Bio 230 - Microbiology - Spring 2013 Study Guide 13simon/bio230/class/mic_class13_13.pdfBio 230 - Microbiology - Spring 2013 Study Guide 13 ... DNA sequence (455 nucleotides of ...

Bio 230 - Microbiology - Spring 2013

Study Guide 13

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How DNA Sequencing Works

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

Part of a radioactively labelled sequencing gel

http://en.wikipedia.org/wiki/DNA_sequencing

Reaction with all four of the dideoxy nucleotides (A, G, C and T)

present, and with different fluorescent colors on each.

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

One reaction can get the sequence of a fragment of DNA as long

as 700 or so nucleotides

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

DNA sequence (455 nucleotides of the lysU gene of E. coli) which

was generated by an automated sequencing device.

http://users.rcn.com/jkimball.ma.ultranet/BiologyPages/D/DNA_sequence.gif

Overview of the 454 sequencing technology

The development and impact of 454

sequencing Jonathan M Rothberg & John H Leamon

Nature Biotechnology 26, 1117 - 1124 (2008)

Published online: 9 October 2008

doi:10.1038/nbt1485

454 Sequencing

454 Sequencing

Shotgun Sequencing: Assembly of Random Sequence Fragments

http://seqcore.brcf.med.umich.edu/doc/educ/dnapr/sequencing.html

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Large-scale Sequencing Center

http://wishart.biology.ualberta.ca/basys/cgi/submit.pl

Automated, in-depth annotation of bacterial genomic

(chromosomal and plasmid) sequences

Expanded view of the E. coli K-12 genome showing gene location

and COG functional categories

Genome Resources for Bio 230

http://www.geneseo.edu/~simon/bio230/genome_resources.html

Two-colour microarrays, the probes are

oligonucleotides, cDNA or small

fragments of PCR products

corresponding to mRNAs. This type of

array is typically hybridized with cDNA

from two samples to be compared (e.g.

patient and control) that are labeled

with two different fluorophores (e.g.

Rhodamine (red) and Fluorescein

(green)).

http://en.wikipedia.org/wiki/DNA_microarray

http://en.wikipedia.org/wiki/DNA_microarray

PCR

RNA Transcription Levels Can be Validated with qPCR

Figure 5. Distribution of cell cycle-regulated genes within functional

categories. The number of genes in each category is in parentheses.

Genes were assigned to a functional category based on the classification

scheme defined by Clusters of Orthologous Genes (COGs)

The End