title: Study of rat hypothalamic proteome by HPLC/ESI ion trap and HPLC/ESI-Q-TOF MS.
abstract: The proteomic profile of hypothalamus, a key organ of CNS, is explored here by employing two widely used MS techniques, i.e. HPLC/ESI-ion trap and HPLC/ESI-quadrupole-TOF MS. Strong cation exchange is used for the fractionation of peptides and protein search engine MASCOT is employed for data query. One hundred and thirty six proteins with 10 973 peptides were identified by HPLC/ESI-ion trap MS, while 140 proteins with 32 183 peptides were characterized by HPLC/ESI-quadrupole-TOF MS. Among the total 198 proteins identified in both experiments, 78 proteins were common in both sets of conditions. The rest of the 120 proteins were identified distinctly in both MS strategies, i.e. 58 unique proteins were found using the quadrupole-TOF while 62 were found with the HPLC/ESI-ion trap. Moreover, these proteins were classified into groups based on their functions performed in the body. Results presented here identified some important signal and cellular defense proteins inevitable for survival in stressed conditions. Additionally, it is also shown that any single MS strategy is not reliable for good results due to loss of data depending on sensitivity of the instrument used.
authors.affiliation: School of Life Sciences, Beijing Institute of Technology, Beijing, P. R. China.
authors.forename: Javed
authors.initials: J
authors.lastname: Iqbal
authors.forename: Wang
authors.initials: W
authors.lastname: Li
authors.forename: Kaleem
authors.initials: K
authors.lastname: Ullah
authors.forename: Murtaza
authors.initials: M
authors.lastname: Hasan
authors.forename: Guo
authors.initials: G
authors.lastname: Linna
authors.forename: Umer
authors.initials: U
authors.lastname: Awan
authors.forename: Yongqian
authors.initials: Y
authors.lastname: Zhang
authors.forename: Sajida
authors.initials: S
authors.lastname: Batool
authors.forename: Hong
authors.initials: H
authors.lastname: Qing
authors.forename: Yulin
authors.initials: Y
authors.lastname: Deng
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D002851:Chromatography, High Pressure Liquid / Q000379:methods*; D007031:Hypothalamus / Q000737:chemistry*; D008297:Male; D008969:Molecular Sequence Data; D009419:Nerve Tissue Proteins / Q000032:analysis* / Q000737:chemistry; D020543:Proteome / Q000032:analysis* / Q000737:chemistry; D040901:Proteomics / Q000379:methods; D051381:Rats; D017208:Rats, Wistar; D021241:Spectrometry, Mass, Electrospray Ionization / Q000379:methods*
chemical_list: D009419:Nerve Tissue Proteins; D020543:Proteome
keywords: Animal proteomics; Defense proteins; Hypothalamus; MS; Signal