Understanding and Interpreting Serum Protein Electrophoresis THEODORE X
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Agarose Gel Electrophoresis
Laboratory for Environmental Pathogen Research Department of Environmental Sciences University of Toledo Agarose gel electrophoresis Background information Agarose gel electrophoresis of DNA is used to determine the presence and distinguish the type of nucleic acids obtained after extraction and to analyze restriction digestion products. Desired DNA fragments can be physically isolated for various purposes such as sequencing, probe preparation, or for cloning fragments into other vectors. Both agarose and polyacrylamide gels are used for DNA analysis. Agarose gels are usually run to size larger fragments (greater than 200 bp) and polyacrylamide gels are run to size fragments less than 200 bp. Typically agarose gels are used for most purposes and polyacrylamide gels are used when small fragments, such as digests of 16S rRNA genes, are being distinguished. There are also specialty agaroses made by FMC (e.g., Metaphor) for separating small fragments. Regular agarose gels may range in concentration from 0.6 to 3.0%. Pouring gels at less or greater than these percentages presents handling problems (e.g., 0.4% agarose for genomic DNA partial digests requires a layer of supporting 0.8% gel). For normal samples make agarose gels at 0.7%. The chart below illustrates the optimal concentrations for fragment size separation. The values listed are approximate and can vary depending on the reference that is used. If you do not know your fragment sizes then the best approach is to start with a 0.7% gel and change subsequently if the desired separation is not achieved. Nucleic acids must be stained prior to visualization. Most laboratories use ethidium bromide but other stains (e.g., SYBR green, GelStar) are available. -
Microchip Electrophoresis
Entry Microchip Electrophoresis Sammer-ul Hassan Mechanical Engineering, University of Southampton, Southampton SO17 1BJ, UK; [email protected] Definition: Microchip electrophoresis (MCE) is a miniaturized form of capillary electrophoresis. Electrophoresis is a common technique to separate macromolecules such as nucleic acids (DNA, RNA) and proteins. This technique has become a routine method for DNA size fragmenting and separating protein mixtures in most laboratories around the world. The application of higher voltages in MCE achieves faster and efficient electrophoretic separations. Keywords: electrophoresis; microchip electrophoresis; microfluidics; microfabrications 1. Introduction Electrophoresis is an analytical technique that has been applied to resolve complex mixtures containing DNA, proteins, and other chemical or biological species. Since its discovery in the 1930s by Arne [1], traditional slab gel electrophoresis (SGE) has been widely used until today. Meanwhile, new separation techniques based on electrophoresis continue to be developed in the 21st century, especially in life sciences. Capillary electrophoresis (CE) provides a higher resolution of the separated analytes and allows the automation of the operation. Thus, it has been widely used to characterize proteins and peptides [2], biopharmaceutical drugs [3], nucleic acids [4], and the genome [5]. The development of microfabrication techniques has led to the further miniaturization of electrophoresis known Citation: Hassan, S.-u. Microchip as microchip electrophoresis (MCE). MCE offers many advantages over conventional Electrophoresis. Encyclopedia 2021, 1, capillary electrophoresis techniques such as the integration of different separation functions 30–41. https://dx.doi.org/10.3390/ onto the chip, the consumption of small amounts of sample and reagents, faster analyses encyclopedia1010006 and efficient separations [6,7]. -
QPNC-PAGE Standardized Protocol for Acidic, Basic and Neutral Metalloproteins MW 6 - > 200Kda USE ONLY FRESH GELS
QPNC-PAGE Standardized Protocol For Acidic, Basic and Neutral Metalloproteins MW 6 - > 200kDa USE ONLY FRESH GELS Correspondence: Bernd Kastenholz • Research Centre Juelich • Institute of Chemistry and Dynamics of the Geosphere – Phytosphere (ICG-3) • Juelich 52425 • Germany • E-mail: [email protected] Recommended Tools (Bio-Rad) Model 491 Prep Cell (U.S. patent no. 4,877,510) Power Pac 1000: Constant Power: 5 W; Time: 8 hr Model EP-1 Econo Pump: 1 mL/min; 5 mL/fraction; 80 mL prerun V; 480 ml total V (Eluent) Model 2110 Fraction Collector: 80 Fractions Model EM-1 Econo UV Monitor: AUFS 1.0; Detection Wavelength 254 nm Model 1327 Econo Recorder: Range: 100 mV; Chart Speed: 6 cm/hr Model SV-3 Diverter Ventil Buffer Recirculation Pump: Flow Rate: 95 mL/min (Electrophoresis Buffer) Stock Solutions 1) 200 mM Tris-HCl 10 mM NaN3 pH 10.00 – Keep RT. 2) 200 mM Tris-HCl 10 mM NaN3 pH 8.00 – Keep RT. 3) 40 % Acrylamide/Bis 2.67 % C - Keep 4°C. 4) 10 % Ammonium Persulfate (APS) - Keep 4°C (freshly prepared). Electrophoresis Buffer 20 mM Tris-HCL 1 mM NaN3 pH 10.00 degassed – Keep 4°C Upper Electrophoresis Chamber (Prep Cell): 500 mL Electrophoresis Buffer Lower Electrophoresis Chamber (Prep Cell): 2000 mL Electrophoresis Buffer Eluent 20 mM Tris-HCL 1 mM NaN3 pH 8.00 degassed – Keep 4°C Elution Chamber (Prep Cell): 700 mL Elution Buffer Separating Gel Acrylamide 4% T Volume: 40 mL ingredients: 4 mL 40 % Acrylamide/Bis 2.67 % C 4 mL 200 mM Tris-HCl 10 mM NaN3 pH 10.00 32 mL H2O 200 µL 10% APS 20 µL TEMED Add TEMED and APS at the end. -
Clotting Phenomena at the Blood-Polymer Interface and Development of Blood Compatible Polymeric Surfaces
Clotting Phenomena at the Blood-Polymer Interface and Development of Blood Compatible Polymeric Surfaces Adriaan Bantjes In the past two decades many attempts have been made to relate surface and interfacial parameters with the blood compatibility of polymeric surfaces. It is however doubtful if by a single parameter the behaviour of blood on a surface can be predicted. Two major aspects of blood compatibility -- the prevention of platelet adhesion and the deactivation of the intrinsic coagulation system are determined by the measure and nature of competi- tive blood protein adsorption on the foreign surface. The adhesion of blood platelets is promoted by adsorbed fibrinogen and gamma globulin, while adsorbed albumin inhibits platelct adhesion. Heparinised surfaces do not adsorb fibrin and consequently no adhesion of platelets takes place. Othcr surfaces with low platelct adhesion are the hydrogels, certain block copolyetherurethanes, polyelectrolyte complexes and biolised proteins. Heparinised surfaces of the cationically bonded type inhibit the intrinsic coagulation as well, however this may be due to unstable coatings and heparin leakage. In the authors laboratory a synthetic heparinoid was prepared with the structure - [CH, - C(CH3) NHS03Na ~ C(H) COONa ~ CH2 --] with h, = (7.5 5 1 .O) x lo5 and an in vivo anticoagulant activity of 50% of heparin. Its coatings on PVC, using tridodecyltiietliyl-ammoniuni chloridc as a coupling agent, are stable in plasma and salt solutions and provide surfaces which show negligible platelet adhesion and a strong inhibition 01 the intrinsic coagulation on contact with blood. Similar results were found with polydimethylsiloxane surfaces coated with this heparinoid. 1. INTRODUCTION new blood compatible materials may be developed it is necessary to explain sotne of the mechanisms of blood co- The clinical use of blood contacting devices and prosthcses is agulation on intcraction with a foreign surface. -
The Effect of Gamma Globulin in Pustular Acne*
PRELIMINARY AND SHORT REPORT THE EFFECT OF GAMMA GLOBULIN IN PUSTULAR ACNE* LOREN W.SHAFFER,M.D., BENJAMIN SdHWIMMER, M.D. AND RENATO J.STANICCO,M.D. One of us (LWS) bad occasion to treat a young Clinical Response: Patient 1: New lesions ceased white man with gamma globulin for prophylaxisappearing immediately after the first injection. after exposure to infectious hepatitis. He wasBy the third week most of the cystic and pustular given two injections, 10 cc. each, of human Polio-lesions had dried up, and no new ones had ap- myelitis Immune Globulin, one week apart. Itpeared. Comedones were not decreased in number. was observed that shortly after the second injec-The patient maintained his improvement through tion, his severe pustular and indurated acnethe fifth week when the cystic and pustular lesions improved considerably. This observation led tobegan to recur. the present study, of which this is a preliminary Patient 2: New lesions continued to develop report. throughout the period of treatment and the one This study of the therapeutic effect of gammamonth follow up. globulin in pustular acne is coupled with a study Patient 3: There was no observable effect of of the serum protein and C-reactive protein levelstreatment. before and after treatment. Patient 4: The first improvement was seen in Method: Four patients in their late teens, other-the second week and by the third, all cystic and wise healthy, but with severe pustular and cysticpustular lesions were dry. The improvement acne that had been resistant to conventionallasted for two weeks after which the lesions methods of treatment were selected for the study.began to return. -
Protein Blotting Guide
Electrophoresis and Blotting Protein Blotting Guide BEGIN Protein Blotting Guide Theory and Products Part 1 Theory and Products 5 Chapter 5 Detection and Imaging 29 Total Protein Detection 31 Transfer Buffer Formulations 58 5 Chapter 1 Overview of Protein Blotting Anionic Dyes 31 Towbin Buffer 58 Towbin Buffer with SDS 58 Transfer 6 Fluorescent Protein Stains 31 Stain-Free Technology 32 Bjerrum Schafer-Nielsen Buffer 58 Detection 6 Colloidal Gold 32 Bjerrum Schafer-Nielsen Buffer with SDS 58 CAPS Buffer 58 General Considerations and Workflow 6 Immunodetection 32 Dunn Carbonate Buffer 58 Immunodetection Workflow 33 0.7% Acetic Acid 58 Chapter 2 Methods and Instrumentation 9 Blocking 33 Protein Blotting Methods 10 Antibody Incubations 33 Detection Buffer Formulations 58 Electrophoretic Transfer 10 Washes 33 General Detection Buffers 58 Tank Blotting 10 Antibody Selection and Dilution 34 Total Protein Staining Buffers and Solutions 59 Semi-Dry Blotting 11 Primary Antibodies 34 Substrate Buffers and Solutions 60 Microfiltration (Dot Blotting) Species-Specific Secondary Antibodies 34 Stripping Buffer 60 Antibody-Specific Ligands 34 Blotting Systems and Power Supplies 12 Detection Methods 35 Tank Blotting Cells 12 Colorimetric Detection 36 Part 3 Troubleshooting 63 Mini Trans-Blot® Cell and Criterion™ Blotter 12 Premixed and Individual Colorimetric Substrates 38 Transfer 64 Trans-Blot® Cell 12 Immun-Blot® Assay Kits 38 Electrophoretic Transfer 64 Trans-Blot® Plus Cell 13 Immun-Blot Amplified AP Kit 38 Microfiltration 65 Semi-Dry Blotting Cells -
Blotting Complete Mini Mini Electro Blot System Electro Blot System
Blotting Complete Mini Mini Electro Blot System Electro Blot System Complete Mini MEBM10 Sub Blot System MEBM10 / MSB10 MV-10CBS Electro Blot Systems are primarily designed for wet electrophoresis of proteins, and offer a combination of increased capacity with economical features. Electro Blot Systems have increased capacity over standard systems. Up to five gel blot cassettes may be utilized at any time for Electro Blot Mini. This is especially intensity coiled electrode and ensures uniform transfer across the blot surface. The cassette’s open architecture that ensures the maximum blot area allows direct transfer of current. Its rigid construction that ensures contact between the gel and membrane is retained throughout the blot and an even pressure is maintained. These units are compatible with magnetic stirrers to aid heat dispersal and prevent pH drifts in the buffer due to incomplete buffer mixing. Each unit includes a cooling pack to further enhance transfer efficiency by removing excess heat. This also saves buffer for added economy. The Complete Electrophoresis Systems include both modules for gel electrophoresis, electroblotting and accessories, to provide a complete Mini gel Complete Mini Electro & Blot System casting, running and electroblotting system. The electroblotting module includes four inter-locking cassettes and sixteen fiber pads. A high intensity current is generated by coiled platinum electrodes. These features, in conjunction with the advanced cooling system allow for rapid electroblotting in as little as one hour. MV-10CBS For MEBM series Features • Ideal for wet electroblotting of proteins – Western Blotting • Hinged cassettes for added convenience • Accommodates gel thickness from 0.25 to 3mm For MV-CBS series Features • Versatile: Interchangeable modules for slab gel and Electroblotting using a single universal buffer tank • Hinged cassettes • High intensity electrodes • blot capacity • Rapid set-up cooling 32 Blotting Cat. -
REVIEW Multiple Myeloma: the Cells of Origin – a Two-Way Street
Leukemia (1998) 12, 121–127 1998 Stockton Press All rights reserved 0887-6924/98 $12.00 REVIEW Multiple myeloma: the cells of origin – A two-way street JR Berenson, RA Vescio and J Said West Los Angeles VA Medical Center, UCLA School of Medicine, Los Angeles, CA, USA Multiple myeloma results from an interplay between the mono- earlier precursor cells may be responsible for the proliferation clonal malignant plasma cells and supporting nonmalignant of the malignant population. The presence of a circulating cells in the bone marrow. Recent studies suggest that the final transforming event in this B cell disorder occurs at a late stage tumor component without obvious plasma cell morphology of B cell differentiation based on the characteristics of the also suggests that less mature lymphocytes may be part of the immunoglobulin genes expressed by the malignant clone as clone as well, which could explain the dissemination of the well as surface markers present on the tumor cells. Recently, disease throughout the bone marrow.4 In addition, evidence an increasing pathogenic role in this malignancy by the nonma- for tumor cells at even earlier stages of hematopoietic differen- lignant cells in the bone marrow has been suggested by several tiation came from studies showing the high rate of acute non- studies. Specific infection of these supporting cells by the lymphoblastic leukemia in these patients and the presence of recently identified Kaposi’s sarcoma-associated herpes virus 5,6 (KSHV) suggests a novel mechanism by which this nonmalig- non-lymphoid surface markers on malignant plasma cells. A nant population may lead to the development of this B cell variety of molecular biological techniques have subsequently malignancy and support its growth. -
T Cell Clones +CD8 Functional Diversity in Melanoma-Specific
Trogocytosis Is a Gateway to Characterize Functional Diversity in Melanoma-Specific CD8+ T Cell Clones This information is current as Ronny Uzana, Galit Eisenberg, Yael Sagi, Shoshana of October 2, 2021. Frankenburg, Sharon Merims, Ninette Amariglio, Eitan Yefenof, Tamar Peretz, Arthur Machlenkin and Michal Lotem J Immunol 2012; 188:632-640; Prepublished online 7 December 2011; doi: 10.4049/jimmunol.1101429 Downloaded from http://www.jimmunol.org/content/188/2/632 Supplementary http://www.jimmunol.org/content/suppl/2011/12/07/jimmunol.110142 http://www.jimmunol.org/ Material 9.DC1 References This article cites 50 articles, 25 of which you can access for free at: http://www.jimmunol.org/content/188/2/632.full#ref-list-1 Why The JI? Submit online. by guest on October 2, 2021 • Rapid Reviews! 30 days* from submission to initial decision • No Triage! Every submission reviewed by practicing scientists • Fast Publication! 4 weeks from acceptance to publication *average Subscription Information about subscribing to The Journal of Immunology is online at: http://jimmunol.org/subscription Permissions Submit copyright permission requests at: http://www.aai.org/About/Publications/JI/copyright.html Email Alerts Receive free email-alerts when new articles cite this article. Sign up at: http://jimmunol.org/alerts The Journal of Immunology is published twice each month by The American Association of Immunologists, Inc., 1451 Rockville Pike, Suite 650, Rockville, MD 20852 Copyright © 2012 by The American Association of Immunologists, Inc. All rights reserved. Print ISSN: 0022-1767 Online ISSN: 1550-6606. The Journal of Immunology Trogocytosis Is a Gateway to Characterize Functional Diversity in Melanoma-Specific CD8+ T Cell Clones Ronny Uzana,* Galit Eisenberg,* Yael Sagi,† Shoshana Frankenburg,* Sharon Merims,* Ninette Amariglio,‡ Eitan Yefenof,x Tamar Peretz,* Arthur Machlenkin,*,1 and Michal Lotem*,1 Trogocytosis, the transfer of membrane patches from target to immune effector cells, is a signature of tumor–T cell interaction. -
Two-Dimensional Electrochromatography/Capillary Electrophoresis on a Microchip
Frederick Conference on Capillary Electrophoresis, Hood College, Frederick, Maryland October 16-28, 2000 Two-Dimensional Electrochromatography/Capillary Electrophoresis on a Microchip Norbert Gottschlich, Stephen C. Jacobson, Christopher T. Culbertson, and J. Michael Ramsey Oak Ridge National Laboratory, Oak Ridge, TN 37831-6142 Two-dimensional (2D) separation methods for the analysis of complex protein or peptide mixtures have mostly been performed on planar gels using isoelectric focusing and polyacrylamide gel electrophoresis (IEF-PAGE). However, these techniques can be slow and labor intensive. Recently, several column-based two-dimensional separation schemes have been developed to reduce the analysis time. Another approach is to use microfluidic devices (microchips) that enable very fast and efficient separations. Furthermore, microchips are relatively easy to operate and allow the manipulation of very small sample volumes with minimal dead volumes between interconnecting channels. These features are especially useful for the development of multidimensional separations. We will report a comprehensive two-dimensional separation system on a microfabricated device that utilizes open-channel electrochromatography as the first dimension and capillary electrophoresis as the second dimension. The first dimension is operated under isocratic conditions, and its effluent is injected into the second dimension every few seconds. A 25 cm long separation channel with spiral geometry for the first dimension, chemically modified with octadecylsilane, is coupled to a 1.2 cm long straight separation channel for the second dimension. Fluorescently labeled products from tryptic digests of proteins are analyzed in 13 minutes with this system. Research sponsored by Office of Research and Development, U.S. Department of Energy, under contract DE-AC05-00OR22725 with Oak Ridge National Laboratory, managed and operated by UT-Battelle, LLC.. -
How Many Different Clonotypes Do Immune Repertoires Contain?
How many different clonotypes do immune repertoires contain? Thierry Mora and Aleksandra M. Walczak Laboratoire de physique de l'Ecole´ normale sup´erieure (PSL University), CNRS, Sorbonne Universit´e,and Universit´ede Paris, 75005 Paris, France Immune repertoires rely on diversity of T-cell and B-cell receptors to protect us against foreign threats. The ability to recognize a wide variety of pathogens is linked to the number of different clonotypes expressed by an individual. Out of the estimated ∼ 1012 different B and T cells in humans, how many of them express distinct receptors? We review current and past estimates for these numbers. We point out a fundamental limitation of current methods, which ignore the tail of small clones in the distribution of clone sizes. We show that this tail strongly affects the total number of clones, but it is impractical to access experimentally. We propose that combining statistical models with mechanistic models of lymphocyte clonal dynamics offers possible new strategies for estimating the number of clones. I. INTRODUCTION dent [9, 10]. The total number of different αβ pairs that the generation machinery can produce is much greater The diversity of immune repertoires plays an impor- than the total number of receptors in the whole human tant role in the host's ability to recognize and control population [9, 11, 12]. Thus, each person harbors only a wide range of pathogens. While actual recognition of a small fraction of the potential diversity of receptors. an antigen depends on having a relatively specific T-cell To estimate the number of distinct receptors, we need to or B-cell receptor (TCR or BCR), multiple experimen- count them. -
Pulsed Field Gel Electrophoresis
Pulsed Field Gel Electrophoresis Protocol Bulletin 6229 Optimizing Sample Resolution Switch Time and Switch Time Ramping Switch time is the critical parameter in achieving the best pulsed field gel electrophoresis (PFGE) resolution. It is the length of time the electrical field is pulsed in a single direction. For example, a 60 sec switch time means that the electrical field will be pulsed in one direction for 60 sec and then switched to the other direction for 60 sec. The switch time is generally shorter for samples with small DNA fragments and longer for samples with large DNA fragments. Samples with a wide range of DNA fragment sizes, for example the Saccharomyces cerevisiae chromosomes, can be resolved by changing the switch time over the course of the run. This is referred to as switch time ramping because the switch time will “ramp up” from a short switch time to a longer one. The ramp of the switch time can be linear, that is, increasing in exact increments over the course of a run, or nonlinear, so that the user can concentrate the switch times on the largest or smallest regions as necessary to achieve better resolution. The nonlinear switch time ramping expands the linear range of fragment separation to 50–700 kb, yielding more precise fragment size measurements. 45 sec 60 sec 90 sec The nonlinear ramp is described by how much of the run time has elapsed by the time the user has ramped up to 50% Effect of switch time on sample resolution. As the switch time increases, the larger DNA fragments move farther into the gel during the same time period.