title: Production and sequence validation of a complete full length ORF collection for the pathogenic bacterium Vibrio cholerae.
abstract: Cholera, an infectious disease with global impact, is caused by pathogenic strains of the bacterium Vibrio cholerae. High-throughput functional proteomics technologies now offer the opportunity to investigate all aspects of the proteome, which has led to an increased demand for comprehensive protein expression clone resources. Genome-scale reagents for cholera would encourage comprehensive analyses of immune responses and systems-wide functional studies that could lead to improved vaccine and therapeutic strategies. Here, we report the production of the FLEXGene clone set for V. cholerae O1 biovar eltor str. N16961: a complete-genome collection of ORF clones. This collection includes 3,761 sequence-verified clones from 3,887 targeted ORFs (97%). The ORFs were captured in a recombinational cloning vector to facilitate high-throughput transfer of ORF inserts into suitable expression vectors. To demonstrate its application, approximately 15% of the collection was transferred into the relevant expression vector and used to produce a protein microarray by transcribing, translating, and capturing the proteins in situ on the array surface with 92% success. In a second application, a method to screen for protein triggers of Toll-like receptors (TLRs) was developed. We tested in vitro-synthesized proteins for their ability to stimulate TLR5 in A549 cells. This approach appropriately identified FlaC, and previously uncharacterized TLR5 agonist activities. These data suggest that the genome-scale, fully sequenced ORF collection reported here will be useful for high-throughput functional proteomic assays, immune response studies, structure biology, and other applications.
authors.affiliation: Harvard Institute of Proteomics, Department of Biological Chemistry and Molecular Pharmacology and Dana-Farber/Harvard Cancer Center DNA Resource Core, Harvard Medical School, 320 Charles Street, Cambridge, MA 02141, USA.
authors.forename: Andreas
authors.initials: A
authors.lastname: Rolfs
authors.forename: Wagner R
authors.initials: WR
authors.lastname: Montor
authors.forename: Sang Sun
authors.initials: SS
authors.lastname: Yoon
authors.forename: Yanhui
authors.initials: Y
authors.lastname: Hu
authors.forename: Bhupinder
authors.initials: B
authors.lastname: Bhullar
authors.forename: Fontina
authors.initials: F
authors.lastname: Kelley
authors.forename: Seamus
authors.initials: S
authors.lastname: McCarron
authors.forename: Daniel A
authors.initials: DA
authors.lastname: Jepson
authors.forename: Binghua
authors.initials: B
authors.lastname: Shen
authors.forename: Elena
authors.initials: E
authors.lastname: Taycher
authors.forename: Stephanie E
authors.initials: SE
authors.lastname: Mohr
authors.forename: Dongmei
authors.initials: D
authors.lastname: Zuo
authors.forename: Janice
authors.initials: J
authors.lastname: Williamson
authors.forename: John
authors.initials: J
authors.lastname: Mekalanos
authors.forename: Joshua
authors.initials: J
authors.lastname: Labaer
mesh_terms: D001426:Bacterial Proteins / Q000235:genetics / Q000378:metabolism; D001483:Base Sequence; D005784:Gene Amplification / Q000235:genetics; D016680:Genome, Bacterial / Q000235:genetics; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics*; D040081:Protein Array Analysis; D014734:Vibrio cholerae / Q000235:genetics* / Q000378:metabolism / Q000472:pathogenicity*
chemical_list: D001426:Bacterial Proteins