s. pombe unicellular archiascomycete diverged from s. cerevisiae 330- 1144 ma size ~14 mb, 3...

S. pombe

• Unicellular archiascomycete• Diverged from S. cerevisiae 330- 1144 Ma • Size ~14 Mb, 3 chromosomes • No synteny• Data stored in GeneDB

Nomenclature Evolutionary relationships (orthology, paralogy,

protein family and domain)Functional annotation (Using GO, from literature

curation, functional transfer from orthologs, inferred electronically from protein family/domain)

Genetic mapping data (minimal, small amount, mostly linked to physical sequence data)

Areas of interest

Areas of expertise/collaborations

• Literature curation• Ontology development (GO consortium)• Ortholog/paralog resolution (and functional inference)• Protein family identification (Pfam/Interpro)• Functional mappings (e.g. Interpro2GO)• Physical and genetic interactions (GO & BioGRID

consortiums)• Functional prediction (Daniel Barker)

Orthologs

Sequence and annotation updates

GO curationGO associations

Domain /family Family identification

DataflowLinks

Interpro2Go

GOASPKW2GO

1

2

3

5

4

6

User submissionSequence analysis

Literature curation

Data mining

Biological process

Cellular component Molecular function

101

124318

2681

494 537

106

Gene count 4990Dubious 67No GO S. pombe 567 11.5% (c.f. S. cerevisiae 612 10.5%)

GO terms

S. cerevisiae orthologs

Pfam families

** Submitted to Pfam

484

3161

272

41

3827

532

** DUF mainly eukaryotic/fungal

No orthologsOf which 74

No S. cerevisiae ortholog

Gene count 4990

Unassigned 456 Dubious 67Conserved 57No GO/Pf/Ort 341

** Distant ortholog detectionPfam coverageS. pombe 75%c.f.S. cerevisiae 65%