Publication Date: Feb 6, 2020
Advanced Molecular Detection Clips Content
NEWS
- U.S. expands use of coronavirus diagnostic test
Steehuysen J. Reuters, Feb 4, 2020. - The coronavirus's genetic code is 80 percent similar to SARS
Kelley A. The Hill, Feb 4, 2020. - Will novel virus go pandemic or be contained?
Kupferschmidt K, Cohen J. Science, Feb 7, 2020. - Snappy Acronyms Generate Excitement for Science (SAGES)
Tay A. The Scientist, Feb 5, 2020.
EVENTS / TRAINING / WEB RESOURCES
- Rapid access to 2019-nCoV (Wuhan coronavirus) data from the current public health emergency
(announcement) NCBI Insights, Feb 3, 2020. - Read about NCBI resources in 2020 Nucleic Acids Research database issue
(links) NCBI Insights, Feb 5, 2020. - NLM Curation at Scale Workshop
(workshop) NLM, Apr 27-28, 2020. Poster abstract deadline Mar 6, 2020. Registration deadline Apr 17, 2020.
CONCEPTS / COMMENTS
- Using sewage for surveillance of antimicrobial resistance
Aarestrup FM, Woolhouse ME. Science, FEb 7, 2020. - Calling all coronavirus researchers: keep sharing, stay open
(editorial) Nature, Feb 4, 2020. - Molecular HIV Surveillance: Balancing Outbreak Detection and Control and the Rights of Persons Living With HIV.
Cranston Kevin et al. American journal of public health 2020 Mar (3) 276-278 - Analysis of a Candida auris outbreak provides new insights into an emerging pathogen.
Wickes Brian L et al. Journal of clinical microbiology 2020 Jan - Immune recognition of putative alien microbial structures: Host-pathogen interactions in the age of space travel.
Netea Mihai G et al. PLoS pathogens 2020 Jan (1) e1008153
METHODS / TOOLS
- High-throughput sequencing (HTS) for the analysis of viral populations.
Pérez-Losada Marcos et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Jan 104208
EVOLUTION / ECOLOGY / POPULATIONS
- Full-genome evolutionary analysis of the novel corona virus (2019-nCoV) rejects the hypothesis of emergence as a result of a recent recombination event.
Paraskevis D et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2020 Jan 104212 - A pneumonia outbreak associated with a new coronavirus of probable bat origin
Zhou P, et al. Nature, Feb 3, 2020. - Evolution of the novel coronavirus from the ongoing Wuhan outbreak and modeling of its spike protein for risk of human transmission.
Xu Xintian et al. Science China. Life sciences 2020 Jan - A pneumonia outbreak associated with a new coronavirus of probable bat origin.
Zhou Peng et al. Nature 2020 Feb - Origin and evolution of the 2019 novel coronavirus.
Zhang Liangsheng et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Feb - Novel Hepatitis B virus Subgenotype A8 and Quasi-subgenotype D12 in African-Belgian chronic carriers.
Thijssen Marijn et al. International journal of infectious diseases : IJID : official publication of the International Society for Infectious Diseases 2020 Jan - Dynamics of HIV DNA reservoir seeding in a cohort of superinfected Kenyan women.
Pankau Mark D et al. PLoS pathogens 2020 Feb (2) e1008286 - Discovery of several thousand highly diverse circular DNA viruses.
Tisza Michael J et al. eLife 2020 Feb - Phage diversity, genomics and phylogeny.
Dion Moïra B et al. Nature reviews. Microbiology 2020 Feb
PATHOGENICITY / ANTIMICROBIAL RESISTANCE
- Presence of Heavy Metal Resistance Genes in Escherichia coli and Salmonella, and Analysis of Resistance Gene Structure in E. coli E308.
Yang Shengzhi et al. Journal of global antimicrobial resistance 2020 Jan - Molecular characteristics of carbapenemase-producing Enterobacterales in the Netherlands; results of the 2014-2018 national laboratory surveillance.
van der Zwaluw Kim et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2020 Jan - Phylogenetic Analysis Indicates a Longer Term Presence of the Globally Distributed H58 Haplotype of Salmonella Typhi in Southern India.
Pragasam Agila Kumari et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Jan - Population structure of KPC carbapenemase-producing Klebsiella pneumoniae in a long-term acute-care rehabilitation facility: identification of a new lineage of clonal group 101, associated with local hyperendemicity.
Arena Fabio et al. Microbial genomics 2020 Jan (1) - Increasing prevalence of a fluoroquinolone resistance mutation amongst Campylobacter jejuni isolates from four human infectious intestinal disease studies in the United Kingdom.
Haldenby Sam et al. PloS one 2020 (1) e0227535 - Reduced in vitro susceptibility of Streptococcus pyogenes to beta-lactam antibiotics associated with mutations in the pbp2x gene is geographically widespread.
Musser James M et al. Journal of clinical microbiology 2020 Jan - Clostridioides difficile ribotype 106: A systematic review of the antimicrobial susceptibility, genetics, and clinical outcomes of this common worldwide strain.
Carlson T J et al. Anaerobe 2019 Dec 102142 - The characterization of mobile colistin resistance ( mcr ) genes among 33 000 Salmonella enterica genomes from routine public health surveillance in England.
Sia Cheryll M et al. Microbial genomics 2020 Jan - Genomic evolution of Neisseria gonorrhoeae since the preantibiotic era (1928-2013): antimicrobial use/misuse selects for resistance and drives evolution.
Golparian Daniel et al. BMC genomics 2020 Feb (1) 116 - Isoniazid- and Rifampin-Resistance Mutations Associated with Resistance to Second-line Drugs and with Sputum Culture Conversion.
Click Eleanor S et al. The Journal of infectious diseases 2020 Jan
- The Genetic Background Modulates the Evolution of Fluoroquinolone-Resistance in Mycobacterium tuberculosis.
Castro Rhastin A D et al. Molecular biology and evolution 2020 Jan (1) 195-207 - A landscape of genomic alterations at the root of a near-untreatable tuberculosis epidemic.
Klopper Marisa et al. BMC medicine 2020 Feb (1) 24 - Global update on the susceptibilities of human influenza viruses to neuraminidase inhibitors and the cap-dependent endonuclease inhibitor baloxavir, 2017-2018.
Takashita Emi et al. Antiviral research 2020 Jan 104718 - Receptor recognition by novel coronavirus from Wuhan: An analysis based on decade-long structural studies of SARS.
Wan Yushun et al. Journal of virology 2020 Jan - Discovery of a subgenotype of human coronavirus NL63 associated with severe lower respiratory tract infection in China, 2018.
Wang Yanqun et al. Emerging microbes & infections 2020 Dec (1) 246-255
DETECTION / DIAGNOSIS
- Evaluation of a micro/nanofluidic chip platform for diagnosis of central nervous system infections: a multi-center prospective study.
Zheng Guanghui et al. Scientific reports 2020 Jan (1) 1568 - Potential applications of nanopore sequencing for forensic analysis.
Hall C L et al. Forensic science review 2020 Jan (1) 23-54 - Genomic surveillance detects Salmonella enterica serovar Paratyphi A harbouring blaCTX-M-15 from a traveller returning from Bangladesh.
Nair Satheesh et al. PloS one 2020 (1) e0228250 - Quasimetagenomic source tracking of Listeria monocytogenes from naturally contaminated ice cream.
Ottesen Andrea et al. BMC infectious diseases 2020 Jan (1) 83 - Tools for Molecular Epidemiology of Streptococcus suis .
Hatrongjit Rujirat et al. Pathogens (Basel, Switzerland) 2020 Jan (2) - RNA based mNGS approach identifies a novel human coronavirus from two individual pneumonia cases in 2019 Wuhan outbreak.
Chen Liangjun et al. Emerging microbes & infections 2020 Dec (1) 313-319 - Enterovirus D68 outbreak detection through a syndromic disease epidemiology network.
Meyers Lindsay et al. Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology 2020 Jan 104262 - Performance comparison of next generation sequencing analysis pipelines for HIV-1 drug resistance testing.
Lee Emma R et al. Scientific reports 2020 Jan (1) 1634 - Analysis of viral diversity in stool samples from infants and children with acute gastroenteritis in Kuwait using Metagenomics approach.
Mohammad Hawraa Adel et al. Virology journal 2020 Jan (1) 10 - Blood signatures for second stage human African trypanosomiasis: a transcriptomic approach.
Mulindwa Julius et al. BMC medical genomics 2020 Jan (1) 14
EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION
- A new coronavirus associated with human respiratory disease in China.
Wu Fan et al. Nature 2020 Feb - Previously undetected super-spreading of Mycobacterium tuberculosis revealed by deep sequencing.
Lee Robyn S et al. eLife 2020 Feb - Comparison of routine field epidemiology and whole genome sequencing to identify tuberculosis transmission in a remote setting.
Guthrie J L et al. Epidemiology and infection 2020 Feb e15 - Incorporation of information diffusion model for enhancing analyses in HIV molecular surveillance.
Kwan Tsz Ho et al. Emerging microbes & infections 2020 Dec (1) 256-262 - Extensive hospital in-ward clustering revealed by molecular characterization of influenza A virus infection.
Sansone M et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Feb - Phylodynamic Analysis Complements Partner Services by Identifying Acute and Unreported HIV Transmission.
Campbell Ellsworth M et al. Viruses 2020 Jan (2) - The relationship between the HIV-1 transmission network and the HIV care continuum in Los Angeles County.
Hassan Adiba et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2020 Feb
HOST-MICROBE INTERACTIONS
- Midtrimester amniotic fluid from healthy pregnancies has no microorganisms using multiple methods of microbiologic inquiry.
Liu Yu et al. American journal of obstetrics and gynecology 2020 Feb - Prenatal and Peripartum Exposure to Antibiotics and Cesarean Section Delivery Are Associated with Differences in Diversity and Composition of the Infant Meconium Microbiome.
Wong Wendy S W et al. Microorganisms 2020 Jan (2) - Sputum microbiome profiling in COPD: beyond singular pathogen detection.
Ditz Benedikt et al. Thorax 2020 Jan - Polymorphisms within the ARNT2 and CX3CR1 genes are associated with the risk of developing invasive aspergillosis.
Lupiañez C B et al. Infection and immunity 2020 Jan - Human inborn errors of immunity to herpes viruses.
Jouanguy Emmanuelle et al. Current opinion in immunology 2020 Jan 106-122
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.Disclaimer: Articles listed in the Advanced Molecular Detection Clips are selected by the CDC Office of Public Health Genomics to provide current awareness of the scientific literature and news. Inclusion in the clips 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 Clips, 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.
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