Two-dimensional Nonequilibrium pH Gradient Electrophoresis Research Articles

Altered stationary-phase response in a Borrelia burgdorferi rpoS mutant.

The homolog of the chromosomally encoded stationary-phase sigma factor RpoS in Borrelia burgdorferi was inactivated using gyrB(r) as a selectable marker. Two-dimensional nonequilibrium pH gradient electrophoresis of stationary-phase cell lysates identified at least 11 differences between the protein profiles of the rpoS mutant and wild-type organisms. Wild-type B. burgdorferi had a growth phase-dependent resistance to 1 N NaCl, similar to the stationary-phase response reported for other bacteria. The B. burgdorferi rpoS mutant strain was less resistant to osmotic stress in stationary phase than the isogenic rpoS wild-type organism. The results indicate that the B. burgdorferi rpoS homolog influences protein composition and participates in stationary-phase-dependent osmotic resistance. This rpoS mutant will be useful for studying regulation of gene expression in response to changing environmental conditions.

Membrane protein variations associated with in vitro passage of Borrelia burgdorferi

Borrelia burgdorferi, the causative agent of Lyme disease, undergoes a loss in virulence with repeated passage in vitro. Defining the changes which occur after conversion to avirulence may assist in identifying virulence factors and mechanisms of pathogenesis. We have used a cross-adsorption technique and two-dimensional nonequilibrium pH gradient electrophoresis to compare virulent (low-passage) and avirulent (high-passage) variants of B. Burgdorferi B31. Using cross-adsorbed rabbit sera to probe immunoblots, we identified 10 low-passage-associated proteins (relative molecular masses of 78, 58, 49, 34, 33, 28, 24, 20, and 16 kDa) unique to the virulent strain B31. Cross-adsorbed human serum detected five proteins of similar sizes (78, 58, 34, 28, and 20 kDa), suggesting that several of of these proteins were expressed during human infection. By probing inner and outer membranes, two proteins (58 and 33 kDa) that localized specifically to the outer membrane were observed. An additional low-passage-associated protein (28 kDa) was identified when outer membranes from low- and high-pressure variants of strain B31 were compared by two-dimensional nonequilibrium pH gradient electrophoresis.

Isolation and Characterization of Rat Liver Mitochondrial Ribosomes

A procedure has been developed that allows characterization of mitochondrial ribosomes and quantitative analysis of the relative composition of constitutive ribosomal proteins. Purified mitochondrial ribosomes were isolated from two rat livers and shown to be active in catalyzing the polymerization of phenylalanine. They differ in sedimentation and spectral properties from cytoplasmic ribosomes isolated from the same livers. The number and relative composition of proteins present in active rat liver mitochondrial ribosomes were investigated using two-dimensional nonequilibrium pH gradient electrophoresis. There were 86 proteins found associated with mitochondrial ribosomes in contrast to 70 proteins found associated with cytoplasmic ribosomes. Comparison of electrophoretic patterns revealed that cytoplasmic ribosomal proteins were considerably more basic than their mitochondrial counterparts. Densitometry demonstrated that the relative changes in the concentrations of these proteins can be measured quantitatively. These procedures, developed for use with two rat livers, allow the rat to be used as an efficient model for further studies into disease states of mitochondrial translation.

Phosphorylation, calpain proteolysis and tubulin binding of recombinant human tau isoforms

In this study, the phosphorylation, calpain hydrolysis and tubulin binding of three recombinant human tau isoforms were examined. The three isoforms used in these studies were tau with three (T3) or four (T4) tandemly repeated tubulin binding domains located in the carboxy-terminal half of the molecule; and tau with four-tandem repeats and a 58-amino acid insert in the amino terminus (T4L). Both cAMP-dependent protein kinase (cAMP-PK) and Ca 2+ / calmodulin-dependent protein kinase II (CaMKII) readily phosphorylated the three human tau isoforms, although cAMP-PK phosphorylated them to a significantly greater extent than CaMKII. Phosphorylation of T3, T4 and T4L by cAMP-PK or CaMKII resulted in the slowed migration of the protein bands on sodium dodecyl sulfate-polyacrylamide gels and a shift of the isoelectric variants to more acidic positions on two-dimensional non-equilibrium pH gradient electrophoresis gels compared with controls. However, the phosphorylation-induced changes in the electrophoretic migration of the tau isoforms were unique for each kinase. Two-dimensional phosphopeptide maps and sequential phosphorylation experiments indicate that cAMP-PK phosphorylates sites in the human tau isoforms that are phosphorylated by CaMKII, as well as unique sites that are not phosphorylated by CaMKII. T3, T4 and T4L were hydrolyzed similarly by calpain; however, the calpain proteolysis of the recombinant tau isoforms was significantly faster than the proteolysis of human or bovine tau. Phosphorylation of the isoforms by either cAMP-PK or CaMKII did not alter the rate or extent of calpain proteolysis. Phosphorylation of T3, T4 and T4L by cAMP-PK decreased isoform-tubulin binding compared to controls, however only the results with T3 were statistically significant.

Mitochondrial creatine kinase from cardiac muscle and brain are two distinct isoenzymes but both form octameric molecules.

Mitochondrial creatine kinase (Mi-CK) from chicken cardiac muscle and brain, recently shown to differ in their N-terminal amino acid sequences and to be encoded by multiple mRNAs (Hossle, H.P., Schlegel, J., Wegmann, G., Wyss, M., Böhlen, P., Eppenberger, H. M., Wallimann, T., and Perriard, J.C. (1988) Biochim. Biophys. Res. Commun. 151, 408-416) were separated on two-dimensional nonequilibrium pH-gradient electrophoresis gels and visualized as two distinct protein spots by immunoblotting. Analysis of the two proteins purified by specific elution from Blue-Sepharose with ADP (Wallimann, T., Zurbriggen, B., and Eppenberger, H. M. (1985) Enzyme 33, 226-231) followed by fast protein liquid chromatography cation exchange chromatography showed obvious differences in peptide maps, in immunological cross-reactivity with monoclonal antibodies, and in kinetic parameters. However, even though the two proteins were different, tissue-specific mitochondrial isoforms, both formed regularly-sized, perforated cube-like octameric structures with Mr of 364,000 +/- 25,000 and 352,000 +/- 20,000 for the cardiac and brain isoform, respectively. Electron microscopy of cardiac and brain Mi-CK octamers revealed cube-like molecules with a central cavity or transverse channel filled by negative stain. The octameric molecular structure of Mi-CK isoforms differs from the generally accepted dimeric arrangement of "cytosolic" muscle MM- and brain BB-CK.

Antibody specificity of human glomerular basement membrane type IV collagen NC1 subunits. Species variation in subunit composition.

NC1 subunits were purified from gel filtration pools of acid-extracted, collagenase-digested human glomerular basement membranes (hGBM). This methodology, which enriches 28-kDa monomers (M28) in the total digest, allowed purification of these monomers and 24-kDa (M24) and 26-kDa (M26) monomers free from dimers. Reactivity of these subunits with Goodpasture autoantibodies using immunoblotting of sodium dodecyl sulfate-polyacrylamide gel electrophoresis and two-dimensional nonequilibrium pH gradient electrophoresis gels showed strong reactivity with the purified M28 subunits. Inhibition enzyme-linked immunosorbent assay, used to quantitate the reactivity of the purified NC1 subunits, indicated that M28 had a greater than 10-fold increase in ability to inhibit binding to NC1 than NC1 itself. Comparison of hGBM NC1 components were made with those obtained from collagenase digests of salt and acid-extracted bovine and sheep GBM and Englebreth-Holm-Swarm tumor similarly purified by gel filtration and reverse-phase high performance liquid chromatography. Two-dimensional gel analysis of these NC1 isolates revealed absence of the very cationic M28 monomers. Reactivity with antibodies eluted from diseased kidneys of sheep immunized with hGBM (Steblay nephritis) was compared with Goodpasture autoantibody reactivity by immunoblotting two-dimensional gels of hGBM NC1. We conclude that a very cationic M28 monomer (M28 ) found only in hGBM is the probable target in Goodpasture syndrome, that the epitope is present on most NC1 components from extracted and unextracted hGBM, and is exposed by urea denaturation which is enhanced by acid treatment. A weakly cationic M28 monomer (M28+) is present in GBM from other species and is the probable target in Steblay nephritis. Differential recognition of the two M28 components by these antibodies points to different genetic origins or possibly distinct post-translational modifications for these components. This is supported by their presence or absence in different species and tissues, as well as biochemical differences from the M24/26 monomers which presumably are derived from alpha 1(IV) and alpha 2(IV) collagen chains.

Biochemical and functional similarities between human eosinophil-derived neurotoxin and eosinophil cationic protein: homology with ribonuclease.

Eosinophil-derived neurotoxin (EDN) and eosinophil cationic protein (ECP) were isolated from lysates of human eosinophil granules by gel filtration and ion exchange chromatography on heparin-Sepharose. Radioimmunoassay, using monoclonal antibodies, of fractions from the heparin-Sepharose chromatography showed one peak of EDN activity and two peaks of ECP activity (termed ECP-1 and ECP-2). EDN, ECP-1, and ECP-2 each exhibited heterogeneity in charge and molecular weight when analyzed by two-dimensional nonequilibrium pH gradient electrophoresis and NaDodSO4/PAGE. Digestion of EDN with endoglycosidase F (endo F) decreased its molecular weight and charge heterogeneity. Thus, END likely contains a single complex oligosaccharide. Endo F digestion of ECP-1 and ECP-2 decreased the molecular weight of both polypeptides, indicating that both likely contain at least one complex oligosaccharide. Amino acid sequence analyses showed that ECP-1 and ECP-2 are identical from residue 1 through residue 59 and that the sequences of EDN and ECP are highly homologous (37 of 55 residues identical). Both EDN and ECP NH2-terminal sequences showed significant homology to RNase, especially in regions of the RNase molecule involved in ligand binding. EDN, ECP-1, and ECP-2 had neurotoxic activity, causing the Gordon phenomenon at doses down to 0.15 micrograms when injected into the cisterna magna; the proteins were comparable in their activities. These results indicate that EDN and ECP are related proteins and suggest that they derived from genes associated with the RNase family.

Identification and antigenic characterization of virulence-associated, plasmid-coded proteins of Shigella spp. and enteroinvasive Escherichia coli.

Seven plasmid-coded polypeptides, designated a through g, were identified by two-dimensional nonequilibrium pH gradient electrophoresis of radiolabeled extracts from minicells of virulent Shigella flexneri serotypes 2a and 5 and enteroinvasive Escherichia coli O143. These polypeptides were deemed to be products of 140-megadalton (MDa) virulence-associated plasmids because they were not synthesized in minicells which were not harboring a 140-MDa plasmid or in minicells which were carrying an F lac plasmid of the same incompatibility group. Synthesis of these polypeptides was repressed in minicells incubated at 30 degrees C and in minicells isolated from a noninvasive opaque colonial variant, even though these strains harbored a 140-MDa plasmid. Enriched fractions of polypeptides b, c, and d were obtained from S. flexneri serotype 5 by preparative isoelectric focusing, and polyclonal rabbit antisera recognizing each polypeptide were raised. These antisera were able to detect cross-reacting plasmid-coded polypeptide antigens in S. flexneri serotype 3, Shigella sonnei, and enteroinvasive E. coli O143. In addition, Western blots of minicell extracts from S. flexneri serotype 5 or E. coli O143 indicated that plasmid-coded polypeptides a through d were recognized by convalescent antiserum from a monkey infected with S. flexneri serotype 2a.

Characterisation of size variants of type I DNA topoisomerase isolated from calf thymus.

Calf thymus DNA topoisomerase I, which belongs to the eukaryotic type I topoisomerases, is in a typical preparation purified as a set of five major polypeptides with Mr between 70000 and 100000. At least four of these proteins have binding affinity for DNA as was shown by incubating them with radioactive single-stranded DNA after separation in dodecylsulfate polyacrylamide gels and blotting onto nitrocellulose filters. That these polypeptides have DNA relaxing activity was directly demonstrated with protein extracted from single bands of dodecylsulfate/polyacrylamide gels. We consider the 100000-Mr protein to be the native enzyme. The smaller components are catalytically active fragments of the native topoisomerase most probably arising from limited proteolysis either within the nucleus or during the purification of the enzyme. In two-dimensional non-equilibrium pH-gradient electrophoresis gels the topoisomerase size variants exhibit apparent pI values between 8.1 and 8.3, with small but distinct differences between the components. The calf thymus topoisomerase I, upon binding to phage fd-DNA, protects a stretch of 15-25 nucleotides against digestion with DNase I.

Gene expression in flow sorted mouse teratocarcinoma X human fibroblast heterokaryons

Mouse teratocarcinoma cells and primary human fibroblasts were fluorescently labelled with fluorescein isothiocyanate (F1TC)- and trimethylrhodamine isothiocyanate (TR1TC)-stearylamine respectively. After fusion populations highly enriched for red-green heterokaryons (around 80%) were isolated from the fusion mixture using a FACS II cell sorter. To study gene expression in the early hybrids [ 35S] methionine-labelled proteins synthesized by the sorted cells at two and three days after fusion were analysed by two-dimensional gel electrophoresis. Three spots were denser in gels of the fused cells than in those of 1:1 mixtures of parental cells. For one of these proteins it could be demonstrated that this reflects the enhanced synthesis of a mouse-specific protein present only in small amounts in teratocarcinoma cells. All three proteins were synthesized in relatively large amounts by differentiated mouse cells. Collagen (type I) synthesis by the sorted hybrid cells was studied by analysing the [ 3H] proline-labelled material secreted into the medium. Analysis by sodium dodecyl sulphate (SDS)-gel electrophoresis and two-dimensional non-equilibrium pH gradient electrophoresis showed that the material secreted by the fused cells five days after fusion was the same as that secreted by the human fibroblasts. No evidence was obtained for synthesis of mouse α2(I) collagen. The amount of collagen produced by the sorted cells five days after fusion was about half the amount produced by the human fibroblasts. Immunofluorescence studies also showed that collagen synthesis was not suppressed after fusion both in heterokaryons and synkaryons. In conclusion, we did not find evidence for activation of a previously completely silent mouse gene in the fused cells. The results show, however, that the fused cells do resemble the differentiated fibroblasts rather than the undifferentiated teratocarcinoma cells.

Lyt-2 glycoprotein is synthesized as a single molecular species.

We investigated the possibility that the Lyt-2 molecules made by uncloned mouse T lymphocytes would show variable primary structures like those of immunoglobulins. Newly synthesized Lyt-2/3 complexes were found to include only two major components, both discrete glycoproteins with apparent molecular weights of 31,000 (31 K) and 35,000 (35 K). When products of Lyt-2.1 and Lyt-2.2 thymocytes were compared by two-dimensional nonequilibrium pH gradient electrophoresis and sodium dodecyl sulfate polyacrylamide gel electrophoresis, the isoelectric points of the 35 K molecules were different; thus, the 35 K component was likely to be encoded by the Lyt-2 locus itself. However, the 35 K molecules made by any one genotype were homogeneous in charge as well as in size. The homogeneity was obscured rapidly by post-translational modification. Most strikingly, within 30 min of initial synthesis, these processing events generated the conspicuous array of microheterogeneous products that form the "38 K" component of cell-surface Lyt-2/3.

Differential synthesis of spore coat proteins in prespore and prestalk cells of Dictyostelium.

The major spore coat proteins (SP60, SP70, and SP96) of Dictyostelium discoideum have been analyzed by using two-dimensional nonequilibrium pH gradient electrophoresis. These proteins have been characterized with respect to electrophoretic behavior, metachromatic staining with silver, and posttranslational modifications; these techniques allow unambiguous identification of these proteins in silver-stained gels and autofluorograms of total cell extracts. They are synthesized by cells in the prespore region of migrating slugs, ultimately becoming major components of mature spores, but are not detectable either in cells in the prestalk region of slugs or in mature stalk cells. The ease with which these relatively abundant proteins can be recognized on two-dimensional gels makes them very useful markers for spatial and temporal differentiation in this organism.

Identification of some bacteriophage T4 prereplicative proteins on two-dimensional gel proteins.

Profiles of bacteriophage T4 early proteins resolved by a two-dimensional nonequilibrium pH gradient electrophoresis system (P. Z. O'Farrell, H. M. Goodman, and P. H. O'Farrell, Cell 12:1133--1142, 1977) are presented. Over 65 phage-induced proteins were resolved. Amber or deletion mutants were used to identify 17 proteins in the gel patterns as the products of specific genes.

Demonstration of two distinct light chains in HLA-DR-associated antigens by two-dimensional gel electrophoresis.

The polypeptide composition of HLA-DR-associated antigens was analyzed by two-dimensional nonequilibrium pH gradient electrophoresis (NEPHGE)/sodium dodecyl sulfate (SDS)-polyacrylamide gel electrophoresis (PAGE). Glycoprotein fractions from B lymphoblastoid cell lines homozygous for the DR antigen were used as antigen source. The HLA-DR-associated antigens were isolated by immunoprecipitation using a monoclonal anti-DR antibody, TDR31.1. Two polypeptides corresponding in molecular weight to the HLA-DR-associated antigen beta chain were detected. These polypeptides were shown to be different molecules on the basis of their separation on NEPHGE/SDS-PAGE analysis, their rates of turnover relative to the other polypeptides of the HLA-DR-associated antigens, and their noncoordinate alteration in position on NEPHGE/SDS-PAGE two-dimensional analysis of different cell lines. Of the two beta polypeptides, only one was invariant in position on NEPHGE/SDS-PAGE analyses of cell lines homozygous for the same DR specificity. It appears therefore that the position of one of these beta polypeptides correlates with DR specificity, while the other beta polypeptide exhibits positional variation on NEPHGE/SDS-PAGE analysis, indicative of polymorphism at a second HLA-DR-associated locus.