Jennifer L et al. The Lancet. Infectious diseases 2017 Jul -
Can we beat influenza?
Zhang W, Webster RG. Science, Jul 13, 2017. -
Forty Years of Ebolavirus Molecular Biology: Understanding a Novel Disease Agent Through the Development and Application of New Technologies.
Groseth Allison et al. Methods in molecular biology (Clifton, N.J.) 2017 15-38 -
Viruses Associated with Unexplained Acute Liver Failure: Next Generation Reveals the Last Generation
Fredricks DN. Clin Infect Dis, Jul 19, 2017.
METHODS / TOOLS
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RNA-Seq-Based Comparative Transcriptomics: RNA Preparation and Bioinformatics.
Rodríguez-García Antonio et al. Methods in molecular biology (Clifton, N.J.) 2017 59-72 -
Reference standards for next-generation sequencing.
Hardwick Simon A et al. Nature reviews. Genetics 2017 Jun -
Investigating reproducibility and tracking provenance - A genomic workflow case study.
Kanwal Sehrish et al. BMC bioinformatics 2017 Jul (1) 337 -
A review of bioinformatics platforms for comparative genomics. Recent developments of the EDGAR 2.0 platform and its utility for taxonomic and phylogenetic studies.
Yu J et al. Journal of biotechnology 2017 Jul -
NucDiff: in-depth characterization and annotation of differences between two sets of DNA sequences.
Khelik Ksenia et al. BMC bioinformatics 2017 Jul (1) 338 -
Reverse Genetics of Influenza B Viruses.
Nogales Aitor et al. Methods in molecular biology (Clifton, N.J.) 2017 205-238 -
ACE: an efficient and sensitive tool to detect insecticide resistance-associated mutations in insect acetylcholinesterase from RNA-Seq data.
Guo Dianhao et al. BMC bioinformatics 2017 Jul (1) 330 -
Reliable Biomarker discovery from Metagenomic data via RegLRSD algorithm.
Alshawaqfeh Mustafa et al. BMC bioinformatics 2017 Jul (1) 328
EVOLUTION / ECOLOGY / POPULATIONS
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Population genetic structure, antibiotic resistance, capsule switching and evolution of invasive pneumococci before conjugate vaccination in Malawi.
Chaguza Chrispin et al. Vaccine 2017 Jul -
Systematic longitudinal survey of invasive Escherichia coli in England demonstrates a stable population structure only transiently disturbed by the emergence of ST131
Kallonen T, et al. Genome Research, Jul 18, 2017. -
Genetic Diversity of Highly Pathogenic Avian Influenza A(H5N8/H5N5) Viruses in Italy, 2016-17.
Fusaro Alice et al. Emerging infectious diseases 2017 Sep (9) -
A New Clade of Insect-Specific Flaviviruses from Australian Anopheles Mosquitoes Displays Species-Specific Host Restriction.
Colmant Agathe M G et al. mSphere (4) -
Completely genomic and evolutionary characteristics of human-dominant G9P[8] group A rotavirus strains in Yunnan, China.
Dian Ziqin et al. The Journal of general virology 2017 Jun (6) 1163-1168
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Rapid identification of genes controlling virulence and immunity in malaria parasites.
Abkallo Hussein M et al. PLoS pathogens 2017 Jul (7) e1006447
DETECTION / DIAGNOSIS
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Whole genome and transcriptome analysis reveal MALDI-TOF MS and SDS-PAGE have limited performance for the detection of the key outer membrane protein in carbapenem-resistant Klebsiella pneumoniae isolates.
Pinto Naina Adren et al. Oncotarget 2017 Jul -
A Genome-Wide Association Study to Identify Diagnostic Markers for Human Pathogenic Campylobacter jejuni Strains.
Buchanan Cody J et al. Frontiers in microbiology 2017 1224 -
Revisiting the genotyping scheme for varicella-zoster viruses based on whole-genome comparisons.
Jensen Nancy J et al. The Journal of general virology 2017 Jun (6) 1434-1438
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Viral Surveillance in Serum Samples from Patients with Acute Liver Failure by Metagenomic Next-Generation Sequencing
Somasekar S, et al. Clin Infect Dis, Jul 19, 2017. -
Molecular surveillance of measles and rubella in the WHO European Region: new challenges in the elimination phase.
Santibanez S et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2017 Jul
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Early infant diagnosis of HIV-1 infection in Luanda, Angola, using a new DNA PCR assay and dried blood spots.
Martin Francisco et al. PloS one 2017 (7) e0181352 -
Detection of ZIKV RNA in semen of asymptomatic blood donors.
Musso Didier et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2017 Jul -
A novel non-invasive diagnostic sampling technique for cutaneous leishmaniasis.
Taslimi Yasaman et al. PLoS neglected tropical diseases 2017 Jul (7) e0005750 -
A novel, species-specific, real-time PCR assay for the detection of the emerging zoonotic parasite Ancylostoma ceylanicum in human stool.
Papaiakovou Marina et al. PLoS neglected tropical diseases 2017 Jul (7) e0005734 -
Geographic strain differentiation of Schistosoma japonicum in the Philippines using microsatellite markers.
Moendeg Kharleezelle J et al. PLoS neglected tropical diseases 2017 Jul (7) e0005749
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Phylogenetic Characteristics of Anthrax Outbreaks in Liaoning Province, China, 2001-2015.
Mao Lingling et al. PloS one 2016 (6) e0157496 -
Global outbreak of severe Mycobacterium chimaera disease after cardiac surgery: a molecular epidemiological study.
van Ingen Jakko et al. The Lancet. Infectious diseases 2017 Jul -
Donor-derived Mycoplasma hominis and an apparent cluster of M. hominis cases in solid organ transplant recipients
Smibert OC, et al. Clin Infect Dis, Jul 5, 2017. -
Added Value of Next-Generation Sequencing for Multilocus Sequence Typing Analysis of a Pneumocystis jirovecii Pneumonia Outbreak
Charpentier E, et al. Emerg Infect Dis, Aug 2017.
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Lineage Specific Epitope Profiles for HPAI H5 Pre-Pandemic Vaccine Selection and Evaluation.
Qiu Xueting et al. Influenza and other respiratory viruses 2017 Jul
HOST-MICROBE INTERACTIONS
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Impact of environmental microbiota on human microbiota of workers in academic mouse research facilities: An observational study.
Lai Peggy S et al. PloS one 2017 (7) e0180969 -
Increased risk of pneumonia in residents living near poultry farms: does the upper respiratory tract microbiota play a role?
Smit Lidwien A M et al. Pneumonia (Nathan Qld.) 2017 3 -
Comparison of Standard Culture-Based Method to Culture-Independent Method for Evaluation of Hygiene Effects on the Hand Microbiome.
Zapka C et al. mBio 2017 Mar (2) -
Effect of Aging on the Composition of Fecal Microbiota in Donors for FMT and Its Impact on Clinical Outcomes.
Anand Rohit et al. Digestive diseases and sciences 2017 Apr (4) 1002-1008 -
Streptococcus gallolyticus subsp. gallolyticus promotes colorectal tumor development.
Kumar Ritesh et al. PLoS pathogens 2017 Jul (7) e1006440 -
Hepatitis B virus core antigen mutations predict post-operative prognosis of patients with primary hepatocellular carcinoma.
Jia Jian'an et al. The Journal of general virology 2017 Jun (6) 1399-1409 -
Exposure to bacterial products lipopolysaccharide and flagellin and hepatocellular carcinoma: a nested case-control study.
Fedirko Veronika et al. BMC medicine 2017 Apr (1) 72
indicates that at least one CDC-affiliated author; indicates that the article addresses aspects of implementation or evaluation in clinical or public health practice. About Advanced Molecular Detection Clips
Clips are selected weekly from a variety of sources, including PubMed, journal tables of contents, and online media. Special emphasis is given to the use of next-generation genetic sequencing in infectious disease public health surveillance, investigation, and development of new diagnostics and interventions. The collection is not comprehensive but aims to capture highlights, while surveying a wide range of topics. CDC-authored articles are flagged. Items marked I&E address aspects of implementation or evaluation in clinical or public health practice.
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Disclaimer: Articles listed in the Public Health Knowledge Base are selected by the CDC Office of Public Health Genomics to provide current awareness of the literature and news. Inclusion in the update does not necessarily represent the views of the Centers for Disease Control and Prevention nor does it imply endorsement of the article's methods or findings. CDC and DHHS assume no responsibility for the factual accuracy of the items presented. The selection, omission, or content of items does not imply any endorsement or other position taken by CDC or DHHS. Opinion, findings and conclusions expressed by the original authors of items included in the update, or persons quoted therein, are strictly their own and are in no way meant to represent the opinion or views of CDC or DHHS. References to publications, news sources, and non-CDC Websites are provided solely for informational purposes and do not imply endorsement by CDC or DHHS.