We think you have liked this presentation. If you wish to download it, please recommend it to your friends in any social system. Share buttons are a little bit lower. Thank you!
Presentation is loading. Please wait.
Published byAlex Cahill
Modified over 2 years ago
©2011 Elsevier, Inc. Molecular Tools and Infectious Disease Epidemiology Betsy Foxman Chapter 7 Omics Analyses in Molecular Epidemiologic Studies
©2011 Elsevier, Inc. DNA, antibody, and small molecular microarrays. The microarrays differ in the substrate bound to the surface and the detection principle. DNA microarrays are based on hybridization, antibody on antigen–antibody reactions, and small molecular arrays on antigen–antibody reaction and other binding reactions. Source: Reproduced, with permission, from Uttamchandani et al. (2009). FIGURE 7.1
©2011 Elsevier, Inc. Nomenclature of a dendrogram. Source: Reproduced, with permission, from the National Center for Biotechnology. FIGURE 7.2
©2011 Elsevier, Inc. Examples of dendrograms with unscaled and scaled branches, and rooted and unrooted trees. Source: Reproduced, with permission, from Vierstraete (1999). FIGURE 7.3
©2011 Elsevier, Inc. Phylogenic analysis of pulsed-field gel electrophoresis (PFGE) patterns from Salmonella enterica serotype Montevideo strains from an outbreak in France, Twelve case-patients and three isolates from cheese or raw milk processed in the incriminated plant (AFSSA SMVDXB ) identified from epidemiologic analyses as the putative source shared the identical PFGE pattern (only patient strain XMON-1 is shown on the figure because all others were identical). Isolates from other case-patients (XMON ) and non-outbreak-associated patients (XMON-2 to XMON-10) were quite heterogeneous. Similarity calculated using DICE. Source: Reproduced, with permission, from Dominguez et al. (2009). FIGURE 7.4
©2011 Elsevier, Inc. The relationship of HIV to representative simian immunodeficiency viruses using the viral polymerase gene (Pol) amino acid sequence. Crosses represent possible transmission between species. The length of the distance bar is ~1 amino acid replacement per 10 sites. Horizontal lines represent the degree of genetic distance, vertical lines have no meaning. The tree is rooted using Sykes monkeys. Source: Reproduced, with permission, from Hungnes et al. (2000). FIGURE 7.5
©2011 Elsevier, Inc. A, Measles phylogeny: the measles virus nucleocapsid gene (63 sequences, 1575 base pairs [bp]). B, Influenza phylogeny: the human influenza A virus (subtype H3N2) hemagglutinin (HA1) gene longitudinally sampled over a period of 32 years (50 sequences, 1080 bp). C, Dengue phylogeny: the dengue virus envelope gene from all four serotypes (DENV-1 to DENV-4, 120 sequences, 1485 bp). D, HIV-1 population phylogeny: the subtype B envelope (E) gene sampled from different patients (39 sequences, 2979 bp). E, HCV population phylogeny: the virus genotype 1b E1E2 gene sampled from different patients (65 sequences, 1677 bp). F, HIV-1 within-host phylogeny: the partial envelope (E) gene longitudinally sampled from a single patient over 5.8 years (58 sequences, 627 bp). All sequences were collected from GenBank and trees were constructed with maximum likelihood in phylogenetic analysis using parsimony (PAUP). Horizontal branch lengths are proportional to substitutions per site. Source: Adapted, with permission, from Grenfell et al. (2004). FIGURE 7.6 AB C D EF
©2011 Elsevier, Inc. Rarefaction curves for pyrosequencing reads of the V4 and V6 regions of 16S rDNA from fecal samples from individuals A, B, C, and D. Phylotypes assigned using 97% (dotted lines) and 98% levels (solid lines, except for ALL-V4, which has single dots) of similarity. The inset shows curves for half the A-V6-1.0 reads and the three constituent parts of the C-V4-0.5 reads. Source: Reproduced, with permission, from Claesson et al. (2009). FIGURE 7.7
©2011 Elsevier, Inc. Molecular Tools and Infectious Disease Epidemiology Betsy Foxman Chapter 5 A Primer of Molecular Biology.
©2011 Elsevier, Inc. Molecular Tools and Infectious Disease Epidemiology Betsy Foxman Chapter 8 Determining the Reliability and Validity and Interpretation.
Figure S1. Effect of threshold distance on the number of OTUs. The grey box indicates maximal pyrosequencing and PCR-noise (Behnke et al., 2010; Quince.
Computational analysis of four human adenovirus type 4 genomes reveals molecular evolution through two interspecies recombination events Amy Smith Judy.
Larisa Gustavsson (Garkava) Balsgård-Department of Crop Sciences Swedish University of Agricultural Sciences RAPD markers.
Introduction to Molecular Evolution Mike Thomas October 3, 2002.
Role of the laboratory in surveillance Sources: WHO Laboratory Training for Field Epidemiologists ECDC -EUPHEM Robert Koch Institute National Reference.
INFLUENZA-1 VL – 6 Dec. 8 th 2013 Mohammed El-Khateeb.
Copyright © 2008 Pearson Education, Inc., publishing as Pearson Benjamin Cummings PowerPoint ® Lecture Presentations for Biology Eighth Edition Neil Campbell.
Frontiers of Genetics Chapter 13. Applications of Biotechnology Biotechnology: The use of organisms to perform practical tasks for human use. – DNA Technology:
Gene Correlation Networks Jin Chen CSE Fall
Table of Contents – pages iv-v Unit 1: What is Biology? Unit 2: Ecology Unit 3: The Life of a Cell Unit 4: GeneticsGenetics Unit 5: Change Through Time.
CHAPTER 20 DNA TECHNOLOGY AND GENOMICS Copyright © 2002 Pearson Education, Inc., publishing as Benjamin Cummings Section B: DNA Analysis and Genomics 1.Restriction.
Length width crossability chromosome number phenotype genotype colour shape number ratio multivariate analysis UPGMA leaves stems hairs venation flowers.
. Intro to Phylogenetic Trees Computational Genomics Lecture 4b Sections 7.1, 7.2, in Durbin et al. Chapter 17 in Gusfield Slides by Shlomo Moran and Ido.
Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings PowerPoint Lectures for Biology, Seventh Edition Neil Campbell and Jane Reece.
Hepatitis C virus 1. Some HCV History 1970s: many cases reported – called non-A, non-B hepatitis 1988: hepatitis C virus identified 1990: antibody screening.
Copyright © 2005 Pearson Education, Inc. publishing as Benjamin Cummings Figure 21.1 Chapter 21 Genomes and their Evolution.
1 14 Molecular Evolution and Population Genetics.
Profiling microbial communities with T-RFLP (terminal restriction fragment length polymorphism) Anne Fahy.
End Show Slide 1 of 24 Copyright Pearson Prentice Hall Biology.
Copyright © 2004 Pearson Education, Inc., publishing as Benjamin Cummings PowerPoint ® Lecture Slide Presentation prepared by Christine L. Case Microbiology.
Phylogenetic reconstruction. What is phylogenetic analysis and why should we perform it? Phylogenetic analysis has two major components: 1.Phylogeny inference.
Chapter 68 Chapter 68 Fracture Risk Assessment: The Development and Application of FRAX ® Copyright © 2013 Elsevier Inc. All rights reserved.
Genotyping of hepatitis A virus (HAV) - a useful tool for outbreak investigations Kathrine Stene-Johansen NIPH.
10-1 Copyright © The McGraw-Hill Companies, Inc. Permission required for reproduction or display. Chapter 10 Lecture Outline See PowerPoint Image Slides.
Chapter 10 Author: Lee Hannah. FIGURE 10.1 Photomicrograph of a stomata on the underside of a leaf. Source: Dan Hungerford.
1 Chapter 10 Myelin Structure and Biochemistry Copyright © 2012, American Society for Neurochemistry. Published by Elsevier Inc. All rights reserved.
Chapter 10 Looking to the Future Insights from Experimentation.
Watson and Crick The structure of DNA was described by British Scientists Watson and Crick as long double helix shaped with its sugar phosphate backbone.
© 2016 SlidePlayer.com Inc. All rights reserved.