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1.
Bioengineering (Basel) ; 10(2)2023 Jan 17.
Article in English | MEDLINE | ID: mdl-36829616

ABSTRACT

Antibody fragments are used in the clinic as important therapeutic proteins for treatment of indications where better tissue penetration and less immunogenic molecules are needed. Several expression platforms have been employed for the production of these recombinant proteins, from which E. coli and CHO cell-based systems have emerged as the most promising hosts for higher expression. Because antibody fragments such as Fabs and scFvs are smaller than traditional antibody structures and do not require specific patterns of glycosylation decoration for therapeutic efficacy, it is possible to express them in systems with reduced post-translational modification capacity and high expression yield, for example, in plant and insect cell-based systems. In this review, we describe different bioengineering technologies along with their opportunities and difficulties to manufacture antibody fragments with consideration of stability, efficacy and safety for humans. There is still potential for a new production technology with a view of being simple, fast and cost-effective while maintaining the stability and efficacy of biotherapeutic fragments.

2.
Drug Discov Today ; 26(1): 44-55, 2021 01.
Article in English | MEDLINE | ID: mdl-33137484

ABSTRACT

Intravitreally injected antibody-based medicines have revolutionised the treatment of retinal disease. Bispecific and dual-functional antibodies and therapeutic proteins have the potential to further increase the efficacy of intraocular medicines.


Subject(s)
Antibodies, Bispecific/pharmacology , Intravitreal Injections , Retinal Diseases , Angiogenesis Inhibitors/pharmacology , Anti-Inflammatory Agents/pharmacology , Biological Products/pharmacology , Drug Development , Humans , Retinal Diseases/drug therapy , Retinal Diseases/immunology , Retinal Diseases/physiopathology
3.
PLoS Negl Trop Dis ; 14(11): e0008842, 2020 11.
Article in English | MEDLINE | ID: mdl-33206649

ABSTRACT

Trichinella spiralis muscle stage larvae (mL1) produce excretory-secreted products (ESPs), a complex mixture of protein, which are believed to be important for establishing or maintaining an infection niche within skeletal muscle and the intestine. Studies of both whole ESPs and individual cloned proteins have shown that some ESPs are potent immunogens capable of eliciting protective immune responses. Here we describe two novel proteins, Secreted from Muscle stage Larvae SML-4 and SML-5 which are 15 kDa and 12 kDa respectively. The genes encoding these proteins are highly conserved within the Trichinellids, are constituents of mL1 ESP and localized in the parasite stichosome. While SML-5 is only expressed in mL1 and early stages of adult nematode development, SML-4 is a tyvosylated glycoprotein also produced by adult nematodes, indicating it may have a function in the enteral phase of the infection. Vaccination with these proteins resulted in an impaired establishment of adult stages and consequently a reduction in the burden of mL1 in BALB/c mice. This suggests that both proteins may be important for establishment of parasite infection of the intestine and are prophylactic vaccine candidates.


Subject(s)
Antibodies, Helminth/immunology , Antigens, Helminth/immunology , Helminth Proteins/immunology , Protozoan Vaccines/immunology , Trichinella spiralis/immunology , Trichinellosis/prevention & control , Animals , Female , Larva/immunology , Mice , Mice, Inbred BALB C , Muscles/parasitology , Rats , Rats, Sprague-Dawley , Th1 Cells/immunology , Th2 Cells/immunology , Trichinellosis/immunology , Vaccination , Vaccines, Synthetic/immunology
4.
Am J Environ Engineer ; 9(2): 36-54, 2019 Oct 01.
Article in English | MEDLINE | ID: mdl-32704436

ABSTRACT

Effective stream and wetland Best Management Practices (BMPs) restore the physical processes associated with ecological functions to their Proper Functioning Condition (PFC, i.e., the highest attainable ecological status of a riparian area without consideration of economic, administrative, or social constraints). Ecological functions connect stream monitoring and management to mitigate the causes of ecosystem degradation and enhance restoration. The ecological function approach supports sustainable management of many ecosystem services including water quality, water stability (aquifer recharge), and fish and wildlife habitats. The 1993 Forest Ecosystem Management Assessment Team (FEMAT) report listed the Dungeness River as a Tier 1 key watershed, noted that watersheds are the logical spatial unit for ecosystem management, and that watersheds are important in species management, and understanding the interdependence of physical processes. Watersheds are at the spatial scale where physical and biological disturbances can be observed, and where management constraints and planning options for restoration objectives and strategies can be readily assessed. The US Forest Service (USFS) developed a management strategy for the Middle Dungeness River, and in the 1990s, the Upper Dungeness River was listed as impaired due to sediment, which initiated a US Forest Service change to land management practices. The Lower Dungeness River and bay are listed as impaired due to fecal coliform contamination. Assessing and monitoring the drivers of ecosystem function (vegetation, hydrology, soil, and landform) as part of a watershed adaptive management plan, and implementing BMPs to increase ecological functions, will improve aquatic habitat and water quality. Most BMPs, such as Total Maximum Daily Loads (TMDLs), attempt to improve water quality by reducing the amount of external pollutants reaching the impacted waterbodies, but do not focus on improving the watershed functions. The Proper Functioning Condition (PFC) approach is used to examine the condition of wetlands and streams and provide guidance for quantitative approaches (e.g., TMDL, remote sensing) used in watershed restoration. Improving watershed functions is a BMP that facilitates increased flows of water, nutrients, sediment, and other materials, and improves habitat quality. Using improved watershed functions as a BMP, facilitated by the use of remote sensing, TMDLs, and the PFC methodology is a more effective means of reducing risks across a watershed than by using TMDLs alone.

5.
Arthritis Rheumatol ; 69(3): 610-621, 2017 03.
Article in English | MEDLINE | ID: mdl-27723268

ABSTRACT

OBJECTIVE: HLA-B27 is associated with the inflammatory spondyloarthritides (SpA), although subtypes HLA-B*27:06 and HLA-B*27:09 are not. These subtypes differ from the HLA-B*27:05 disease-associated allele primarily at residues 114 and 116 of the heavy chain, part of the F pocket of the antigen-binding groove. Dimerization of HLA-B27 during assembly has been implicated in disease onset. The purpose of this study was to investigate the factors that influence differences in dimerization between disease-associated and non-disease-associated HLA-B27 alleles. METHODS: HLA-B*27:05 and mutants resembling the HLA-B*27:06 and 09 subtypes were expressed in the rat C58 T cell line, the human CEM T cell line and its calnexin-deficient variant CEM.NKR. Immunoprecipitation, pulse-chase experiments, flow cytometry, and immunoblotting were performed to study the assembly kinetics, heavy-chain dimerization, and chaperone associations. RESULTS: By expressing HLA-B*27:05, 06-like, and 09 alleles on a restrictive rat transporter associated with antigen processing background, we demonstrate that a tyrosine expressed at p116, either alone or together with an aspartic acid residue at p114, inhibited HLA-B27 dimerization and increased the assembly rate. F-pocket residues altered the associations with chaperones of the early major histocompatibility complex class I folding pathway. Calnexin was demonstrated to participate in endoplasmic reticulum (ER) stress-mediated degradation of dimers, whereas the oxidoreductase ERp57 does not appear to influence dimerization. CONCLUSION: Residues within the F pocket of the peptide-binding groove, which differ between disease-associated and non-disease-associated HLA-B27 subtypes, can influence the assembly process and heavy-chain dimerization, events which have been linked to the initiation of disease pathogenesis.


Subject(s)
HLA-B27 Antigen/classification , HLA-B27 Antigen/genetics , Molecular Chaperones/physiology , Protein Folding , Protein Multimerization , Animals , Cell Line , Rats
6.
PLoS One ; 9(11): e112660, 2014.
Article in English | MEDLINE | ID: mdl-25391025

ABSTRACT

Recent studies have suggested the potential of probiotic organisms to be adapted for the synthesis and delivery of oral therapeutics. The probiotic yeast Saccharomyces boulardii would be especially well suited for this purpose due to its ability, in contrast to probiotic prokaryotes, to perform eukaryotic post translational modifications. This probiotic yeast thus has the potential to express a broad array of therapeutic proteins. Currently, however, use of wild type (WT) S. boulardii relies on antibiotic resistance for the selection of transformed yeast. Here we report the creation of auxotrophic mutant strains of S. boulardii that can be selected without antibiotics and demonstrate that these yeast can express functional recombinant protein even when recovered from gastrointestinal immune tissues in mice. A UV mutagenesis approach was employed to generate three uracil auxotrophic S. boulardii mutants that show a low rate of reversion to wild type growth. These mutants can express recombinant protein and are resistant in vitro to low pH, bile acid salts, and anaerobic conditions. Critically, oral gavage experiments using C57BL/6 mice demonstrate that mutant S. boulardii survive and are taken up into gastrointestinal immune tissues on a similar level as WT S. boulardii. Mutant yeast recovered from gastrointestinal immune tissues furthermore retain expression of functional recombinant protein. These data show that auxotrophic mutant S. boulardii can safely express recombinant protein without antibiotic selection and can deliver recombinant protein to gastrointestinal immune tissues. These auxotrophic mutants of S. boulardii pave the way for future experiments to test the ability of S. boulardii to deliver therapeutics and mediate protection against gastrointestinal disorders.


Subject(s)
Gastrointestinal Tract/microbiology , Probiotics/administration & dosage , Recombinant Proteins/metabolism , Saccharomyces/genetics , Animals , Gastrointestinal Tract/drug effects , Mice
7.
Arthritis Rheumatol ; 66(11): 2976-88, 2014 Nov.
Article in English | MEDLINE | ID: mdl-25132672

ABSTRACT

OBJECTIVE: HLA-B27 forms misfolded heavy chain dimers, which may predispose individuals to inflammatory arthritis by inducing endoplasmic reticulum (ER) stress and the unfolded protein response (UPR). This study was undertaken to define the role of the UPR-induced ER-associated degradation (ERAD) pathway in the disposal of HLA-B27 dimeric conformers. METHODS: HeLa cell lines expressing only 2 copies of a carboxy-terminally Sv5-tagged HLA-B27 were generated. The ER stress-induced protein ER degradation-enhancing α-mannosidase-like protein 1 (EDEM1) was overexpressed by transfection, and dimer levels were monitored by immunoblotting. EDEM1, the UPR-associated transcription factor X-box binding protein 1 (XBP-1), the E3 ubiquitin ligase hydroxymethylglutaryl-coenzyme A reductase degradation 1 (HRD1), and the degradation-associated proteins derlin 1 and derlin 2 were inhibited using either short hairpin RNA or dominant-negative mutants. The UPR-associated ERAD of HLA-B27 was confirmed using ER stress-inducing pharamacologic agents in kinetic and pulse chase assays. RESULTS: We demonstrated that UPR-induced machinery can target HLA-B27 dimers and that dimer formation can be controlled by alterations to expression levels of components of the UPR-induced ERAD pathway. HLA-B27 dimers and misfolded major histocompatibility complex class I monomeric molecules bound to EDEM1 were detected, and overexpression of EDEM1 led to inhibition of HLA-B27 dimer formation. EDEM1 inhibition resulted in up-regulation of HLA-B27 dimers, while UPR-induced ERAD of dimers was prevented in the absence of EDEM1. HLA-B27 dimer formation was also enhanced in the absence of XBP-1, HRD1, and derlins 1 and 2. CONCLUSION: The present findings indicate that the UPR ERAD pathway can dispose of HLA-B27 dimers, thus presenting a potential novel therapeutic target for modulation of HLA-B27-associated inflammatory disease.


Subject(s)
Endoplasmic Reticulum-Associated Degradation/physiology , Endoplasmic Reticulum/physiology , HLA-B27 Antigen/physiology , Membrane Proteins/physiology , Protein Folding , DNA-Binding Proteins/antagonists & inhibitors , DNA-Binding Proteins/drug effects , DNA-Binding Proteins/physiology , HeLa Cells , Humans , Membrane Proteins/antagonists & inhibitors , Membrane Proteins/drug effects , RNA, Small Interfering/pharmacology , Regulatory Factor X Transcription Factors , Signal Transduction/physiology , Transcription Factors/antagonists & inhibitors , Transcription Factors/drug effects , Transcription Factors/physiology , Ubiquitin-Protein Ligases/antagonists & inhibitors , Ubiquitin-Protein Ligases/drug effects , Ubiquitin-Protein Ligases/physiology , X-Box Binding Protein 1
8.
Environ Monit Assess ; 186(4): 2413-33, 2014 Apr.
Article in English | MEDLINE | ID: mdl-24435289

ABSTRACT

Prioritizing total maximum daily load (TMDL) development starts by considering the scope and severity of water pollution and risks to public health and aquatic life. Methodology using quantitative assessments of in-stream water quality is appropriate and effective for point source (PS) dominated discharge, but less so in watersheds with mostly nonpoint source (NPS) related impairments. For NPSs, prioritization in TMDL development and implementation of associated best management practices should focus on restoration of ecosystem physical functions, including how restoration effectiveness depends on design, maintenance and placement within the watershed. To refine the approach to TMDL development, regulators and stakeholders must first ask if the watershed, or ecosystem, is at risk of losing riparian or other ecologically based physical attributes and processes. If so, the next step is an assessment of the spatial arrangement of functionality with a focus on the at-risk areas that could be lost, or could, with some help, regain functions. Evaluating stream and wetland riparian function has advantages over the traditional means of water quality and biological assessments for NPS TMDL development. Understanding how an ecosystem functions enables stakeholders and regulators to determine the severity of problem(s), identify source(s) of impairment, and predict and avoid a decline in water quality. The Upper Reese River, Nevada, provides an example of water quality impairment caused by NPS pollution. In this river basin, stream and wetland riparian proper functioning condition (PFC) protocol, water quality data, and remote sensing imagery were used to identify sediment sources, transport, distribution, and its impact on water quality and aquatic resources. This study found that assessments of ecological function could be used to generate leading (early) indicators of water quality degradation for targeting pollution control measures, while traditional in-stream water quality monitoring lagged in response to the deterioration in ecological functions.


Subject(s)
Ecosystem , Environmental Monitoring/methods , Rivers/chemistry , Water Pollutants, Chemical/analysis , Nevada
9.
Methods Mol Biol ; 960: 93-108, 2013.
Article in English | MEDLINE | ID: mdl-23329481

ABSTRACT

Major histocompatibility complex (MHC) class I molecules function to present pathogen-derived peptides to cytotoxic T cells or act as ligands for Natural Killer cells, thus alerting the immune system to the presence of invading pathogens. Furthermore MHC class I molecules can be strongly associated with autoimmune diseases. Therefore understanding not only the biosynthesis and the degradation pathways of MHC class I molecules has become important in determining their role in pathogen and autoimmune-related diseases. Here we describe how using epitope-tagged MHC class I molecules can aid in the analysis of MHC class I molecule biosynthesis and degradation and also complement studies using conventional conformationally specific antibodies. Coupled together with pharmacological manipulation which can target both biosynthetic and degradative pathways, this offers a powerful tool in analyzing MHC class I molecules.


Subject(s)
Histocompatibility Antigens Class I/biosynthesis , Histocompatibility Antigens Class I/metabolism , Proteolysis , Alleles , Electrophoresis, Polyacrylamide Gel , Epitopes/immunology , Flow Cytometry , HEK293 Cells , HeLa Cells , Histocompatibility Antigens Class I/genetics , Histocompatibility Antigens Class I/immunology , Humans , Immunoblotting , Immunoprecipitation , Proteolysis/drug effects
10.
Antioxid Redox Signal ; 16(1): 33-43, 2012 Jan 01.
Article in English | MEDLINE | ID: mdl-21902594

ABSTRACT

AIMS: The human leukocyte antigen (HLA)-B27 is strongly associated with a group of inflammatory arthritic disorders known as the spondyloarthropathies (SpAs). The unusual biochemistry of HLA-B27 has been proposed to participate in disease development, especially the enhanced ability of HLA-B27 to form several heavy chain-dimer populations. HLA-B27 possesses three unpaired cysteine (C) residues at position 67, 308, and 325, in addition to the four conserved cysteine residues at p101, 164, 203, and 259. C67 was proposed to participate in dimer formation of recombinant HLA-B27 protein and in vivo heavy chain-dimers. However, the structurally conserved C164 was demonstrated to participate in endoplasmic reticulum (ER) resident heavy chain-dimer formation. We therefore wanted to determine whether these aggregates involve cysteines other than C164 and the basis for the difference between the observed heavy chain-dimer species. RESULTS: We determined that C164 and C101 can form distinct dimer structures and that the heterogenous nature of heavy chain-dimer species is due to differences in both redox status and conformation. Different HLA-B27 dimer populations can be found in physiologically relevant cell types derived from HLA-B27-positive patients with inflammatory arthritis. In addition, HLA-B27 dimer formation can be correlated with cellular stress induction. INNOVATION: The use of both mutagenesis and manipulating cellular redox environments demonstrates that HLA-B27 dimerization requires both specific cysteine?cysteine interactions and conformations with differing redox states. CONCLUSION: HLA-B27 heavy chain-dimerization is a complex process and these findings provide an insight into HLA-B27 misfolding and a potential contribution to inflammatory disease development.


Subject(s)
Cysteine/metabolism , HLA-B27 Antigen/chemistry , Activating Transcription Factor 6/metabolism , Amino Acid Sequence , Animals , Cell Line , Conserved Sequence , Cysteine/genetics , Endoplasmic Reticulum/metabolism , Endoplasmic Reticulum Stress , HLA-B27 Antigen/genetics , HLA-B27 Antigen/metabolism , Humans , Molecular Weight , Oxidation-Reduction , Protein Multimerization/physiology , Rats
11.
Antioxid Redox Signal ; 15(3): 669-84, 2011 Aug 01.
Article in English | MEDLINE | ID: mdl-21671754

ABSTRACT

The major histocompatibility complex class I molecule human leukocyte antigen (HLA)-B27 is strongly associated with a group of inflammatory arthritic disorders known as the spondyloarthropathies. Many autoimmune diseases exhibit associations with major histocompatibility complex molecules encoded within the class II locus with defined immune responses either mediated by T or B-lymphocytes. Despite the association being known for over 30 years, no defined immune response and target autoantigens have been characterized for the spondyloarthropathies. Thus, the mechanism and role of HLA-B27 in disease pathogenesis remains undetermined. One hypothesis that has recently received much attention has focused around the enhanced propensity for HLA-B27 to misfold and the increased tendency of the heavy chain to dimerize. The misfolding of HLA-B27 has been associated with its redox status and this is postulated to be involved in disease development. Here we discuss the impact of the redox status on HLA-B27 biosynthesis and function.


Subject(s)
HLA-B27 Antigen/metabolism , Proteostasis Deficiencies/metabolism , Spondylarthropathies/metabolism , Cysteine/chemistry , Disulfides/chemistry , HLA-B27 Antigen/chemistry , Histocompatibility Antigens Class II/immunology , Histocompatibility Testing , Humans , Lymphocytes/immunology , Oxidation-Reduction , Oxidative Stress/immunology , Protein Folding , Protein Multimerization/immunology , beta 2-Microglobulin/metabolism
12.
Int J Rheumatol ; 2011: 486856, 2011.
Article in English | MEDLINE | ID: mdl-21547037

ABSTRACT

The association between HLA-B27 and the group of autoimmune inflammatory arthritic diseases, the spondyloarthropathies (SpAs) which include ankylosing spondylitis (AS) and Reactive Arthritis (ReA), has been well established and remains the strongest association between any HLA molecule and autoimmune disease. The mechanism behind this striking association remains elusive; however animal model and biochemical data suggest that HLA-B27 misfolding may be key to understanding its association with the SpAs. Recent investigations have focused on the unusual biochemical structures of HLA-B27 and their potential role in SpA pathogenesis. Here we discuss how these unusual biochemical structures may participate in cellular events leading to chronic inflammation and thus disease progression.

13.
Int J Parasitol ; 39(5): 515-24, 2009 Apr.
Article in English | MEDLINE | ID: mdl-18992250

ABSTRACT

Proteins secreted by Trichinella spiralis have a potential role in remodelling host skeletal muscle. However, whilst many parasite-secreted proteins have been identified, it has rarely been demonstrated that these are secreted into the nurse cell. Using an informatics-based analysis, we have searched the T. spiralis expressed sequence tag (EST) datasets for cDNAs encoding potential secreted proteins. Here we describe the characterisation of three of the top candidates isolated from our analysis, termed secreted from muscle stage larvae (SML)-1, -2 and -3. All three proteins were demonstrated to be secreted by muscle stage larvae, and immunohistochemical analysis established that SML-1 and -2 are secreted into developing nurse cells. We also show that SML-2 is processed from a precursor into smaller peptides by a metalloprotease contained within T. spiralis-secreted products. With the identification of these and other secreted proteins, we now have molecules to test in functional assays designed to dissect molecular features of the developing nurse cell.


Subject(s)
Helminth Proteins/metabolism , Muscle, Skeletal/parasitology , Trichinella spiralis/physiology , Amino Acid Sequence , Animals , Base Sequence , Blotting, Western/methods , Computational Biology/methods , Electrophoresis, Polyacrylamide Gel/methods , Expressed Sequence Tags , Female , Gene Expression Profiling/methods , Helminth Proteins/genetics , Larva/metabolism , Larva/ultrastructure , Mice , Molecular Sequence Data , Open Reading Frames , Protein Processing, Post-Translational , Rats , Rats, Sprague-Dawley , Trichinella spiralis/ultrastructure
14.
Science ; 317(5845): 1756-60, 2007 Sep 21.
Article in English | MEDLINE | ID: mdl-17885136

ABSTRACT

Parasitic nematodes that cause elephantiasis and river blindness threaten hundreds of millions of people in the developing world. We have sequenced the approximately 90 megabase (Mb) genome of the human filarial parasite Brugia malayi and predict approximately 11,500 protein coding genes in 71 Mb of robustly assembled sequence. Comparative analysis with the free-living, model nematode Caenorhabditis elegans revealed that, despite these genes having maintained little conservation of local synteny during approximately 350 million years of evolution, they largely remain in linkage on chromosomal units. More than 100 conserved operons were identified. Analysis of the predicted proteome provides evidence for adaptations of B. malayi to niches in its human and vector hosts and insights into the molecular basis of a mutualistic relationship with its Wolbachia endosymbiont. These findings offer a foundation for rational drug design.


Subject(s)
Brugia malayi/genetics , Genome, Helminth , Animals , Brugia malayi/physiology , Caenorhabditis/genetics , Drosophila melanogaster/genetics , Drug Resistance/genetics , Filariasis/parasitology , Humans , Molecular Sequence Data
15.
PLoS Genet ; 2(11): e198, 2006 Nov 24.
Article in English | MEDLINE | ID: mdl-17121468

ABSTRACT

The nematode Caenorhabditis elegans is unique among model animals in that many of its genes are cotranscribed as polycistronic pre-mRNAs from operons. The mechanism by which these operonic transcripts are resolved into mature mRNAs includes trans-splicing to a family of SL2-like spliced leader exons. SL2-like spliced leaders are distinct from SL1, the major spliced leader in C. elegans and other nematode species. We surveyed five additional nematode species, representing three of the five major clades of the phylum Nematoda, for the presence of operons and the use of trans-spliced leaders in resolution of polycistronic pre-mRNAs. Conserved operons were found in Pristionchus pacificus, Nippostrongylus brasiliensis, Strongyloides ratti, Brugia malayi, and Ascaris suum. In nematodes closely related to the rhabditine C. elegans, a related family of SL2-like spliced leaders is used for operonic transcript resolution. However, in the tylenchine S. ratti operonic transcripts are resolved using a family of spliced leaders related to SL1. Non-operonic genes in S. ratti may also receive these SL1 variants. In the spirurine nematodes B. malayi and A. suum operonic transcripts are resolved using SL1. Mapping these phenotypes onto the robust molecular phylogeny for the Nematoda suggests that operons evolved before SL2-like spliced leaders, which are an evolutionary invention of the rhabditine lineage.


Subject(s)
Biological Evolution , Conserved Sequence , Nematoda/genetics , Operon/genetics , Trans-Splicing/genetics , Animals , Base Pairing , Base Sequence , Genes, Helminth , Molecular Sequence Data , Proteome/metabolism , RNA Precursors/metabolism , RNA, Messenger/metabolism , RNA, Spliced Leader/genetics , RNA, Spliced Leader/metabolism , Ribosomes/metabolism
16.
J Biol Chem ; 280(49): 40845-56, 2005 Dec 09.
Article in English | MEDLINE | ID: mdl-16186127

ABSTRACT

A novel filarial serine protease inhibitor (SPI) from the human parasitic nematode Onchocerca volvulus, Ov-SPI-1, was identified through the analysis of a molting third-stage larvae expressed sequence tag dataset. Subsequent analysis of the expressed sequence tag datasets of O. volvulus and other filariae identified four other members of this family. These proteins are related to the low molecular weight SPIs originally isolated from Ascaris suum where they are believed to protect the parasite from host intestinal proteases. The two Ov-spi transcripts are up-regulated in the molting larvae and adult stages of the development of the parasite. Recombinant Ov-SPI-1 is an active inhibitor of serine proteases, specifically elastase, chymotrypsin, and cathepsin G. Immunolocalization of the Ov-SPI proteins demonstrates that the endogenous proteins are localized to the basal layer of the cuticle of third-stage, molting third-stage, and fourth-stage larvae, the body channels and multivesicular bodies of third-stage larvae and the processed material found between the two cuticles during molting. In O. volvulus adult worms the Ov-SPI proteins are localized to the sperm and to eggshells surrounding the developing embryos. RNA interference targeting the Ov-spi genes resulted in the specific knockdown of the transcript levels of both Ov-spi-1 and Ov-spi-2, a loss of native proteins, and a significant reduction in both molting and viability of third-stage larvae. We suggest the Ov-SPI proteins play a vital role in nematode molting by controlling the activity of an endogenous serine protease(s). The localization data in adults also indicate that these inhibitors may be involved in other processes such as embryogenesis and spermatogenesis.


Subject(s)
Helminth Proteins/physiology , Onchocerca volvulus/chemistry , Onchocerca volvulus/growth & development , Serine Proteinase Inhibitors/physiology , Amino Acid Sequence , Animals , Binding Sites , Cathepsin G , Cathepsins/antagonists & inhibitors , Chymotrypsin/antagonists & inhibitors , Gene Expression Regulation, Developmental , Helminth Proteins/chemistry , Helminth Proteins/genetics , Larva/chemistry , Molecular Sequence Data , Pancreatic Elastase/antagonists & inhibitors , Phylogeny , Protein Sorting Signals , RNA, Double-Stranded/genetics , RNA, Messenger/analysis , Recombinant Proteins/pharmacology , Sequence Homology , Serine Endopeptidases , Serine Proteinase Inhibitors/chemistry , Serine Proteinase Inhibitors/genetics , Transcription, Genetic/drug effects
17.
Genome Biol ; 6(9): R76, 2005.
Article in English | MEDLINE | ID: mdl-16168083

ABSTRACT

BACKGROUND: Bone and soft tissue tumors represent a diverse group of neoplasms thought to derive from cells of the mesenchyme or neural crest. Histological diagnosis is challenging due to the poor or heterogenous differentiation of many tumors, resulting in uncertainty over prognosis and appropriate therapy. RESULTS: We have undertaken a broad and comprehensive study of the gene expression profile of 96 tumors with representatives of all mesenchymal tissues, including several problem diagnostic groups. Using machine learning methods adapted to this problem we identify molecular fingerprints for most tumors, which are pathognomonic (decisive) and biologically revealing. CONCLUSION: We demonstrate the utility of gene expression profiles and machine learning for a complex clinical problem, and identify putative origins for certain mesenchymal tumors.


Subject(s)
Gene Expression Profiling , Gene Expression Regulation, Neoplastic/genetics , Mesoderm/metabolism , Neoplasms, Connective and Soft Tissue/genetics , Genes, Neoplasm/genetics , Humans , Models, Biological , Neoplasms, Connective and Soft Tissue/diagnosis
18.
Mol Biochem Parasitol ; 136(2): 227-42, 2004 Aug.
Article in English | MEDLINE | ID: mdl-15478801

ABSTRACT

Cysteine proteinases are involved in a variety of important biological processes and have been implicated in molting and tissue remodeling in free living and parasitic nematodes. We show that in the lymphatic filarial nematode Brugia pahangi molting of third-stage larvae (L3) to fourth-stage larvae is dependent on the activity of a cathepsin L-like cysteine protease (CPL), which can be detected in the excretory/secretory (ES) products of molting L3. Directed cloning of a cysteine protease gene in B. pahangi and analysis of the expressed sequence tag (EST) and genomic sequences of the closely related human lymphatic filarial nematode Brugia malayi have identified a family of CPLs. One group of these enzymes, Bm-cpl-1, -4, -5 and Bp-cpl-4, is highly expressed in the B. malayi and B. pahangi infective L3 larvae. Immunolocalization indicates that the corresponding enzymes are synthesized and stored in granules of the glandular esophagus of L3 and released during the molting process. Functional analysis of these genes in Brugia and closely related CPL genes identified in the filarial nematode Onchocerca volvulus and the free living model nematode Caenorhabditis elegans indicate that these genes are also involved in cuticle and eggshell remodeling.


Subject(s)
Brugia malayi/enzymology , Brugia malayi/genetics , Brugia pahangi/enzymology , Brugia pahangi/genetics , Cathepsins/genetics , Genes, Helminth , Multigene Family , Animals , Base Sequence , Brugia malayi/growth & development , Brugia pahangi/drug effects , Brugia pahangi/growth & development , Cathepsin L , Cloning, Molecular , Cysteine Endopeptidases/genetics , Cysteine Proteinase Inhibitors/pharmacology , DNA, Helminth/genetics , Egg Shell/growth & development , Expressed Sequence Tags , Larva/drug effects , Larva/enzymology , Larva/growth & development , Microscopy, Immunoelectron , Molecular Sequence Data , Molting/drug effects , Molting/physiology , Phylogeny , Species Specificity
19.
Int J Parasitol ; 34(6): 733-46, 2004 May.
Article in English | MEDLINE | ID: mdl-15111095

ABSTRACT

The parasitic nematode, Brugia malayi, causes lymphatic filariasis in humans, which in severe cases leads to the condition known as elephantiasis. The parasite contains an endosymbiotic alpha-proteobacterium of the genus Wolbachia that is required for normal worm development and fecundity and is also implicated in the pathology associated with infections by these filarial nematodes. Bacterial artificial chromosome libraries were constructed from B. malayi DNA and provide over 11-fold coverage of the nematode genome. Wolbachia genomic fragments were simultaneously cloned into the libraries giving over 5-fold coverage of the 1.1 Mb bacterial genome. A physical framework for the Wolbachia genome was developed by construction of a plasmid library enriched for Wolbachia DNA as a source of sequences to hybridise to high-density bacterial artificial chromosome colony filters. Bacterial artificial chromosome end sequencing provided additional Wolbachia probe sequences to facilitate assembly of a contig that spanned the entire genome. The Wolbachia sequences provided a marker approximately every 10 kb. Four rare-cutting restriction endonucleases were used to restriction map the genome to a resolution of approximately 60 kb and demonstrate concordance between the bacterial artificial chromosome clones and native Wolbachia genomic DNA. Comparison of Wolbachia sequences to public databases using BLAST algorithms under stringent conditions allowed confident prediction of 69 Wolbachia peptide functions and two rRNA genes. Comparison to closely related complete genomes revealed that while most sequences had orthologs in the genome of the Wolbachia endosymbiont from Drosophila melanogaster, there was no evidence for long-range synteny. Rather, there were a few cases of short-range conservation of gene order extending over regions of less than 10 kb. The molecular scaffold produced for the genome of the Wolbachia from B. malayi forms the basis of a genomic sequencing effort for this bacterium, circumventing the difficult challenge of purifying sufficient endosymbiont DNA from a tropical parasite for a whole genome shotgun sequencing strategy.


Subject(s)
Brugia malayi/genetics , Chromosome Mapping/methods , Chromosomes, Artificial, Bacterial/genetics , Wolbachia/genetics , Animals , Base Sequence , Contig Mapping/methods , DNA, Bacterial/genetics , DNA, Protozoan/genetics , Genome, Bacterial , Genome, Protozoan , Genomic Library , Molecular Weight , Plasmids , RNA, Bacterial/genetics , RNA, Ribosomal/genetics , Restriction Mapping/methods , Sequence Analysis, DNA/methods , Symbiosis/genetics
20.
J Infect Dis ; 189(1): 120-7, 2004 Jan 01.
Article in English | MEDLINE | ID: mdl-14702162

ABSTRACT

Immune responses to the intracellular Wolbachia bacteria of filarial nematodes are thought to contribute to the pathologic process of filarial infection. Here, we compare antibody responses of subjects living in an area where lymphatic filariasis is endemic with antibody responses elicited in a murine model of filarial infection, to provide evidence that the infective larval stage (L3), not adult nematodes, are the primary inducer of responses against Wolbachia. In human subjects, antibody responses to Brugia malayi Wolbachia surface protein (WSP) are most often correlated with antibody responses to the L3 stage of B. malayi. Analysis of anti-WSP responses induced in mice by different stages of the rodent filariae Litomosoides sigmodontis shows that the strongest anti-WSP response is elicited by the L3 stage. Although adult filarial nematode death may play a role in the generation of an anti-WSP response, it is the L3 stage that is the major source of immunogenic material, and incoming L3 provide a continual boosting of the anti-WSP response. Significant exposure to the endosymbiotic bacteria may occur earlier in nematode infection than previously thought, and the level of exposure to infective insect bites may be a key determinant of disease progression.


Subject(s)
Antibodies, Bacterial/blood , Bacterial Outer Membrane Proteins/immunology , Brugia malayi/physiology , Filariasis/blood , Wolbachia/immunology , Animals , Antibodies, Helminth/blood , Brugia malayi/immunology , Brugia malayi/microbiology , Disease Models, Animal , Disease Progression , Filariasis/diagnosis , Filarioidea/microbiology , Filarioidea/physiology , Humans , Larva/immunology , Male , Mice , Mice, Inbred BALB C , Species Specificity , Symbiosis
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