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Infectious Diseases

- Infectious Diseases PHGKB -

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Last Posted: Mar 22, 2019

A cytochrome P450 allele confers pyrethroid resistance on a major African malaria vector, reducing insecticide-treated bednet efficacy.
Weedall Gareth D et al. Science translational medicine 2019 Mar (484)
Active Targeted Surveillance to Identify Sites of Emergence of Hantavirus.
Kim Won-Keun et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Mar
Evolving resistance to pathogens
Miller IF, Metcalf CJ. Science, Mar 22, 2019.
Assessing alignment-based taxonomic classification of ancient microbial DNA.
Eisenhofer Raphael et al. PeerJ 2019 e6594
Comparative analysis of HIV sequences in real time for public health.
Wertheim Joel O et al. Current opinion in HIV and AIDS 2019 Mar
Cryptic resistance mutations associated to misdiagnoses of Multidrug-resistant tuberculosis.
Cancino-Muñoz Irving et al. The Journal of infectious diseases 2019 Mar
Determinants of Zika virus host tropism uncovered by deep mutational scanning.
Setoh Yin Xiang et al. Nature microbiology 2019 Mar
Genomic and functional analysis of emerging virulent and multi-drug resistant E. coli lineage ST648.
Schaufler Katharina et al. Antimicrobial agents and chemotherapy 2019 Mar
Horizontal Transmission of Hepatitis B Virus From Mother to Child Due to Immune Escape Despite Immunoprophylaxis.
Kanji Jamil N et al. Journal of pediatric gastroenterology and nutrition 2019 Mar
Marburg virus disease outbreak in Kween District Uganda, 2017: Epidemiological and laboratory findings.
Nyakarahuka Luke et al. PLoS neglected tropical diseases 2019 Mar (3) e0007257

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 care and prevention. r PHGKB is a specialized database of the overall PHGKB. For more information on PHGKB, click here

Advanced Molecular Detection Clips (current edition) Published on Mar 21, 2019

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
Events / Training / Web Resources
Policy
Concepts / Comments
Methods / Tools
Evolution / Ecology / Populations
Pathogenicity / Antimicrobial Resistance
Detection / Diagnosis
Epidemiology / Outbreaks / Transmission
Host-Microbe Interactions

CONCEPTS / COMMENTS

Evolving resistance to pathogens
Miller IF, Metcalf CJ. Science, Mar 22, 2019.
Microbiomes: An Origin Story
Goins J. ASM.org, Mar 8, 2019.

METHODS / TOOLS

MOLGENIS research: advanced bioinformatics data software for non-bioinformaticians.
van der Velde K Joeri et al. Bioinformatics (Oxford, England) 2019 Mar (6) 1076-1078
Sequencing-based methods and resources to study antimicrobial resistance.
Boolchandani Manish et al. Nature reviews. Genetics 2019 Mar
Assessing alignment-based taxonomic classification of ancient microbial DNA.
Eisenhofer Raphael et al. PeerJ 2019 e6594
Genome Sequencing and Interrogation of Genome Databases: A Guide to Neisseria meningitidis Genomics.
Bratcher Holly B et al. Methods in molecular biology (Clifton, N.J.) 2019 51-82
Building the framework for standardized clinical laboratory reporting of next generation sequencing data for resistance-associated mutations in Mycobacterium tuberculosis complex.
Tornheim Jeffrey A et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Mar
Reconstructing foot-and-mouth disease outbreaks: a methods comparison of transmission network models.
Firestone Simon M et al. Scientific reports 2019 Mar (1) 4809

EVOLUTION / ECOLOGY / POPULATIONS

A One Health investigation of Salmonella enterica serovar Wangata in north-eastern New South Wales, Australia, 2016-2017.
Collins J et al. Epidemiology and infection 2019 Jan e150
Genomic Survey of Bordetella pertussis Diversity, United States, 2000-2013.
Weigand Michael R et al. Emerging infectious diseases 2019 Apr (4) 780-783
Active Targeted Surveillance to Identify Sites of Emergence of Hantavirus.
Kim Won-Keun et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2019 Mar
Chikungunya virus infection in Indonesia: a systematic review and evolutionary analysis.
Harapan Harapan et al. BMC infectious diseases 2019 Mar (1) 243
Genetic relationship between poultry and wild bird viruses during the highly pathogenic avian influenza H5N6 epidemic in the Netherlands, 2017-2018.
Beerens Nancy et al. Transboundary and emerging diseases 2019 Mar
Early Genomic Detection of Cosmopolitan Genotype of Dengue Virus Serotype 2, Angola, 2018.
Hill Sarah C et al. Emerging infectious diseases 2019 Apr (4) 784-787
Key Viral Adaptations Preceding the AIDS Pandemic.
Sauter Daniel et al. Cell host & microbe 2019 01 (1) 27-38

PATHOGENICITY / ANTIMICROBIAL RESISTANCE

Genomic plasticity associated with antimicrobial resistance in Vibrio cholerae .
Verma Jyoti et al. Proceedings of the National Academy of Sciences of the United States of America 2019 Mar
Genomic and functional analysis of emerging virulent and multi-drug resistant E. coli lineage ST648.
Schaufler Katharina et al. Antimicrobial agents and chemotherapy 2019 Mar
Extended insight into the Mycobacterium chelonae-abscessus complex through whole genome sequencing of Mycobacterium salmoniphilum outbreak and Mycobacterium salmoniphilum-like strains.
Behra Phani Rama Krishna et al. Scientific reports 2019 Mar (1) 4603
Cryptic resistance mutations associated to misdiagnoses of Multidrug-resistant tuberculosis.
Cancino-Muñoz Irving et al. The Journal of infectious diseases 2019 Mar

DETECTION / DIAGNOSIS

A new oligonucleotide array for the detection of multidrug and extensively drug-resistance tuberculosis.
Chen Ching-Yu et al. Scientific reports 2019 Mar (1) 4425
Detection of human parvovirus 4 DNA in the patients with acute encephalitis syndrome during seasonal outbreaks of the disease in Gorakhpur, India.
Arankalle Vidya A et al. Emerging microbes & infections 2019 (1) 130-138
Multiplex targeted mass spectrometry assay for one-shot flavivirus diagnosis.
Wee Sheena et al. Proceedings of the National Academy of Sciences of the United States of America 2019 Mar

EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

Whole-genome sequencing revealed independent emergence of vancomycin-resistant Enterococcus faecium causing sequential outbreaks over 3 years in a tertiary care hospital.
Abdelbary Mohamed H H et al. European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology 2019 Mar
Marburg virus disease outbreak in Kween District Uganda, 2017: Epidemiological and laboratory findings.
Nyakarahuka Luke et al. PLoS neglected tropical diseases 2019 Mar (3) e0007257
Horizontal Transmission of Hepatitis B Virus From Mother to Child Due to Immune Escape Despite Immunoprophylaxis.
Kanji Jamil N et al. Journal of pediatric gastroenterology and nutrition 2019 Mar
Genetic characterisation of Measles virus variants identified during a large epidemic in Milan, Italy, March-December 2017.
Bianchi S et al. Epidemiology and infection 2019 Jan e80
Introduction of Ebola virus into a remote border district of Sierra Leone, 2014: use of field epidemiology and RNA sequencing to describe chains of transmission.
DeSilva M B et al. Epidemiology and infection 2019 Jan e88
Comparative analysis of HIV sequences in real time for public health.
Wertheim Joel O et al. Current opinion in HIV and AIDS 2019 Mar

HOST-MICROBE INTERACTIONS

Long-Term Azithromycin Reduces Haemophilus influenzae and Increases Antibiotic Resistance in Severe Asthma.
Taylor Steven L et al. American journal of respiratory and critical care medicine 2019 Mar
Association between Psychosocial Stress and Fecal Microbiota in Pregnant Women.
Hechler C et al. Scientific reports 2019 Mar (1) 4463
HLA-B*14 allele predicts HIV-1 mother-to-child-transmission, in Salvador, Brazil.
Angulo Juan Manuel Cubillos et al. The Brazilian journal of infectious diseases : an official publication of the Brazilian Society of Infectious Diseases 2019 Feb
Determinants of Zika virus host tropism uncovered by deep mutational scanning.
Setoh Yin Xiang et al. Nature microbiology 2019 Mar

Note: 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
Visit AMD website

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.

Public Health Genomics Knowledge Base (v5.4)