CorkOakDB

CorkOakDB provides a transcriptomic resource for Quercus suber based on over 7 million pyrosequencing reads from 21 normalized cDNA libraries to support investigation of cork formation and other physiological processes.

Key Features:

• Extensive Sequence Data: Contains over 7 million sequence reads generated by pyrosequencing of 21 normalized cDNA libraries derived from diverse tissues, organs, developmental stages, and physiological conditions of Quercus suber.
• Unigene Assembly: Assembles approximately 159,000 unigenes from the EST reads using a stringent data processing pipeline.
• Comprehensive Annotation: Annotates each unigene by similarity to known plant genes and by Interpro domain assignment, Gene Ontology (GO) classification, and Enzyme Commission (E.C.) numbers.
• Unique Gene Space: Includes an EST dataset subjected to phylogenetic analysis that reveals significant novel gene space not represented in other model species or existing EST projects.

Scientific Applications:

• Understanding Cork Formation: Enables analysis of transcripts involved in cork differentiation and biosynthesis pathways in Quercus suber.
• Stress Response Studies: Supports investigation of molecular responses to thermal, hydric, and biotic stresses in Q. suber.
• Forest Management and Conservation: Provides genomic resources to inform forest management and conservation efforts for cork oak populations.
• Developmental Biology: Facilitates study of developmental processes across tissues and stages using transcriptomic profiles.

Methodology:

Unigene assembly from EST reads, annotation by similarity to known plant genes and by Interpro domains, Gene Ontology (GO) classes and Enzyme Commission (E.C.) numbers, and phylogenetic analysis of the EST dataset.