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Infectious Diseases
What's New
Last Posted: Sep 20, 2018
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Amycomicin is a potent and specific antibiotic discovered with a targeted interaction screen.
Pishchany Gleb et al. Proceedings of the National Academy of Sciences of the United States of America 2018 Sep -
Applying Unique Molecular Identifiers in Next Generation Sequencing Reveals a Constrained Viral Quasispecies Evolution under Cross-Reactive Antibody Pressure Targeting Long Alpha Helix of Hemagglutinin.
Hauck Nastasja C et al. Viruses 2018 03 (4) -
Are Rapid Influenza Antigen Tests Still Clinically Useful in Today's Molecular Diagnostics World?
Trombetta Valentina K et al. Hawai'i journal of medicine & public health : a journal of Asia Pacific Medicine & Public Health 2018 Sep (9) 226-230 -
Child Weight Gain Trajectories Linked To Oral Microbiota Composition
Craig SJ, et al. Sci Rep, Sep 19, 2018. -
Comprehensive Functional Analysis of the Enterococcus faecalis Core Genome Using an Ordered, Sequence-Defined Collection of Insertional Mutations in Strain OG1RF.
Dale Jennifer L et al. mSystems (5) -
Cost-effectiveness of public-health policy options in the presence of pretreatment NNRTI drug resistance in sub-Saharan Africa: a modelling study.
Phillips Andrew N et al. The lancet. HIV 2018 03 (3) e146-e154 -
International high-risk clonal lineages of CTX-M-producing Escherichia coli F-ST648 in free-roaming cats, South America.
Fernandes Miriam R et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2018 Sep -
Metagenomic analysis with strain-level resolution reveals fine-scale variation in the human pregnancy microbiome
Goltsman DS, et al. Genome Med, Sep 19, 2018. -
Mini viral RNAs act as innate immune agonists during influenza virus infection.
Te Velthuis Aartjan J W et al. Nature microbiology 2018 Sep -
Mucosal microbiota of intestinal polyps reveals putative biomarkers of colorectal cancer.
Mangifesta Marta et al. Scientific reports 2018 Sep (1) 13974
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 Sep 20, 2018
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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Nanopore Sequencing Becomes More Portable to Enable Outbreak Surveillance in Field
Heger M. GenomeWeb, Sep 20, 2018. -
New Technique Allows Sequencing of Short RNAs From Dried Blood Spots, Other Small Samples
Ashford M. GenomeWeb, Sep 19, 2018. -
UCSC Team Develops Single-Cell RNA Nanopore Sequencing Method
Heger M. GenomeWeb, Sep 14, 2018. -
US officials probe Cyclospora spike, tainted US produce
Schnirring L. CIDRAP, Wep 19, 2018. -
Organ wait list shortcut: Patients accepting kidneys, hearts infected with hepatitis C
Alltucker K. USA Today, Sep 18, 2018. -
Gene variations linked to severity of Zika-related birth defects, small NIH study suggests
(press release) NIH, September 17, 2018 -
Pregnancy Microbiomes Vary With Time, Body Site, Disease
GenomeWeb, Sep 19, 2018.
EVENTS / TRAINING / WEB RESOURCES
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Ebola virus Nanopore sequencing resources
(project)ARTICnetwork, Wellcome Trust. -
GenBank will start using expanded accession formats by December 2018
(announcement) NCBI, Sep 19, 2018.
POLICY
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National Biodefense Strategy
(web page) DHHS, Sep 18, 2018. -
Revamped US biodefence strategy adds natural disasters and lab accidents
Reardon S. Nature, Sep 18, 2018.
CONCEPTS / COMMENTS
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It's in the mix: Reassortment of segmented viral genomes.
Lowen Anice C et al. PLoS pathogens 2018 Sep (9) e1007200 -
Should Genetic Testing for Variants Associated with Influenza Infection Be Mandatory for Health Care Employees?
Lewis MH. AMA J Ethics, Sep 2018.
METHODS / TOOLS
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Critical steps in clinical shotgun metagenomics for the concomitant detection and typing of microbial pathogens.
Couto Natacha et al. Scientific reports 2018 Sep (1) 13767 -
Comprehensive Functional Analysis of the Enterococcus faecalis Core Genome Using an Ordered, Sequence-Defined Collection of Insertional Mutations in Strain OG1RF.
Dale Jennifer L et al. mSystems (5) -
The Galaxy platform for accessible, reproducible and collaborative biomedical analyses: 2018 update.
Afgan Enis et al. Nucleic acids research 2018 Jul (W1) W537-W544 -
Antigenic evolution of viruses in host populations.
Rouzine Igor M et al. PLoS pathogens 2018 Sep (9) e1007291
EVOLUTION / ECOLOGY / POPULATIONS
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International high-risk clonal lineages of CTX-M-producing Escherichia coli F-ST648 in free-roaming cats, South America.
Fernandes Miriam R et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2018 Sep -
Novel Clade C-I Clostridium difficile strains escape diagnostic tests, differ in pathogenicity potential and carry toxins on extrachromosomal elements.
Ramírez-Vargas Gabriel et al. Scientific reports 2018 Sep (1) 13951 -
Phylogenetic approach to recover integration dates of latent HIV sequences within-host.
Jones Bradley R et al. Proceedings of the National Academy of Sciences of the United States of America 2018 Sep (38) E8958-E8967 -
Genome-scale analysis of evolutionary rate and selection in a fast-expanding Spanish cluster of HIV-1 subtype F1.
Patiño-Galindo Juan Á et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2018 Sep -
Virome of > 12 thousand Culex mosquitoes from throughout California.
Sadeghi Mohammadreza et al. Virology 2018 10 74-88
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
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Replacement of neuraminidase inhibitor susceptible influenza A(H1N1) with resistant phenotype in 2008 and circulation of susceptible influenza A and B viruses during 2009-2013, South Africa.
Treurnicht Florette K et al. Influenza and other respiratory viruses 2018 Sep
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Resistance of high fitness hepatitis C virus to lethal mutagenesis.
Gallego Isabel et al. Virology 2018 10 100-109 -
Mini viral RNAs act as innate immune agonists during influenza virus infection.
Te Velthuis Aartjan J W et al. Nature microbiology 2018 Sep
DETECTION / DIAGNOSIS
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Performance of the TB-LAMP diagnostic assay in reference laboratories: Results from a multicentre study.
Pham Thu Hang et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2018 Mar 44-49
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Towards national systems for continuous surveillance of antimicrobial resistance: Lessons from tuberculosis.
Suthar Amitabh B et al. PLoS medicine 2018 Sep (9) e1002658
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Are Rapid Influenza Antigen Tests Still Clinically Useful in Today's Molecular Diagnostics World?
Trombetta Valentina K et al. Hawai'i journal of medicine & public health : a journal of Asia Pacific Medicine & Public Health 2018 Sep (9) 226-230
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Usability of the international HAVNet hepatitis A virus database for geographical annotation, backtracing and outbreak detection.
Kroneman Annelies et al. Euro surveillance : bulletin Europeen sur les maladies transmissibles = European communicable disease bulletin 2018 Sep (37)
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External Quality Assessment (EQA) for Molecular Diagnostics of Zika Virus: Experiences from an International EQA Programme, 2016⁻2018.
Donoso Mantke Oliver et al. Viruses 2018 Sep (9)
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Assessment of Matrix-Assisted Laser Desorption Ionization-Time of Flight Mass Spectrometry for Identification and Biotyping of the Pathogenic Oomycete Pythium insidiosum.
Krajaejun Theerapong et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2018 Sep -
Restriction enzyme digestion of host DNA enhances universal detection of parasitic pathogens in blood via targeted amplicon deep sequencing.
Flaherty Briana R et al. Microbiome 2018 Sep (1) 164
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
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Multidrug-Resistant Campylobacter jejuni Outbreak Linked to Puppy Exposure United States, 20162018
Montgomery MP, et al. MMWR, Sep 21, 2018.
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Genome-based transmission modelling separates imported tuberculosis from recent transmission within an immigrant population.
Ayabina Diepreye et al. Microbial genomics 2018 Sep -
Identifying Clusters of Recent and Rapid HIV Transmission Through Analysis of Molecular Surveillance Data.
Oster Alexandra M et al. Journal of acquired immune deficiency syndromes (1999) 2018 Sep
ANTIMICROBIALS / VACCINES / INTERVENTIONS
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Cost-effectiveness of public-health policy options in the presence of pretreatment NNRTI drug resistance in sub-Saharan Africa: a modelling study.
Phillips Andrew N et al. The lancet. HIV 2018 03 (3) e146-e154
-
Applying Unique Molecular Identifiers in Next Generation Sequencing Reveals a Constrained Viral Quasispecies Evolution under Cross-Reactive Antibody Pressure Targeting Long Alpha Helix of Hemagglutinin.
Hauck Nastasja C et al. Viruses 2018 03 (4) -
Amycomicin is a potent and specific antibiotic discovered with a targeted interaction screen.
Pishchany Gleb et al. Proceedings of the National Academy of Sciences of the United States of America 2018 Sep
HOST-MICROBE INTERACTIONS
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Norovirus interactions with the commensal microbiota.
Sullender Meagan E et al. PLoS pathogens 2018 Sep (9) e1007183 -
Extensive host immune adaptation in a concentrated North American HIV epidemic.
Brumme Zabrina L et al. AIDS (London, England) 2018 Sep (14) 1927-1938 -
Human defects in STAT3 promote oral mucosal fungal and bacterial dysbiosis.
Abusleme Loreto et al. JCI insight 2018 Sep (17) -
Variations in maternal adenylate cyclase genes are associated with congenital Zika syndrome in a cohort from Northeast, Brazil.
Rossi Á D et al. Journal of internal medicine 2018 Sep -
Mucosal microbiota of intestinal polyps reveals putative biomarkers of colorectal cancer.
Mangifesta Marta et al. Scientific reports 2018 Sep (1) 13974 -
Child Weight Gain Trajectories Linked To Oral Microbiota Composition
Craig SJ, et al. Sci Rep, Sep 19, 2018. -
Metagenomic analysis with strain-level resolution reveals fine-scale variation in the human pregnancy microbiome
Goltsman DS, et al. Genome Med, Sep 19, 2018. -
Causality in dietary interventions-building a case for gut microbiota.
Lam Yan Y et al. Genome medicine 2018 08 (1) 62
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.
Archived Editions
Search AMD Clips database
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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.