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Conserved gene order in Basidiomycetes An investigation of synteny within and between: Laccaria bicolor Coprinopsis cinerea Phanerochaete chrysosporium.

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Presentation on theme: "Conserved gene order in Basidiomycetes An investigation of synteny within and between: Laccaria bicolor Coprinopsis cinerea Phanerochaete chrysosporium."— Presentation transcript:

1 Conserved gene order in Basidiomycetes An investigation of synteny within and between: Laccaria bicolor Coprinopsis cinerea Phanerochaete chrysosporium Björn Canbäck

2 Methods BLAST: E-value: 1e-10 i-ADHoRe Gap size: 15 Cluster gap size: 20 Probability: Gene pairs: 5

3 Internal duplications, gene view

4 Example duplication in Laccaria bicolor Scaffold 69 Scaffold 39

5 Best BLAST hit against UniProt 1.Hypothetical protein 2.Queuosine biosynthesis protein 3.Guanine nucleotide-binding protein 4.Hypothetical protein 5.Prolyl-tRNA synthetase 6.Copper radical oxidase 7.Predicted protein 8.Putative membrane glycoprotein 1.Predicted protein 2.Wsv360 3.Guanine nucleotide-binding protein 4.Hypothetical protein 5.Chromosome 14 wgs 6.Copper radical oxidase 7.Predicted protein 8.Putative membrane glycoprotein Scaffold 69Scaffold 39

6 Laccaria bicolor scaffold 17

7 Internal duplications, segment view Note: Half of the duplicated segments are in the same scaffold

8 Duplications between genomes

9

10 Laccaria - Phanerochaete Phanerochaete scaffold 11 Laccaria scaffold 1

11 Laccaria - Coprinopsis Coprinopsis 25 Laccaria scaffold 1

12 Phanerochaete - Coprinopsis Coprinopsis 23 Phanerochaete scaffold 11

13 All three genomes Coprinopsis 24 Laccaria scaffold 1 Phanerochaete scaffold 11

14 Conclusions Very limited amount of detectable duplications in Laccaria bicolor despite large genome size Internal duplications should be traceable because it can be detected between basidiomycetes Large amount of conserved duplications in the ancestor of the three basidiomycetes This contrasts with reports from ascomycetes


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