title: Toward Postgenomics Ophthalmology: A Proteomic Map of the Human Choroid-Retinal Pigment Epithelium Tissue.
abstract: Ophthalmology and visual health research have received relatively limited attention from the personalized medicine community, but this trend is rapidly changing. Postgenomics technologies such as proteomics are being utilized to establish a baseline biological variation map of the human eye and related tissues. In this context, the choroid is the vascular layer situated between the outer sclera and the inner retina. The choroidal circulation serves the photoreceptors and retinal pigment epithelium (RPE). The RPE is a layer of cuboidal epithelial cells adjacent to the neurosensory retina and maintains the outer limit of the blood-retina barrier. Abnormal changes in choroid-RPE layers have been associated with age-related macular degeneration. We report here the proteome of the healthy human choroid-RPE complex, using reverse phase liquid chromatography and mass spectrometry-based proteomics. A total of 5309 nonredundant proteins were identified. Functional analysis of the identified proteins further pointed to molecular targets related to protein metabolism, regulation of nucleic acid metabolism, transport, cell growth, and/or maintenance and immune response. The top canonical pathways in which the choroid proteins participated were integrin signaling, mitochondrial dysfunction, regulation of eIF4 and p70S6K signaling, and clathrin-mediated endocytosis signaling. This study illustrates the largest number of proteins identified in human choroid-RPE complex to date and might serve as a valuable resource for future investigations and biomarker discovery in support of postgenomics ophthalmology and precision medicine.
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|2 Department of Biotechnology, Siddaganga Institute of Technology , Tumkur, India .
authors.forename: Manjunath
authors.initials: M
authors.lastname: Dammalli
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|3 Amrita School of Biotechnology , Amrita VishwaVidyapeetham, Kollam, India .|4 Vittala International Institute of Ophthalmology , Bangalore, India .
authors.forename: Krishna R
authors.initials: KR
authors.lastname: Murthy
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|5 YU-IOB Center for Systems Biology and Molecular Medicine, Yenepoya University , Mangalore, India .
authors.forename: Sneha M
authors.initials: SM
authors.lastname: Pinto
authors.affiliation: 4 Vittala International Institute of Ophthalmology , Bangalore, India .
authors.forename: Kalpana Babu
authors.initials: KB
authors.lastname: Murthy
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|6 Centre for Bioinformatics, School of Life Sciences, Pondicherry University , Puducherry, India .
authors.forename: Raja Sekhar
authors.initials: RS
authors.lastname: Nirujogi
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|6 Centre for Bioinformatics, School of Life Sciences, Pondicherry University , Puducherry, India .
authors.forename: Anil K
authors.initials: AK
authors.lastname: Madugundu
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|7 Department of Biotechnology, Manipal University , Manipal, India .
authors.forename: Gourav
authors.initials: G
authors.lastname: Dey
authors.affiliation: 3 Amrita School of Biotechnology , Amrita VishwaVidyapeetham, Kollam, India .
authors.forename: Bipin
authors.initials: B
authors.lastname: Nair
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .
authors.forename: Harsha
authors.initials: H
authors.lastname: Gowda
authors.affiliation: 1 Institute of Bioinformatics , International Technology Park, Bangalore, India .|5 YU-IOB Center for Systems Biology and Molecular Medicine, Yenepoya University , Mangalore, India .|8 NIMHANS-IOB Bioinformatics and Proteomics Laboratory, Neurobiology Research Centre, National Institute of Mental Health and Neurosciences , Bangalore, India .
authors.forename: Thottethodi Subrahmanya
authors.initials: TS
authors.lastname: Keshava Prasad
mesh_terms: D002829:Choroid / Q000378:metabolism*; D006801:Humans; D009885:Ophthalmology / Q000379:methods*; D057285:Precision Medicine; D040901:Proteomics / Q000379:methods*; D055213:Retinal Pigment Epithelium / Q000378:metabolism*
keywords: innovation systems; omics technology; personalized medicine; proteomics