Post on 23-Jan-2018
DROSOPHILA
MELANOGASTER
AHMET VARIS
OUTLINE
1.Importance of drosophila.
2.Sequencing history.
3.Drosophila specific Databases.
4.Technique specifically used for
D.melanogaster.
5.What does Genome analysis show us?
6.Annotated genes.
7.Comperative analysis with Anopheles
gambiae (African malaria mosquito)
GENOME PROJECT
• Berkeley Drosophila Genome Project, The FlyBase
Consortium, Celera Genomics
• First published in the March 24, 2000 issue of
Science.
• Assembly:Jul 2014
• Until now 6 notes have been released
• The genes that was annotated by BDGP included
coding genes, pseudogenes, and non-coding RNA
genes.
• The project can be followed from fruitfly.org
SEQUENCING(WHOLE GENOME SHOTGUN)
(Ellie McCosker,(2012) Genome sequencing vs. Genetic fingerprinting)
DIRECTED SEQUENCING STRATEGY WHICH WAS
FOLLOWED BY BDGP
(Gerald M. Rubin, The Drosophila Genome Project, Genome Research 6: 71-79, 1996)
For drosophila geneome project, the DNA of was sheared three times, altough
it is done with one shearing at WGS
A: transposable elements B:declared gap from release 2
C: comparisan of the gaps between release 2 &3
D: gaps at release 3
(The graphical illustration was taken from Susan C. et al 2002)
GENOME ANALYSIS
(Tables were taken from ensembl.org)
Base pairs: 142.573.017
(Table was taken from flybase.org)
ANNOTATED GENES
COMPARATIVE ANALYSIS(DROSOPHILA MELANOGASTER VS ANOPHELES GAMBIAE)
(Pu Yang et al (2015), doi:10.1038/srep08141)
(Tables were taken from ensembl.org)
Anopheles gambiae Drosophila melanogaster
(Evgeny M Z et al (2002), (Comparative Genome and Proteome Analysis
of Anopheles gambiae and Drosophila melanogaster)
(Evgeny M Z
et al, (2002))
The colors at the
heasd of the
chromosomes
shows which
chromosome
compared with
whome.
İnside of the
cromosomes the
colors shows the
synteny blocks
(Evgeny M Z
et al, (2002))
Smilar logic with the
last slide
REFERENCES
1. Lee C. et al (2013), Whole-genome sequencing and iPLEX MassARRAY
genotyping map an EMSinduced mutation affecting cell competition in
Drosophila melanogaster, doi:10.1534/g3.116.029421
2. Vonesch S. et al, (2016), Genome-Wide Analysis Reveals Novel Regulators of
Growth in Drosophila melanogaster, doi:10.1371/journal.pgen.1005616
3. Michael Ashburner and Casey M. Bergman (2005), Drosophila melanogaster: A
case study of a model genomic sequence and its consequences, 15:1661–1667
4. Rachel Drysdale, (2003), The drosophila melanogaster genome sequencing
projects: A status report,
5. Stephanie E. et al, (2014), Resources for Functional Genomics Studies in
Drosophila melanogaster, Genetics, Vol. 197, 1–18
6. Peter C. et al, (2006), Comparative genomics of Drosophila and human core
promoters
7. Evgeny M. et al, (2002), Comparative Genome and Proteome Analysis of
Anopheles gambiae and Drosophila melanogaster , SCIENCE VOL 298
THANK YOU