Functional inference by ProtoNet family tree: the uncharacterized proteome of Daphnia pulex.

ABSTRACT:

Background

Daphnia pulex (Water flea) is the first fully sequenced crustacean genome. The crustaceans and insects have diverged from a common ancestor. It is a model organism for studying the molecular makeup for coping with the environmental challenges. In the complete proteome, there are 30,550 putative proteins. However, about 10,000 of them have no known homologues. Currently, the UniProtoKB reports on 95% of the Daphnia's proteins as putative and uncharacterized proteins.

Results

We have applied ProtoNet, an unsupervised hierarchical protein clustering method that covers about 10 million sequences, for automatic annotation of the Daphnia's proteome. 98.7% (26,625) of the Daphnia full-length proteins were successfully mapped to 13,880 ProtoNet stable clusters, and only 1

SUBMITTER: Rappoport N 

PROVIDER: S-EPMC3584848 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature