Human lenses were obtained from NDRI (Philadelphia, PA, USA). All lenses were isolated from the donor no later than 8 hours post mortem, shipped frozen and stored at β80Β°C before dissection. Fifty-five and 62-year-old human lenses were decapsulated and dissected into cortex (outer 0.5 mm of tissue), outer nucleus (approximately 1 mm wide ring inside of cortex containing adult nucleus and juvenile nucleus), and nucleus regions (remaining core tissue containing fetal nucleus and embryonic nucleus)
47 by pulling away each layer of tissue with tweezers. A second set of lenses was dissected using Acupunch surgical trephines (Acuderm, Inc., Ft. Lauderdale, FL, USA), as described in the
Supplementary Information. All dissected tissue was processed identically. Each sample was homogenized in homogenizing buffer (25 mM Tris, 150 mM NaCl, 5 mM EDTA, 1 mM dithiothreitol (DTT), and 1 mM phenylmethylsulfonyl fluoride (PMSF), pH 7.5). After homogenization, the sample was centrifuged at 100,000
g for 30 minutes and the supernatant was discarded. The pellets were washed twice with the above homogenizing buffer followed by three washes with homogenizing buffer containing 8 M urea to obtain the urea-insoluble fraction (UIF). The UIF was further washed with 0.1 M NaOH followed by one water wash. Centrifugation at 100,000
g was performed to separate the supernatant and pellets for each wash. The final pellets were suspended in 100 ΞΌL water; 5 ΞΌL was saved for protein assay. For protein assay, a 5 ΞΌL aliquot of sample was mixed with 5 ΞΌL 5% SDS and protein concentration was measured by bicinchoninic acid assay (Thermo Scientific, Rockford, IL, USA). An aliquot of 1 ΞΌL 1 M DTT was added to the remaining sample and incubated at 56Β°C for 1 hour to reduce disulfide bonds. An aliquot of 10 ΞΌL of 500 mM iodoacetic acid (IAA) was then added and the sample was incubated at room temperature for 45 minutes in the dark to alkylate free cysteines. The sample was then centrifuged at 100,000
g for 30 minutes and the pellets were saved. The pellets were suspended in 50 mM Tris (pH 8.0) containing 10% acetonitrile and digested by trypsin for 18 hours at 37Β°C. After digestion, the sample was dried in a SpeedVac (model SPD131DDA, ThermoScientific, Milford, MA, USA). Peptides were reconstituted in 0.1% formic acid (0.5 ΞΌg/ΞΌL) for mass spectrometry analysis.Β