12 Proteomics Sample Preparation 30 g leaves Cut leaves into pieces Proteomics Sample Preparation SAMPLE PREPARATION Chloroplast Isolation Kit For the isolation of intact chloroplasts from plant leaves Transfer supernatant to fresh tubes Add Chloroplast Isolation Buffer 1x CIB with BSA Blend or homogenize Remove supernatant Centrifuge 1000 x g for 7 min. Chloroplasts appear as green pellet Resuspend each pellet in 1x CIB with BSA Pass through filter mesh; collect liquid Layer the chloroplast suspension on a Percoll gradient or layer Divide filtrate into 4, 50 ml tubes Discard pellets Centrifuge 200 x g for 3 min. Centrifuge to separate broken chloroplasts from intact chloroplasts (1-6 min. depending on plant type) This kit enables isolation of chloroplasts through mechanical cell wall and cell membrane breakage, removal of cell debris and unbroken leaf tissue by filtration, collection of total cell chloroplast fraction by centrifugation, and separation of intact chloroplasts from broken chloroplasts using a Percoll® layer or gradient. Sigma’s Chloroplast Isolation Kit has been tested for use with spinach, pea, lettuce, cabbage, mangold and tobacco. Features & Benefits • Specifically formulated buffer – Saves time using easy-to-follow, simplified protocol based on proven methods • Isolates intact chloroplasts – Useful for studies of such processes as carbon assimilation, electron flow and phosphorylation, metabolic transport, or protein targeting • Kits are useful for both proteomic or genomic applications – Provides optimized conditions for isolation of intact chloroplasts from leaves of plants commonly used for research Components Chloroplast Isolation Buffer 5x (CIB) Percoll® Ferricyanide dependent oxygen evolution by chloroplasts – a measure of intact chloroplasts This assay is based upon the inability of the ferricyanide (artificial electron acceptor) to cross the chloroplast envelope and react with the electron transport system in the intact thylakoid membranes. Electron transport from water to ferricyanide results in oxygen release. The degree of integrity of the chloroplast preparation is assessed by comparing the rates of oxygen evolution upon illumination before and after osmotic shock of the chloroplasts. Bovine Serum Albumin (BSA) Filter Mesh 100 Ferricyanide photoreduction – a measure of intact chloroplasts This assay is based upon the inability of the ferricyanide to cross the chloroplast envelope and to react with the electron transport system in the thylakoid membranes. Ferricyanide reduction, as indicated by the decrease in the absorbancy at 410 nm, occurs only when ruptured chloroplasts are present in the preparation. The degree of integrity of the chloroplast preparation is assessed by comparing the rate of ferricyanide reduction upon illumination before and after osmotic shock of the chloroplasts. 250 3.2 0.04 50 0 Lettuce intact 93% Chloroplasts (equivalent to 30 µg/ml chlorophyll) prepared using CP-ISO were illuminated in the presence of 1.5 mM ferricyanide and 5 µmole NH4Cl, at 25 °C. Evolution of oxygen was measured by an oxygen electrode. The blue bars represent the level of oxygen evolved by the chloroplast preparation in isotonic medium indicating the fraction of ruptured chloroplasts within the preparation, while the violet bars represent the level of oxygen evolved by the same chloroplast preparation after osmotic shock (ruptured chloroplasts). Calculation of the correlation between the oxygen evolution before and after the osmotic shock indicates that the spinach and the lettuce chloroplast preparations contain 89% and 93% intact chloroplasts, respectively. Slope ( OD410/min) 3 150 Spinach intact 89% s i g m a - a l d r i c h . c o m A B 200 OD410 mole O2/mg chlorophyll Analysis of the results, presented here, indicates that 88% of the chloroplasts in the spinach chloroplast preparation are intact. 300 before after 2.8 2.6 2.4 0.03 0.02 0.01 0 0 2 Time/Min 4 6 before after Chloroplasts (equivalent to 25 µg/ml chlorophyll) prepared using CP-ISO were illuminated in the presence of 1.5 mM ferricyanide. The reduction of ferricyanide was measured spectrophotometrically (410 nm). Graph A demonstrates the change in absorbancy of the two samples (before and after osmotic shock) during 6 minutes. Graph B shows bars representing the slopes of the lines in Graph A. Product Code Description Size CP-ISO Chloroplast Isolation Kit 1 kit 13 SAMPLE PREPARATION Proteomics Sample Preparation Mitochondria Isolation Kit For the isolation of an enriched, functional mitochondrial fraction from animal tissue This kit features specially formulated extraction reagents and optimized protocols for the preparation of mitochondrial fractions from either soft (liver or brain) or hard (skeletal or heart muscle) tissue. In addition, the integrity of the inner membrane of the resulting mitochondria is analyzed by measuring the uptake of the fluorescent carbocyanine dye (JC-1) which is supplied in the kit. The integrity of the mitochondrial outer membrane may be assessed by measuring cytochrome c oxidase activity using the Cytochrome c Oxidase Assay Kit (CYTOC-OX1). The resulting intact mitochondrial preparation is suitable for apoptosis studies, 2D analysis for proteomics and many other applications. Each kit is sufficient for the extraction of mitochondria from 10 to 20 grams of animal tissue. Enough JC-1 staining solution is provided to perform 50 JC-1 assays of 2 ml each. Features & Benefits • Specially formulated extraction reagents and a proven procedure suitable for small scale isolation – Isolate an enriched, intact mitochodrial fraction in a microfuge tube • Produces functionally active, intact mitochondria – Resulting mitochondria are suitable for in vitro assays for apoptosis, oxidative stress or other studies • Includes stain and protocol for determining inner membrane integrity – Determine the integrity of the inner mitochondrial membrane without the need to purchase other reagents • Compatible with the Cytochrome c Oxidase Assay Kit – Allows easy determination of the integrity of the outer mitochondrial membrane Components Extraction Buffer A, 5x Extraction Buffer B, 5x Storage Buffer, 5x Albumin Solution JC-1 Stain JC-1 Assay Buffer, 5x s i g m a - a l d r i c h . c o m Trypsin 14 SAMPLE PREPARATION Proteomics Sample Preparation Small Scale [Large Scale (3-10 g tissue) is also possible] Mitochondria Isolation Kit Continued Western blot of rat heart and liver mitochondria Soft tissue (brain or liver) 94 48.6 36.4 29.8 20.6 6.5 MW Liver mitochondria 2.5 mgP/ml Control cytochrome c 50 g/ml Heart mitochondria 2.5 mgP/ml Another indication for the integrity of mitochondria is the presence of cytochrome c in the intermembrane space (between the inner and outer membranes). The presence of free cytochrome c in whole mitochondria can be demonstrated by a Western blot of the preparations produced using the MITO-ISO1 kit. Mitochondria from heart show more cytochrome c (at the same total protein concentration) than mitochondria from liver. Samples were analyzed by 20% SDS-PAGE and then blotted. Antibody specific to cytochrome c was then used in Western blot analysis. Protein concentrations of the samples used are indicated at the bottom. These results show that functional, intact mitochondria are prepared using the Mitochondria Isolation Kit. In addition, the use of this kit together with the Cytochrome c Oxidase Assay Kit facilitates a quick and easy determination of the functionality of both the inner and outer mitochondrial membranes. Linearity of JC-1 uptake in mitochondria from various organs Linearity of JC-1 uptake vs amount of mitochondria 600 550 rat liver rat brain 500 rat skeletal muscle rat heart mouse liver 450 Fluorescence 400 350 300 250 200 150 100 50 0 0 5 10 15 20 25 30 35 40 g mitochondrial protein 45 50 55 60 s i g m a - a l d r i c h . c o m The cationic dye JC-1 (5,5’-6,6’-tetrachloro-1,1’-3,3’tetraethlybenzimidazolyl-carbocyanine iodide) can be used to measure the mitochondrial inner membrane potential since it is actively taken up in respiring mitochondria. The uptake is energy dependent and needs ATP to power the potential gradient formed over the inner mitochondrial membrane. The linear range is from 5-30 µg mitochondrial protein for many tissue extracts. Product Code Description Size MITO-ISO1 Mitochondria Isolation Kit 1 kit 15 SAMPLE PREPARATION Proteomics Sample Preparation Cytochrome c Oxidase Assay Kit For the determination of cytochrome c oxidase activity in soluble and membrane bound mitochondrial samples Cytochrome c oxidase is located on the inner mitochondrial membrane dividing the mitochondrial matrix from the intermembrane space. The Cytochrome c Oxidase Kit uses an optimized colorimetric assay based on observation of the decrease in absorbance of ferrocytochrome c measured at 550 nm, which is caused by its oxidation to ferricytochrome c by cytochrome c oxidase. This kit is suitable for the detection of mitochondrial outer membrane integrity and for the detection of mitochondria in subcellular fractions. The Cytochrome c Oxidase Kit provides sufficient reagent for 100 tests. Features & Benefits • Simple, optimized protocol – Obtain reproducible results without the need for special training • Useful for determination of cytochrome c activity from any mitochondrial source – The enzyme is present in all mitochondria regardless of species • Useful for detecting the presence of mitochondria in subcellular fractions – Save time and increase confidence in the quality of organelle preparations • May be used in conjunction with the Mitochondrial Isolation Kit (MITO-ISO1) – Standardized mitochondrial preparation and analysis ensure reproducible results Components Assay Buffer 5x Enzyme Dilution Buffer 2x Cytochrome c Sodium Hydrosulfite Cytochrome c Oxidase (positive control) n-Dodecyl b-D-Maltoside Cytochrome c Oxidase Kit determines percentage of intact mitochondria prepared with Mitochondria Isolation Kit Integrity of mitochondria prepared from rat tissues 100 % intact mitochondria % damaged mitochondria 90 80 Percent 70 60 50 40 30 20 10 0 Rat skeletal muscle Tissue Rat heart muscle Cytochrome c Oxidase activity is measured in the presence and absence of the detergent 1 mM n-dodecyl b-D-maltoside. The ratio of the two activities provides a measure of the integrity of the outer mitochondrial membrane. Product Code Description Size CYTOC-OX1 Cytochrome c Oxidase Assay Kit 1 kit s i g m a - a l d r i c h . c o m Rat liver 16 SAMPLE PREPARATION Proteomics Sample Preparation Individual Protease Inhibitors Inhibitor AEBSF Aprotinin saline solution Aprotinin, affinity purified Bestatin, hydrochloride Chymostatin E-64 EDTA disodium salt dihydrate EDTA, 0.5 M solution, disodium salt EGTA Leupeptin, hemisulfate Leupeptin, TFA salt Leupeptin hydrochloride Pepstatin A Pepstatin A, 90% 1, 10-Phenanthroline Phosphoramidon PMSF s i g m a - a l d r i c h . c o m See Protease Inhibitor Cocktails. p. 64 Product Code A 8456 A 6279 A 4529 B 8385 C 7268 E 3132 E 5134 E 7889 E 8145 L 2884 L 2023 L 9783 P 4265 P 5318 P 9375 R 7385 P 7626 Application Inhibits serine proteases, such as trypsin and chymotrypsin Inhibits serine proteases such as trypsin chymotrypsin, plasmin, trypsinogen urokinase and kallikrein. Aprotinin inhibits human leukocyte elastase but not pancreatic elastase Inhibits aminopeptidases, such as leucine aminopeptidase Inhibits serine and cysteine proteases Inhibits cysteine proteases such as calpain, papain, and cathepsin B Inhibits metalloproteases; chelates; permeabilized Gram negative bacteria Inhibits metalloproteases, chelates Inhibits both serine and cysteine proteases, such as calpain, trypsin, papain, and cathepsin B Inhibits acid proteases such as pepsin (human or porcine), renin, cathepsin D, chymosin (bovine rennin), and protease B Inhibits metalloproteases Inhibits thermolysin and collagenase Serine protease inhibitor
© Copyright 2024