Advanced Molecular Detection Clips Content ▲ Public Health Genomics Knowledge Base (beta version)

Public Health Genomics Knowledge Base (beta version)

Advanced Molecular Detection Clips

Advanced Molecular Detection Clips Content

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

NEWS

• Cerebrospinal fluid test for detecting multiple pathogens gains FDA allowance 
  Healio, Oct 9, 2015.
• Phylogenetic Analysis Indicates Dengue May Be Endemic in Southern China 
  GenomeWeb, Oct 13, 2015.
• New International Working Group Formed to Tackle Questions of Antibody Validation 
  Bonislawski A. GenomeWeb, Oct 9, 2015.
• Consortium Seeks to Provide Centralized Access to Global TB Data for Research, Dx Development 
  Thomas UG. GenomeWeb, Oct 8, 2015.
• CDC Collaborates With Edico Genome to Evaluate Dragen Hardware for Microbial Genomics 
  GenomeWeb,Oct 9, 2015.
• Should We Bank Our Own Stool? 
  Velasquez-Manoff M. New York Times, Oct 9, 2015.
• Diagnostic developers target antibiotic resistance 
  Callier V. Nature, Oct 9, 2015.
• The Way We're Testing Antibiotics Is All Wrong 
  Tozzi J. Bloomberg, Oct 14, 2015.
• Zero-gravity genomics passes first test 
  Cesare C. Nature, Oct 13, 2015.
• Lost Colonies 
  Azvolinsky A. The Scientist, Oct 1, 2015.

EVENTS / TRAINING / WEB RESOURCES

• Tree of Life 
  (graphic) Hillis DM. Univ of Texas
• Federal Crowdsourcing and Citizen Science Toolkit 
  (website) Resources for Federal scientists.
• An Overview of CDC's Advanced Molecular Detection Program
  (webinar) APHL, Oct 22, 2015, 1:00-2:00 p.m.

CONCEPTS / COMMENTS

• We Asked 92 Bioinformaticians What Frustrated Them About Their Work: You Won't Believe What They Said! 
  Loman N. via Twitter, Oct 6, 2015.
• Decon Recon 
  Williams SCP. The Scientist, Oct 1, 2015.
• Rates of Lateral Gene Transfer in Prokaryotes: High but Why? 
  Vos Michiel et al. Trends in microbiology 2015 Oct (10) 598-605
• Microbial Malaise: How Can We Classify the Microbiome? 
  Beiko Robert G et al. Trends in microbiology 2015 Oct
• The tantalizing links between gut microbes and the brain 
  Smith PA. Nature, Oct 14, 2015.

METHODS / TOOLS

• Detecting Horizontal Gene Transfer between Closely Related Taxa. 
  Adato Orit et al. PLoS computational biology 2015 Oct (10) e1004408
• Challenges of the Unknown: Clinical Application of Microbial Metagenomics. 
  Rose Graham et al. International journal of genomics 2015 292950
• SPINGO: a rapid species-classifier for microbial amplicon sequences. 
  Allard Guy et al. BMC bioinformatics 2015 (1) 324
• Oxford Nanopore sequencing, hybrid error correction, and de novo assembly of a eukaryotic genome. 
  Goodwin Sara et al. Genome research 2015 Oct
• Development of ListeriaBase and comparative analysis of Listeria monocytogenes. 
  Tan Mui Fern et al. BMC genomics 2015 (1) 755

EVOLUTION / ECOLOGY / POPULATIONS

• Tracing the Spread of Clostridium difficile Ribotype 027 in Germany Based on Bacterial Genome Sequences. 
  Steglich Matthias et al. PloS one 2015 (10) e0139811
• The Dynamics of Genetic Interactions Between Vibrio metoecus and Vibrio cholerae, Two Close Relatives Co-Occurring in the Environment. 
  Orata Fabini D et al. Genome biology and evolution 2015 Oct (CDC Author)
• Genotyping of Mycobacterium leprae strains from a region of high endemic leprosy prevalence in India. 
  Lavania Mallika et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct 256-261
• Genomic characterization of emergent pseudorabies virus in China reveals marked sequence divergence: Evidence for the existence of two major genotypes. 
  Ye Chao et al. Virology 2015 Sep 32-43
• Evolutionary and Ecological Characterization of Mayaro Virus Strains Isolated during an Outbreak, Venezuela, 2010. 
  Auguste Albert J et al. Emerging infectious diseases 2015 Oct (10) 1742-50
• Large-Scale Phylogenetic Analysis of Dengue Viruses In China 
  Chen R, Han GZ. Am J Trop Med Hyg, Oct 12, 2015.
• Genotypic anomaly in Ebola virus strains circulating in Magazine Wharf area, Freetown, Sierra Leone, 2015 
  Euro Surveill. 2015;20(40):pii=30035.
• Molecular Epidemiology of Giardia and Cryptosporidium Infections 
  Thompson RC, Ash A. Infect Genet Evol, Oct 11, 205.
• Ape parasite origins of human malaria virulence genes. 
  Larremore Daniel B et al. Nature communications 2015 8368

PATHOGENICITY / ANTIMICROBIAL RESISTANCE

• Trading Capsule for Increased Cytotoxin Production: Contribution to Virulence of a Newly Emerged Clade of emm89 Streptococcus pyogenes. 
  Zhu Luchang et al. mBio 2015 (5)
• Epidemiology and Genomics of Invasive Nontyphoidal Salmonella Infections in Kenya. 
  Kariuki Samuel et al. Clinical infectious diseases : an official publication of the Infectious Diseases Society of America 2015 Nov S317-24
• Genomic Plasticity of Multidrug-resistant NDM-1 Positive Clinical Isolate of Providencia rettgeri. 
  Olaitan Abiola Olumuyiwa et al. Genome biology and evolution 2015 Oct
• Identification of intrinsically metronidazole-resistant clades of Gardnerella vaginalis 
  Schuyler JA, et al. Diagn Microbiol Infect Dis, Oct 8, 2015.
• Adherence and invasive properties of Corynebacterium diphtheriae strains correlates with the predicted membrane-associated and secreted proteome. 
  Sangal Vartul et al. BMC genomics 2015 (1) 765
• Capsular profiling of the Cronobacter genus and the association of specific Cronobacter sakazakii and C. malonaticus capsule types with neonatal meningitis and necrotizing enterocolitis. 
  Ogrodzki P et al. BMC genomics 2015 (1) 758
• Antimicrobial susceptibility, virulence gene profiles and molecular subtypes of Salmonella Newport isolated from humans and other sources. 
  Kuang Dai et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct
• Coevolutionary landscape inference and the context-dependence of mutations in beta-lactamase TEM-1. 
  Figliuzzi M et al. Molecular biology and evolution 2015 Oct
• Analysis of Dengue Virus Genetic Diversity during Human and Mosquito Infection Reveals Genetic Constraints. 
  Sessions October M et al. PLoS neglected tropical diseases 2015 Sep (9) e0004044
• The Dynamic Genome and Transcriptome of the Human Fungal Pathogen Blastomyces and Close Relative Emmonsia. 
  Muñoz José F et al. PLoS genetics 2015 Oct (10) e1005493

DETECTION / DIAGNOSIS

• Comparative analysis of subtyping methods against a whole-genome-sequencing standard for Salmonella enterica serotype Enteritidis. 
  Deng Xiangyu et al. Journal of clinical microbiology 2015 Jan (1) 212-8
• Human bocavirus infection as a cause of severe acute respiratory tract infection in children. 
  Moesker F M et al. Clinical microbiology and infection : the official publication of the European Society of Clinical Microbiology and Infectious Diseases 2015 Oct (10) 964.e1-8
• Genetic Analysis and Species Specific Amplification of the Artemisinin Resistance-Associated Kelch Propeller Domain in P. falciparum and P. vivax. 
  Talundzic Eldin et al. PloS one 2015 (8) e0136099 (CDC Author)

EPIDEMIOLOGY / OUTBREAKS / TRANSMISSION

• Genomic signature of multidrug-resistant Salmonella enterica serovar typhi isolates related to a massive outbreak in Zambia between 2010 and 2012. 
  Hendriksen Rene S et al. Journal of clinical microbiology 2015 Jan (1) 262-72
• Hospital-Wide Eradication of a Nosocomial Legionella pneumophila Serogroup 1 Outbreak 
  Bartley PB, et al. Clin Infect Dis, Oct 13, 2015.
• Molecular Evidence of Sexual Transmission of Ebola Virus 
  Mate SE, et al. New Engl J Med, Oct 14, 2015.

HOST-MICROBE INTERACTIONS

• Chronobiomics: The Biological Clock as a New Principle in Host-Microbial Interactions. 
  Thaiss Christoph A et al. PLoS pathogens 2015 Oct (10) e1005113
• Prediction of Early Childhood Caries via Spatial-Temporal Variations of Oral Microbiota. 
  Teng Fei et al. Cell host & microbe 2015 Sep (3) 296-306
• Toll-like receptor 8 (TLR8) polymorphisms are associated with non-progression of chronic hepatitis C in HIV/HCV coinfected patients. 
  Fernández-Rodríguez Amanda et al. Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases 2015 Oct