Week6

Molecular Diagnostics including Microbial Community Ecology
November 3

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Basically like Western Two types Single Plex - probe on plate Multi Plex - probes for different genes - each gene has a different size bead
 * Notes regarding brached DNA technology - via Dave @ NOAA**

For single all you need is plate reader, multi- flow cytometer

//Pros// No extraction RNA can be very small (degraded?)

//Cons// Cost- (approx $1000 for 9 target plate) Validating (multi) Do not know exact info on probes

[|A novel epiphytic cyanobacterium associated with reservoirs affected by avian vacuolar myelinopathy] Harmful Algae 6 (2007) 343–353 Sarah K. Williams *, Jason Kempton, Susan B. Wilde , Alan Lewitus
 * Papers to Discuss:**

Misuse of PCR assay for diagnosis of mollusc protistan infections DISEASES OF AQUATIC ORGANISMS Vol. 80: 81–83 (2008) Eugene M. Burreson (Lets discuss this one)1225401662 HEY! This was my paper! user:lisa418

@ John -- the papers you placed here should be for week7, I moved them 1225475984

Gel-free species identification using melt-curve analysis Molecular Ecology Notes (2007) 7, 1-4

Microbial Ecology Papers:

And a good review paper of Molecular Techniques for Microbe stuff: Genotypic Microbial Community Profiling: A Critical Technical Review (Microbial Ecology, Nocker, Burr, and Camper, (2007))

[|OIE (World Organization for Animal Health) Manual of Diagnostics Tests for Aquatic Animals] user:lisa418
 * Cool Aquatic Animal Disease Links:**

[|DNA-based Molecular Diagnostic Techniques: Research Needs for Standardization and Validation of the Detection of Aquatic Animal Pathogens and Diseases] user:lisa418


 * Additional Papers on the topic:**

Comparison of different quantitative gene expression platforms Evaluation of DNA microarray results with quantitative gene expression platforms Nature Biotechnology Vol. 24, No. 9, September 2006

[|Molecular diagnostics of infectious diseases] Clinical Chemistry 43:11 2021–2038 (1997) Yi-Wei Tang, Gary W. Procop, and David H. Persing user:lisa418

This one looks really interesting too (on microbial ecology): Evolution of Mammals and Their Gut Microbes (Science, 320:1627 (2008))

Here is the supplemental for the Science paper: This is long, don't print it all out! Materials and Methods end on page 8 ...



Density Gradient Gel Electrophoresis: http://www.sfam.org.uk/pdf/features/dgge.pdf user:JLTran

[|Aquatic microbiology intro slides]
 * Good intro for those of us new to aquatic microbiology

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~ABruner** - embed, embed, it is not that difficult :) 1225738164


 * Images and Foods for Thought**

Tree of Life (Bacteria, blue, Archaea, green, Eukayra, pink)



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