title: Comparative proteomics using 2-D gel electrophoresis and mass spectrometry as tools to dissect stimulons and regulons in bacteria with sequenced or partially sequenced genomes.
abstract: We propose two-dimensional gel electrophoresis (2-DE) and mass spectrometry to define the protein components of regulons and stimulons in bacteria, including those organisms where genome sequencing is still in progress. The basic 2-DE protocol allows high resolution and reproducibility and enables the direct comparison of hundreds or even thousands of proteins simultaneously. To identify proteins that comprise stimulons and regulons, peptide mass fingerprint (PMF) with matrix-assisted laser desorption ionization/time-of-flight mass spectrometry (MALDI-TOF-MS) analysis is the first option and, if results from this tool are insufficient, complementary data obtained with electrospray ionization tandem-MS (ESI-MS/MS) may permit successful protein identification. ESI-MS/MS and MALDI-TOF-MS provide complementary data sets, and so a more comprehensive coverage of a proteome can be obtained using both techniques with the same sample, especially when few sequenced proteins of a particular organism exist or genome sequencing is still in progress.
authors.affiliation: Centro de Ciencias Genómicas, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, Mexico. encarnac@cifn.unam.mx
authors.forename: Sergio
authors.initials: S
authors.lastname: Encarnación
authors.forename: Magdalena
authors.initials: M
authors.lastname: Hernández
authors.forename: Gabriel
authors.initials: G
authors.lastname: Martínez-Batallar
authors.forename: Sandra
authors.initials: S
authors.lastname: Contreras
authors.forename: María del Carmen
authors.initials: Mdel C
authors.lastname: Vargas
authors.forename: Jaime
authors.initials: J
authors.lastname: Mora