drosophila melanogaster (genome analysis)

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