Intracellular Pathogenesis-related Proteins Research Articles

A cell-penetrating whole molecule antibody targeting intracellular HBx suppresses hepatitis B virus via TRIM21-dependent pathway.

Rationale: Monoclonal antibodies (mAbs) mostly targeting extracellular or cell surface molecules have been widely used in the treatment of various diseases. However, mAbs cannot pass through the cell membrane as efficiently as small compounds, thus limiting their use against intracellular targets. Methods to shuttle antibodies into living cells may largely expand research and application in areas based on mAbs. Hepatitis B virus X protein (HBx) is an important intracellular multi-functional viral protein in the life cycle of hepatitis B virus (HBV). HBx plays essential roles in virus infection and replication and is strongly associated with HBV-related carcinogenesis.Methods: In this study, we developed a cell-penetrating whole molecule antibody targeting HBx (9D11-Tat) by the fusion of a cell penetrating peptide (CPP) on the C-terminus of the heavy chain of a potent mAb specific to HBx (9D11). The anti-HBV effect and mechanism of 9D11-Tat were investigated in cell and mouse models mimicking chronic HBV infection.Results: Our results demonstrated that the recombinant 9D11-Tat antibody could efficiently internalize into living cells and significantly suppress viral transcription, replication, and protein production both in vitro and in vivo. Further analyses suggested the internalized 9D11-Tat antibody could greatly reduce intracellular HBx via Fc binding receptor TRIM21-mediated protein degradation. This process simultaneously stimulated the activations of NF-κB, AP-1, and IFN-β, which promoted an antiviral state of the host cell.Conclusion: In summary, our study offers a new approach to target intracellular pathogenesis-related protein by engineered cell-penetrating mAb expanding their potential for therapeutic applications. Moreover, the 9D11-Tat antibody may provide a novel therapeutic agent against human chronic HBV infection.

Analysis of bean (Phaseolus vulgaris L.) proteins affected by copper stress

The effect of excess copper on the expression of soluble proteins in 10-day old Phaseolus vulgaris seedlings was studied with two-dimensional electrophoresis and mass spectrometry, to find sensitive biochemical markers of exposure. Despite major differences in root Cu contents, both 15 and 50 microM Cu treatments resulted in equal enhancements of Cu in the primary leaves. Three proteins, apparently reacting in a dose-dependent manner to Cu exposure, were identified from roots. The levels of an intracellular pathogenesis-related protein and a newly identified protein homologous to PvPR1, PvPR2, were increased with increasing Cu concentration. The level of a newly identified PR-10 protein decreased in a dose-dependent manner. No significant difference was observed in the leaf protein pattern between controls and 15 microM Cu-treated plants. However, at 50 microM Cu exposure, the appearance of PvPR1 and a homologue of Arabidopsis thaliana thylakoid lumenal 17.4kDa protein was observed. Another protein slightly enhanced by Cu treatment had sequence homology to a mitochondrial precursor of glycine cleavage system H protein of Flaveria pringlei.

Knockout of UBP34 in Physcomitrella patens reveals the photoaffinity labeling of another closely related IPR protein

UBP34, a soluble 34 kDa protein identified in the moss Physcomitrella patens by photoaffinity labeling with an urea-type cytokinin agonist, belonging to the plant intracellular pathogenesis related (IPR) protein family. This class of proteins is ubiquitous in the plant kingdom but their functions are still unknown. Using a reverse genetic approach we generated knockout mutants at the UBP34 locus by homologous recombination. Knockout plants grown in various conditions do not present any visible phenotypic alteration. However, biochemical and molecular analysis of the knockout transformants reveal the specific photoaffinity labeling of another similar protein.

Knockout of UBP34 in Physcomitrella patens reveals the photoaffinity labeling of another closely related IPR protein

UBP34, a soluble 34 kDa protein identified in the moss Physcomitrella patens by photoaffinity labeling with an urea-type cytokinin agonist, belonging to the plant intracellular pathogenesis related (IPR) protein family. This class of proteins is ubiquitous in the plant kingdom but their functions are still unknown. Using a reverse genetic approach we generated knockout mutants at the UBP34 locus by homologous recombination. Knockout plants grown in various conditions do not present any visible phenotypic alteration. However, biochemical and molecular analysis of the knockout transformants reveal the specific photoaffinity labeling of another similar protein.

MdAP, a novel protein in apple, is associated with the major allergen Mal d 1

Mal d 1, an 18-kDa intracellular pathogenesis-related protein (PR-10), has been known since long as the major apple allergen in Middle and Northern Europe. However, its biological function, as that of many other PR-10 proteins, is still unknown. In order to identify proteins putatively interacting with Mal d 1, an expression library of Malus domestica was screened using the yeast-two-hybrid (Y2H) system. A novel protein binding to two isoforms of Mal d 1 being used as ‘bait’ was isolated. The deduced amino acid sequence from the corresponding full-length cDNA of the predicted Mal d 1- Associated- Protein (MdAP) do not display any homology to known proteins, but shares 45% identity with a ‘hypothetical protein’ in Arabidopsis thaliana. Southern analysis of the apple genome indicated that MdAP, comprising 190 amino acids, is encoded by a single gene. The expression pattern of the 1-kb MdAP transcript resembled the expression profile of the different Mal d 1 isoforms in various apple organs, however at a much lower level. Furthermore, a huge variation in transcription levels of Mal d 1 isoforms was observed in apple tissue. For both, Mal d 1 and MdAP highest amounts of mRNAs were measured in ripe fruits and significantly lower amounts in vegetative tissue by quantitative reverse transcription–polymerase chain reaction (RT-PCR).

Ocatin. A novel tuber storage protein from the andean tuber crop oca with antibacterial and antifungal activities.

The most abundant soluble tuber protein from the Andean crop oca (Oxalis tuberosa Mol.), named ocatin, has been purified and characterized. Ocatin accounts for 40% to 60% of the total soluble oca tuber proteins, has an apparent molecular mass of 18 kD and an isoelectric point of 4.8. This protein appears to be found only in tubers and is accumulated only within the cells of the pith and peridermis layers (peel) of the tuber as it develops. Ocatin inhibits the growth of several phytopathogenic bacteria (Agrobacterium tumefaciens, Agrobacterium radiobacter, Serratia marcescens, and Pseudomonas aureofaciens) and fungi (Phytophthora cinnamomi, Fusarium oxysporum, Rhizoctonia solani, and Nectria hematococcus). Ocatin displays substantial amino acid sequence similarity with a widely distributed group of intracellular pathogenesis-related proteins with a hitherto unknown biological function. Our results showed that ocatin serves as a storage protein, has antimicrobial properties, and belongs to the Betv 1/PR-10/MLP protein family. Our findings suggest that an ancient scaffolding protein was recruited in the oca tuber to serve a storage function and that proteins from the Betv 1/PR-10/MLP family might play a role in natural resistance to pathogens.

Light-dependent induction of OsPR10 in rice ( Oryza sativa L.) seedlings by the global stress signaling molecule jasmonic acid and protein phosphatase 2A inhibitors

The OsPR10 gene was first shown to be weakly induced only 3 days after treatment with a herbicide, probenazole (N. Midoh, M. Iwata, Cloning and characterization of a probenazole-inducible gene for an intracellular pathogenesis-related protein in rice, Plant Cell Physiol. 37 (1996) 9–18), and remains uncharacterized till date. We provide first evidence for the induction of OsPR10 by the global signaling molecule, jasmonic acid (JA), and two protein phosphatase (PP) 2A inhibitors, cantharidin (CN) and endothall (EN). These inductions were light- and time-dependent, and also specific to the dose of applied JA, CN and EN. OsPR10 was not responsive to cut, and was expressed mainly in leaves and leaf sheaths, but not in roots. Furthermore, OsPR10 induction was blocked completely by cycloheximide, indicating requirement of de novo protein synthesis in its induction. Two signal transducers, salicylic acid (SA) and abscisic acid (ABA) induced OsPR10, and a cytokinin, kinetin (KN) also strongly up-regulated its expression, under light. Simultaneously applied staurosporine, a serine/threonine protein kinase inhibitor, strongly enhanced the JA inducible OsPR10 expression. The inducible nature of OsPR10 was affected significantly by a combination of applied JA, with varying concentrations of SA, ABA and KN. Induction of OsPR10 was followed by the appearance of necrotic lesions/coalescing necrotic regions clearly visible at 48 h under light, with CN and EN, but not with JA at a similar time period. Finally, using two-dimensional polyacrylamide gel electrophoresis, we identified a new member of the OsPR10 protein family, the OsPR10-3 protein. This represents the first systematic report in rice demonstrating that the inducible OsPR10 expression is light dependent, and may be regulated via a kinase-signaling cascade.

Photoaffinity labelling with the cytokinin agonist azido-CPPU of a 34 kDa peptide of the intracellular pathogenesis-related protein family in the moss Physcomitrella patens.

As in higher plants, the development of the moss Physcomitrella patens is regulated by environmental signals and phytohormones. At the protonema level transition from chloronema to caulonema cells is under auxin control. The formation on second sub-apical caulonema cells of buds that will give rise to the leafy gametophore requires cytokinins. Using [3H]azidoCPPU (1-(2-azido-6-chloropyrid-4-yl)-3-(4-[3H])phenylurea), a photoactivatable cytokinin agonist, we have specifically photolabelled a soluble 34 kDa protein of P. patens. Urea derivatives were very efficient competitors of photolabelling while purine-type cytokinins were poor competitors. The protein UBP34 was purified by affinity chromatography and the sequences of six internal peptides obtained. A cDNA encoding UBP34 was cloned by screening a P. patens protonema cDNA library with a probe amplified by PCR using degenerate primers designed from the peptide sequences. The UBP34 amino acid sequence shows an average sequence identity of 42% with both intracellular PR proteins and the BetV1-related family of plant allergens. Recombinant UBP34 expressed in Escherichia coli was confirmed to bind azidoCPPU.

Cloning and characterization of an 18 kiloDalton protein in the roots of the perennial weed Taraxacum officinale Weber (Dandelion) which has allergen- and pathogenesis-related protein properties

The root of the persistent weed, dandelion (Taraxacum officinale Weber), contains a predominant 18 kDa protein which undergoes small seasonal fluctuations in amount, increasing in the late autumn months, and declining in the spring. This protein has been purified and found to consist of two major isoforms of pI 5·56 and pI 5·49. A full-length cDNA has been obtained, coding for the pI 5·56 isoform, and the 156-amino-acid sequence deduced. The protein shows homologies in amino acid composition to several allergen and intracellular pathogenesis-related proteins. The deduced protein does not contain a signal peptide nor any known organelle-targeting sequences, and thus is likely to be cytosolic. Expression of the 18 kDa protein gene is exclusive to the roots and stem tissues; transcripts accumulate during the late autumn months, and decline in the early spring. Changes in the amount of protein in the root are much less. The mRNA for the 18 kDa protein is not present in the dry seed, but appears in the roots within 16–18 h from the start of imbibition, and is expressed constitutively thereafter. Although it is the predominant protein in dandelion roots, its properties are different from those commonly associated with vegetative storage proteins.

Characterization of Pin m III cDNA in western white pine.

Maximum accumulation of Pin m III protein in western white pine (Pinus monticola Dougl. ex D. Don) needles occurred during the winter months. To characterize Pin m III, an expression cDNA library from poly(A)+ mRNA of needles was immunoscreened and the full length cDNA was cloned. An open reading frame of 486 bases encodes a protein of 161 amino acid residues with a molecular mass of 18 kD and a predicted isoelectric point of 5.5. The deduced amino acid sequence had some similarities (37%) with an intracellular pathogenesis-related (PR) protein from garden asparagus (Asparagus officinalis L.) and the major pollen allergen from white birch (Betula verrucosa J. F. Ehrh.), which are members of the ribonuclease-like PR-10 family. Phylogenetic analysis provided circumstantial evidence that Pin m III may be grouped with intracellular PRs from asparagus and potato (Solanum tuberosum L.), while the allergens formed another subgroup. Northern analysis showed that the Pin m III gene was preferentially expressed during cold acclimation with the highest expression in the fall and winter months, preceding the peak of Pin m III protein accumulation. Tissue specificity expression analysis indicated that the gene was strongly expressed in roots and twigs. Higher amounts of the homologous protein (Pin l I) and its transcript accumulated in sugar pine (Pinus lambertiana Dougl.) needles infected with blister rust compared with healthy needles.

Induced defence responses limit Hartig net formation in ectomycorrhizal birch roots.

Roots of clonal birches (Betula pendula) were inoculated with the ectomycorrhizal fungi Paxillus involutus (isolates P0 and Mi) and Hebeloma cylindrosporum (strains D1 and D105). These fungi showed different rates of mycorrhiza formation in vitro. Mature mycorrhizas were obtained after only 2-4 d with H. cylindrosporum, whereas 6-8 d were necessary with P. involutus isolate P0, and P. involutus isolate Mi was not able to form mature mycorrhiza during the 10 d of the experiment. Temporal changes in PAL activity and the expression of genes encoding intracellular pathogenesis-related proteins were followed after inoculating birch roots with these fungi. Transient increase of PAL activity, and transient induction of expression of the wound-inducible Bet v1-SC1 gene, were observed in roots challenged with both H. cylindrosporum strains and the P. involutus isolate P0. These changes were found to coincide with hyphal penetration between root cells during Hartig net formation, and were never observed in roots inoculated with the poorly aggressive P. involutus isolate Mi. Examination of mycorrhizal root sections under u.v. light indicated the presence of phenolic compounds in the host cell walls at the vicinity of the Hartig net. These results strongly suggest that hyphal penetration between the root cells triggers a transient defence response which, in turn, could limit Hartig net formation to the outer layer of the root cortex.

CDNA cloning of a sorghum pathogenesis-related protein (PR-10) and differential expression of defense-related genes following inoculation with Cochliobolus heterostrophus or Colletotrichum sublineolum.

A sorghum cDNA clone was isolated by differential screening of a cDNA library prepared from mesocotyls (cultivar DK18) inoculated with fungal pathogenes. The deduced translation product shows sequence similarity to a family of intracellular pathogenesis-related proteins (PR-10) with a potential ribonuclease function. We studied the accumulation of PR-10 and chalcone synthase (CHS) transcripts in mesocotyls following inoculation with Cochliobolus heterostrophus or Colletotrichum sublineolum. CHS is involved in phytoalexin synthesis in sorghum. Coordinate expression of PR-10 and CHS genes was localized in the area of inoculation along with the accumulation of phytoalexins. C. heterostrophus is a nonpathogen of sorghum and cytological studies indicated that cultivar DK18 is resistant to C. sublineolum, a sorghum pathogen. We demonstrated that the two fungi triggered different time courses of plant defense reactions. Inoculation with C. heterostrophus resulted in rapid accumulation of PR-10 and CHS transcripts after appressoria had become mature. Accumulation of these transcripts was delayed in plants inoculated with C. sublineolum until penetration of host tissue had been completed and infection vesicles had formed. Results suggest that different recognition events are involved in the expression of resistance to the two fungi used or that C. sublineolum suppresses the nonspecific induction of defense responses.

Characterization of two subclasses of PR-10 transcripts in lily anthers and induction of their genes through separate signal transduction pathways.

The lily PR-10 belongs to a family of intracellular pathogenesis-related (IPR) proteins. Genomic Southern analysis indicates that the PR-10 is encoded by a family of multiple genes. Seven heterogeneous cDNA clones encoding lily PR-10 from Lilium longiflorum are divided into two subclasses based on sequence comparison and Southern hybridization. A 82% overall sequence similarity was found between the two subclasses (represented by PR-10c and d). The two cDNAs include an open reading frame of 474 bp encoding 157 amino acids. 5'- and 3'-untranslated regions exhibit low similarity, but similarity is high in the coding region. The lily PR-10 genes are induced by abscisic acid (ABA) and methyl jasmonate (MeJA) in the anther and various other organs of lily plants. The induction of PR-10 genes by ABA and MeJA in lily anthers occurs by two separate signal transduction pathways. The protein phosphatase inhibitor okadaic acid inhibits the MeJA-induced expression of PR-10 genes downstream of MeJA. In addition, the protein kinase inhibitor staurosporine inhibits the MeJA-induced expression of PR-10 genes, implying that an activity of staurosporine-sensitive protein kinases exists downstream of MeJA in the anther. However, okadaic acid does not inhibit the ABA-induced expression of PR-10 genes whereas staurosporine does. These observations suggest that, in addition to the known pathway that ABA induces gene expression by activating JA or MeJA, a MeJA-independent pathway of ABA induction exists in the anther. The alternative pathway of ABA induction involves a staurosporine-sensitive protein kinase activity downstream of ABA.

Molecular characterization of a cytokinin-inducible periwinkle protein showing sequence homology with pathogenesis-related proteins and the Bet v 1 allergen family.

Cytokinin treatment of periwinkle callus cultures increased the accumulation of a protein, designated T1, in two-dimensional separated protein extracts. The first 30 NH2-terminal amino acids were determined by Edman degradation and showed significant sequence homology with intracellular pathogenesis-related (IPR) plant proteins and the Bet v 1 allergen family. The deduced amino acid sequence of cDNAs coding for T1, isolated by RT-PCR and 5' RACE-PCR, exhibited an average sequence identity of 40% with both IPR and Bet v 1-related allergens. T1 and all related proteins contained a p-loop motif typically found in nucleotide-binding proteins as the most conserved sequence feature. Northern blot analysis showed that cytokinin treatment of periwinkle callus induced T1 transcripts, whereas addition of 2,4-dichlorophenoxyacetic acid inhibited this accumulation. Hybridization of genomic periwinkle DNA with the T1 cDNA suggested that the protein is encoded by a single-copy gene. Immunoblot studies with a panel of Bet v 1-specific antibodies and sera from Bet v 1 allergic individuals identified T1 as a protein that is immunologically distinct from the Bet v 1 allergen family and has no allergenic properties.

Two members of the Bet v 1 gene family encoding birch pathogenesis-related proteins display different patterns of root expression and wound-inducibility

Bet v 1-SC genes constitute a subset of a multigene family in birch (Betula pendula Roth) that includes the gene for the major pollen allergen and encode proteins belonging to a new family of intracellular pathogenesis-related proteins. We have investigated the expression in birch roots of the Bet v 1-SC1 and Bet v 1-SC3 genes by northern and reverse-transcription-polymerase chain reaction analyses. Only Bet v 1-SC3 was found to be highly expressed in roots under basal conditions but this gene was not wound-inducible. Conversely the expression of the Bet v 1-SC1 gene was markedly transiently induced 8 to 9 h after the stress. Immunoblotting with polyclonal antiserum raised against the major birch pollen allergen confirmed that Bet v 1-related polypeptides are present in root extracts. This first report of Bet v 1-SC gene expression and wound-inducibility in birch roots suggests a possible function of proteins encoded by these genes in plant defense and/or root organogenesis.

Primary structures of two ribonucleases from ginseng calluses: New members of the PR-10 family of intracellular pathogenesis-related plant proteins

The amino acid sequences of two ribonucleases from a callus cell culture of Panax ginseng were determined. The two sequences differ at 26% of the amino acid positions. Homology was found with a large family of intracellular pathogenesis-related proteins, food allergens and tree pollen allergens from both dicotyledonous and monocotyledonous plant species. There is about 30% sequence difference with proteins from species belonging to the same plant order ( Apiales: parsley and celery), 60% with those from four other dicotyledonous plant orders and about 70% from that of the monocotyledonous asparagus. More thorough evolutionary analyses of sequences lead to the conclusion that the general biological function of members of this protein family may be closely related to the ability to cleave intracellular RNA and that they have an important role in cell metabolism. As the three-dimensional structure of one of the members of this protein family has been determined recently [Gajhede et al., Nature Struct Biol 3 (1996) 1040–1045], it may be possible to assign active-site residues in the enzyme molecule and make hypotheses about its mode of action. Structural features in addition to the cellular site of biosynthesis indicate that this family of ribonucleases is very different from previously investigated ones.

A major root protein of carrots with high homology to intracellular pathogenesis-related (PR) proteins and pollen allergens.

We isolated the cDNA clone coding for a major root specific protein (CR16) of carrots. The CR16 protein (154a.a.) has a high homology to intracellular pathogenesis-related (PR) proteins, stress-induced proteins and also the major allergen protein of celery (Api g1). The CR16 protein gene formed a super gene family and transcripts of this CR16 protein gene are predominant in root tissue, not in leaves or flowers.

Characterization of a lily tapetal transcript that shares sequence similarity with a class of intracellular pathogenesis-related (IPR) proteins.

This study addresses isolating and characterizing a cDNA clone corresponding to a tapetum-specific transcript, designated as PR-10a from Lilium longiflorum. Anther ontogeny is histologically divided into three consecutive phases. The first encompasses early proliferative stages and differentiation of the locules. The second concerns microspore development from the onset of meiosis through microspore maturation. The final phase involves pollen maturation, originating with microspore mitosis through pollen formation. The lily PR-10a transcript is anther-specific and temporally expressed only at the phase of microspore development during which the tapetal cells become polarized, highly secretory, and exhibit loss of cell walls. The maximal level of PR-10a transcript coincides strictly with the peak of tapetal secretory function. Comparing mRNA and cDNA insert sizes reveals that PR-10a is close to full-length. Sequence analysis demonstrates similarity between the predicted lily PR-10a and asparagus AoPR1 protein, potato pSTH2 and pSTH21 proteins, parsley PcPR1 and PcPR3 proteins, bean PvPR1 and PvPR2 proteins, lupin L1R18B protein, pea 149 protein and a family of major allergens including Cor a 1 of hazel, Car b 1 of hornbeam, Aln g 1 of alder, Bet v 1 of birch and Api g 1 of celery. To the authors' knowledge, this is the first reported organ/tissue-specific IPR protein.

The major birch pollen allergen, Bet v 1, shows ribonuclease activity.

The major birch (Betula alba L.) pollen allergen, Bet v 1, has been shown to be homologous to pathogenesis-related proteins in a number of plants. Recently, it was demonstrated that a ginseng protein with high homology to an intracellular pathogenesis-related protein of parsley and to Bet v 1 is a ribonuclease (RNase). Birch pollen extract was separated in an RNase activity gel. Four major RNase bands were excised from the gel, reseparated by sodium dodecyl sulfate-polyacrylamide gel electrophoresis and identified by Western blotting with a specific Bet v 1 monoclonal antibody and patient's serum. Thus the monomer and the dimer of Bet v 1 showed RNase activity. Purified recombinant Bet v 1 was shown to degrade plant RNA. The RNase activity of recombinant Bet v 1 was 180 units.mg-1.

High sequence similarity between a ribonuclease from ginseng calluses and fungus-elicited proteins from parsley indicates that intracellular pathogenesis-related proteins are ribonucleases.

A ribonuclease from a callus cell culture of Panax ginseng C.A. Mey strain R1 was isolated. A pure protein with an apparent molecular mass of 18 kDa was obtained. The N-terminal sequences of the protein and of the C-terminal CNBr peptide were determined. No homology with other ribonucleases was found, but there was 60-70% sequence identity with two intracellular pathogenesis-related (IPR) proteins from parsley, indicating that not only these two proteins, but also homologous IPR proteins identified in other plant species are ribonucleases.