The Escherichia Coli K-12 ORFeome: a Resource for Comparative Molecular Microbiology

Overview

Journal BMC Genomics

Publisher Biomed Central

Specialty Genetics

Date 2010 Aug 13

PMID 20701780

Citations 29

Authors

Seesandra V Rajagopala

Natsuko Yamamoto

Adrienne E Zweifel

Tomoko Nakamichi

Hsi-Kuang Huang

Jorge David Mendez-Rios

Jonathan Franca-Koh

Meher Preethi Boorgula

Kazutoshi Fujita

Ken-ichirou Suzuki

James C Hu

Barry L Wanner

Hirotada Mori

Peter Uetz

Affiliations

Soon will be listed here.

Abstract

Background: Systems biology and functional genomics require genome-wide datasets and resources. Complete sets of cloned open reading frames (ORFs) have been made for about a dozen bacterial species and allow researchers to express and study complete proteomes in a high-throughput fashion.

Results: We have constructed an open reading frame (ORFeome) collection of 3974 or 94% of the known Escherichia coli K-12 ORFs in Gateway entry vector pENTR/Zeo. The collection has been used for protein expression and protein interaction studies. For example, we have compared interactions among YgjD, YjeE and YeaZ proteins in E. coli, Streptococcus pneumoniae, and Staphylococcus aureus. We also compare this ORFeome with other Gateway-compatible bacterial ORFeomes and show its utility for comparative functional genomics.

Conclusions: The E. coli ORFeome provides a useful resource for functional genomics and other areas of protein research in a highly flexible format. Our comparison with other ORFeomes makes comparative analyses straighforward and facilitates direct comparisons of many proteins across many genomes.

Citing Articles

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