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1.
Lab Invest ; 103(9): 100195, 2023 09.
Article in English | MEDLINE | ID: mdl-37302529

ABSTRACT

Novel therapeutics have significantly improved the survival and quality of life of patients with malignancies in this century. Versatile precision diagnostic data were used to formulate personalized therapeutic strategies for patients. However, the cost of extensive information depends on the consumption of the specimen, raising the challenges of effective specimen utilization, particularly in small biopsies. In this study, we proposed a tissue-processing cascaded protocol that obtains 3-dimensional (3D) protein expression spatial distribution and mutation analysis from an identical specimen. In order to reuse the thick section tissue evaluated after the 3D pathology technique, we designed a novel high-flatness agarose-embedded method that could improve tissue utilization rate by 1.52 fold, whereas it reduced the tissue-processing time by 80% compared with the traditional paraffin-embedding method. In animal studies, we demonstrated that the protocol would not affect the results of DNA mutation analysis. Furthermore, we explored the utility of this approach in non-small cell lung cancer because it is a compelling application for this innovation. We used 35 cases including 7 cases of biopsy specimens of non-small cell lung cancer to simulate future clinical application. The cascaded protocol consumed 150-µm thickness of formalin-fixed, paraffin-embedded specimens, providing 3D histologic and immunohistochemical information approximately 38 times that of the current paraffin-embedding protocol, and 3 rounds of DNA mutation analysis, offering both essential guidance for routine diagnostic evaluation and advanced information for precision medicine. Our designed integrated workflow provides an alternative way for pathological examination and paves the way for multidimensional tumor tissue assessment.


Subject(s)
Carcinoma, Non-Small-Cell Lung , Lung Neoplasms , Animals , Humans , Carcinoma, Non-Small-Cell Lung/genetics , Carcinoma, Non-Small-Cell Lung/pathology , Lung Neoplasms/diagnostic imaging , Lung Neoplasms/genetics , Lung Neoplasms/pathology , Quality of Life , Mutation , DNA , Paraffin Embedding/methods , Formaldehyde
2.
Int J Cancer ; 144(8): 1996-2007, 2019 04 15.
Article in English | MEDLINE | ID: mdl-30252131

ABSTRACT

ST3Gal1 is a key sialyltransferase which adds α2,3-linked sialic acid to substrates and generates core 1 O-glycan structure. Upregulation of ST3Gal1 has been associated with worse prognosis of breast cancer patients. However, the protein substrates of ST3Gal1 implicated in tumor progression remain elusive. In our study, we demonstrated that ST3GAL1-silencing significantly reduced tumor growth along with a notable decrease in vascularity of MCF7 xenograft tumors. We identified vasorin (VASN) which was shown to bind TGF-ß1, as a potential candidate that links ST3Gal1 to angiogenesis. LC-MS/MS analysis of VASN secreted from MCF7, revealed that more than 80% of its O-glycans are sialyl-3T and disialyl-T. ST3GAL1-silencing or desialylation of VASN by neuraminidase enhanced its binding to TGF-ß1 by 2- to 3-fold and thereby dampening TGF-ß1 signaling and angiogenesis, as indicated by impaired tube formation of HUVECs, suppressed angiogenesis gene expression and reduced activation of Smad2 and Smad3 in HUVEC cells. Examination of 114 fresh primary breast cancer and their adjacent normal tissues showed that the expression levels of ST3Gal1 and TGFB1 were high in tumor part and the expression of two genes was positively correlated. Kaplan Meier survival analysis showed a significantly shorter relapse-free survival for those with lower expression VASN, notably, the combination of low VASN with high ST3GAL1 yielded even higher risk of recurrence (p = 0.025, HR = 2.967, 95% CI = 1.14-7.67). Since TGF-ß1 is known to transcriptionally activate ST3Gal1, our findings illustrated a feedback regulatory loop in which TGF-ß1 upregulates ST3Gal1 to circumvent the negative impact of VASN.


Subject(s)
Breast Neoplasms/pathology , Carrier Proteins/metabolism , Membrane Proteins/metabolism , Neoplasm Recurrence, Local/pathology , Neovascularization, Pathologic/pathology , Sialyltransferases/metabolism , Transforming Growth Factor beta1/metabolism , Animals , Breast/pathology , Breast Neoplasms/blood supply , Breast Neoplasms/mortality , Disease Progression , Female , Human Umbilical Vein Endothelial Cells , Humans , MCF-7 Cells , Mice , Neoplasm Recurrence, Local/epidemiology , RNA, Small Interfering/metabolism , Sialic Acids/metabolism , Sialyltransferases/genetics , Signal Transduction , Survival Analysis , Up-Regulation , Xenograft Model Antitumor Assays , beta-Galactoside alpha-2,3-Sialyltransferase
3.
J Pathol ; 245(4): 502-513, 2018 08.
Article in English | MEDLINE | ID: mdl-29862509

ABSTRACT

Hepatitis B virus (HBV) is an aetiological factor for liver cirrhosis and hepatocellular carcinoma (HCC). Despite current antiviral therapies that successfully reduce the viral load in patients with chronic hepatitis B, persistent hepatitis B surface antigen (HBsAg) remains a risk factor for HCC. To explore whether intrahepatic viral antigens contribute directly to hepatocarcinogenesis, we monitored the mitotic progression of HBV-positive cells. Cytokinesis failure was increased in HBV-positive HepG2.2.15 and 1.3ES2 cells, as well as in HuH-7 cells transfected with a wild-type or X-deficient HBV construct, but not in cells transfected with an HBsAg-deficient construct. We show that expression of viral large surface antigen (LHBS) was sufficient to induce cytokinesis failure of immortalized hepatocytes. Premitotic defects with DNA damage and G2 /M checkpoint attenuation preceded cytokinesis in LHBS-positive cells, and ultimately resulted in hyperploidy. Inhibition of polo-like kinase-1 (Plk1) not only restored the G2 /M checkpoint in these cells, but also suppressed LHBS-mediated in vivo tumourigenesis. Finally, a positive correlation between intrahepatic LHBS expression and hepatocyte hyperploidy was detected in >70% of patients with chronic hepatitis B. We conclude that HBV LHBS provokes hyperploidy by inducing DNA damage and upregulation of Plk1; the former results in atypical chromatin structures, and the latter attenuates the function of the G2 /M DNA damage checkpoint. Our data uncover a mechanism by which genomic integrity of hepatocytes is disrupted by viral LHBS. These findings highlight the role of intrahepatic surface antigen as an oncogenic risk factor in the development of HCC. Copyright © 2018 Pathological Society of Great Britain and Ireland. Published by John Wiley & Sons, Ltd.


Subject(s)
Carcinoma, Hepatocellular/virology , Cytokinesis , Hepatitis B Surface Antigens/metabolism , Hepatitis B virus/metabolism , Hepatitis B, Chronic/virology , Hepatocytes/virology , Liver Neoplasms/virology , Ploidies , Animals , Carcinoma, Hepatocellular/genetics , Carcinoma, Hepatocellular/metabolism , Carcinoma, Hepatocellular/pathology , Cell Cycle Proteins/metabolism , Cell Transformation, Viral , DNA Damage , Disease Models, Animal , G2 Phase Cell Cycle Checkpoints , Hep G2 Cells , Hepatitis B Surface Antigens/genetics , Hepatitis B Virus, Woodchuck/genetics , Hepatitis B Virus, Woodchuck/metabolism , Hepatitis B virus/genetics , Hepatitis B, Chronic/genetics , Hepatitis B, Chronic/metabolism , Hepatitis B, Chronic/pathology , Hepatocytes/metabolism , Hepatocytes/pathology , Hepatocytes/transplantation , Host-Pathogen Interactions , Humans , Liver Neoplasms/genetics , Liver Neoplasms/metabolism , Liver Neoplasms/pathology , Marmota , Mice, Transgenic , Protein Serine-Threonine Kinases/metabolism , Proto-Oncogene Proteins/metabolism , Polo-Like Kinase 1
4.
Mar Drugs ; 17(6)2019 Jun 14.
Article in English | MEDLINE | ID: mdl-31207891

ABSTRACT

More than 80% of infectious bacteria form biofilm, which is a bacterial cell community surrounded by secreted polysaccharides, proteins and glycolipids. Such bacterial superstructure increases resistance to antimicrobials and host defenses. Thus, to control these biofilm-forming pathogenic bacteria requires antimicrobial agents with novel mechanisms or properties. Pseudomonas aeruginosa, a Gram-negative opportunistic nosocomial pathogen, is a model strain to study biofilm development and correlation between biofilm formation and infection. In this study, a recombinant hemolymph plasma lectin (rHPLOE) cloned from Taiwanese Tachypleus tridentatus was expressed in an Escherichia coli system. This rHPLOE was shown to have the following properties: (1) Binding to P. aeruginosa PA14 biofilm through a unique molecular interaction with rhamnose-containing moieties on bacteria, leading to reduction of extracellular di-rhamnolipid (a biofilm regulator); (2) decreasing downstream quorum sensing factors, and inhibiting biofilm formation; (3) dispersing the mature biofilm of P. aeruginosa PA14 to improve the efficacies of antibiotics; (4) reducing P. aeruginosa PA14 cytotoxicity to human lung epithelial cells in vitro and (5) inhibiting P. aeruginosa PA14 infection of zebrafish embryos in vivo. Taken together, rHPLOE serves as an anti-biofilm agent with a novel mechanism of recognizing rhamnose moieties in lipopolysaccharides, di-rhamnolipid and structural polysaccharides (Psl) in biofilms. Thus rHPLOE links glycan-recognition to novel anti-biofilm strategies against pathogenic bacteria.


Subject(s)
Anti-Bacterial Agents/pharmacology , Biofilms/drug effects , Carrier Proteins/metabolism , Pseudomonas aeruginosa/drug effects , Rhamnose/metabolism , A549 Cells , Animals , Bacterial Proteins/metabolism , Cell Line, Tumor , Epithelial Cells/drug effects , Escherichia coli/metabolism , Glycolipids/metabolism , Horseshoe Crabs/metabolism , Humans , Lectins/metabolism , Polysaccharides, Bacterial/metabolism , Quorum Sensing/drug effects , Zebrafish
5.
Biochim Biophys Acta ; 1833(12): 3124-3133, 2013 Dec.
Article in English | MEDLINE | ID: mdl-24021264

ABSTRACT

Mechanical forces induced by interstitial fluid flow in and surrounding tissues and by blood/lymphatic flow in vessels may modulate cancer cell invasion and metastasis and anticancer drug delivery. Our previous study demonstrated that laminar flow-induced shear stress induces G2/M arrest in tumor cells. However, whether shear stress modulates final cell fate remains unclear. In this study, we investigated the role of flow-induced shear stress in modulating the survival of four human tumor cell lines, i.e., Hep3B hepatocarcinoma cells, MG63 osteosarcoma cells, SCC25 oral squamous carcinoma cells, and A549 carcinomic alveolar basal epithelial cells. Laminar shear stress (LSS) ranging from 0.5 to 12dyn/cm(2) induced death of these four tumor cell lines. In contrast to LSS at 0.5dyn/cm(2), oscillatory shear stress (OSS) at 0.5±4dyn/cm(2) cannot induce cancer cell death. Both LSS and OSS had no effect on human normal hepatocyte, lung epithelial, and endothelial cells. Application of LSS to these four cell lines increased the percentage of cells stained positively for annexin V-FITC, with up-regulations of cleaved caspase-8, -9, and -3, and PARP. In addition, LSS also induced Hep3B cell autophagy, as detected by acidic vesicular organelle formation, LC3B transformation, and p62/SQSTM1 degradation. By transfecting with small interfering RNA, we found that the shear-induced apoptosis and autophagy are mediated by bone morphogenetic protein receptor type (BMPR)-IB, BMPR-specific Smad1 and Smad5, and p38 mitogen-activated protein kinase in Hep3B cells. Our findings provide insights into the molecular mechanisms by which shear stress induces apoptosis and autophagy in tumor cells.


Subject(s)
Apoptosis , Autophagy , Bone Morphogenetic Protein Receptors, Type I/metabolism , Neoplasms/pathology , Smad Proteins/metabolism , Stress, Mechanical , p38 Mitogen-Activated Protein Kinases/metabolism , Cell Line, Tumor , Extracellular Signal-Regulated MAP Kinases/metabolism , Humans , JNK Mitogen-Activated Protein Kinases/metabolism , Models, Biological , Neoplasms/enzymology , Signal Transduction , Smad1 Protein/metabolism , Smad5 Protein/metabolism
6.
Proteins ; 82(6): 1079-85, 2014 Jun.
Article in English | MEDLINE | ID: mdl-24108499

ABSTRACT

Glucoamylases are responsible for hydrolysis of starch and polysaccharides to yield ß-D-glucose. Rhizopus oryzae glucoamylase (RoGA) is composed of an N-terminal starch binding domain (SBD) and a C-terminal catalytic domain connected by an O-glycosylated linker. Two carbohydrate binding sites in RoSBD have been identified, site I is created by three highly conserved aromatic residues, Trp47, Tyr83, and Tyr94, and site II is built up by Tyr32 and Phe58. Here, the two crystal structures of RoSBD in complex with only α-(1,6)-linked isomaltotriose (RoSBD-isoG3) and isomaltotetraose (RoSBD-isoG4) have been determined at 1.2 and 1.3 Å, respectively. Interestingly, site II binding is observed in both complexes, while site I binding is only found in the RoSBD-isoG4 complex. Hence, site II acts as the recognition binding site for carbohydrate and site I accommodates site II to bind isoG4. Site I participates in sugar binding only when the number of glucosyl units of oligosaccharides is more than three. Taken together, two carbohydrate binding sites in RoSBD cooperate to reinforce binding mode of glucoamylase with polysaccharides as well as the starch.


Subject(s)
Fungal Polysaccharides/chemistry , Fungal Proteins/chemistry , Glucan 1,4-alpha-Glucosidase/chemistry , Oligosaccharides/chemistry , Rhizopus/enzymology , Trisaccharides/chemistry , Carbohydrate Conformation , Carbohydrate Sequence , Crystallography, X-Ray , Hydrogen Bonding , Ligands , Models, Molecular , Molecular Sequence Data , Protein Binding , Protein Structure, Secondary
7.
J Enzyme Inhib Med Chem ; 29(4): 538-46, 2014 Aug.
Article in English | MEDLINE | ID: mdl-24083411

ABSTRACT

Elevated cathepsin S (Cat S) level is correlated with higher migration ability in tumor cells. This study investigates the inhibitory effect of novel synthetic α-ketoamide compounds on cathepsin activity and cancer cell migration. The effect of several α-ketoamide compounds on the activity of recombinant cathepsins (Cat S, Cat L and Cat K) was examined. Two highly metastatic cancer cell lines were incubated with three Cat S-specific compounds (6n, 6 w and 6r) to analyze their effect on cellular Cat S activity and cell migration. At a 100 nM concentration, compounds 6n, 6r and 6 w effectively inhibited Cat S activity. Cat S activity and cell migration were significantly reduced in CL1-3 cells after treatment with either 6n or 6 w at 5 µM. Similar results were also obtained when A2058 cells were treated with 6n. These results highlight the therapeutic potential of α-ketoamide compounds, especially 6n and 6 w, to prevent or delay cancer metastasis.


Subject(s)
Amides/pharmacology , Antineoplastic Agents/pharmacology , Cathepsins/antagonists & inhibitors , Cell Movement/drug effects , Enzyme Inhibitors/pharmacology , Amides/chemical synthesis , Amides/chemistry , Antineoplastic Agents/chemical synthesis , Antineoplastic Agents/chemistry , Cathepsins/metabolism , Cell Proliferation/drug effects , Cell Survival/drug effects , Dose-Response Relationship, Drug , Drug Screening Assays, Antitumor , Enzyme Inhibitors/chemical synthesis , Enzyme Inhibitors/chemistry , Humans , Molecular Structure , Structure-Activity Relationship , Tumor Cells, Cultured
8.
Sci Rep ; 14(1): 15176, 2024 07 02.
Article in English | MEDLINE | ID: mdl-38956114

ABSTRACT

Assessing programmed death ligand 1 (PD-L1) expression through immunohistochemistry (IHC) is the golden standard in predicting immunotherapy response of non-small cell lung cancer (NSCLC). However, observation of heterogeneous PD-L1 distribution in tumor space is a challenge using IHC only. Meanwhile, immunofluorescence (IF) could support both planar and three-dimensional (3D) histological analyses by combining tissue optical clearing with confocal microscopy. We optimized clinical tissue preparation for the IF assay focusing on staining, imaging, and post-processing to achieve quality identical to traditional IHC assay. To overcome limited dynamic range of the fluorescence microscope's detection system, we incorporated a high dynamic range (HDR) algorithm to restore the post imaging IF expression pattern and further 3D IF images. Following HDR processing, a noticeable improvement in the accuracy of diagnosis (85.7%) was achieved using IF images by pathologists. Moreover, 3D IF images revealed a 25% change in tumor proportion score for PD-L1 expression at various depths within tumors. We have established an optimal and reproducible process for PD-L1 IF images in NSCLC, yielding high quality data comparable to traditional IHC assays. The ability to discern accurate spatial PD-L1 distribution through 3D pathology analysis could provide more precise evaluation and prediction for immunotherapy targeting advanced NSCLC.


Subject(s)
B7-H1 Antigen , Carcinoma, Non-Small-Cell Lung , Fluorescent Antibody Technique , Imaging, Three-Dimensional , Lung Neoplasms , Humans , Carcinoma, Non-Small-Cell Lung/metabolism , Carcinoma, Non-Small-Cell Lung/pathology , B7-H1 Antigen/metabolism , Lung Neoplasms/pathology , Lung Neoplasms/metabolism , Lung Neoplasms/diagnosis , Imaging, Three-Dimensional/methods , Fluorescent Antibody Technique/methods , Immunohistochemistry/methods , Microscopy, Confocal/methods , Biomarkers, Tumor/metabolism
9.
Neurobiol Dis ; 58: 13-8, 2013 Oct.
Article in English | MEDLINE | ID: mdl-23639787

ABSTRACT

Amyotrophic lateral sclerosis (ALS) is a complicate and progressive onset devastating neurodegenerative disease. Its pathogenic mechanisms remain unclear and there is no specific test for diagnosis. For years, researchers have been vigorously searching for biomarkers associated with ALS to assist clinical diagnosis and monitor disease progression. Some specific inflammatory processes in the central nervous system have been reported to participate in the pathogenesis of ALS. As high mobility group box 1 (HMGB1) is elevated in spinal cord tissues of patients with ALS, we hypothesized, therefore, that serum autoantibody against HMGB1 (HMGB1 autoAb) might represent an effective biomarker for ALS. Patients with ALS, Alzheimer's disease, Parkinson's disease, and healthy age-matched control subjects were recruited for this study. ALS group consisted of 61 subjects, the other groups each consisted of forty subjects. We generated a polyclonal antibody against HMGB1 and developed an ELISA-based methodology for screening serum samples of these subjects. All samples were coded for masked comparison. For statistic analyses, two-tailed Student's t-test, ANOVA, Bonferroni multiple comparison test, Spearman correlation, and receiver operating characteristic curve were applied. We discovered that the level of HMGB1 autoAb significantly increased in patients with ALS as compared with that of patients with Alzheimer's disease, Parkinson's disease, and healthy control subjects. The differences between all groups were robust even at the early stages of ALS progression. More importantly, higher HMGB1 autoAb level was found in more severe disease status with significant correlation. Our study demonstrates that serum HMGB1 autoAb may serve as a biomarker for the diagnosis of ALS and can be used to monitor disease progression.


Subject(s)
Amyotrophic Lateral Sclerosis/blood , Autoantibodies/blood , Biomarkers/blood , HMGB1 Protein/immunology , Adult , Age Factors , Aged , Aged, 80 and over , Alzheimer Disease/blood , Amyotrophic Lateral Sclerosis/classification , Amyotrophic Lateral Sclerosis/surgery , Analysis of Variance , Chaperonin 60/immunology , Cohort Studies , Disease Progression , Female , HSP70 Heat-Shock Proteins/immunology , Humans , Male , Middle Aged , Mitochondrial Proteins/immunology , Parkinson Disease/blood , ROC Curve , Tracheotomy/methods
10.
Int J Mol Sci ; 14(9): 19067-85, 2013 Sep 16.
Article in English | MEDLINE | ID: mdl-24065103

ABSTRACT

Human eosinophil derived neurotoxin (EDN), a granule protein secreted by activated eosinophils, is a biomarker for asthma in children. EDN belongs to the human RNase A superfamily possessing both ribonucleolytic and antiviral activities. EDN interacts with heparin oligosaccharides and heparin sulfate proteoglycans on bronchial epithelial Beas-2B cells. In this study, we demonstrate that the binding of EDN to cells requires cell surface glycosaminoglycans (GAGs), and the binding strength between EDN and GAGs depends on the sulfation levels of GAGs. Furthermore, in silico computer modeling and in vitro binding assays suggest critical roles for the following basic amino acids located within heparin binding regions (HBRs) of EDN 34QRRCKN39 (HBR1), 65NKTRKN70 (HBR2), and 113NRDQRRD119 (HBR3) and in particular Arg35, Arg36, and Arg38 within HBR1, and Arg114 and Arg117 within HBR3. Our data suggest that sulfated GAGs play a major role in EDN binding, which in turn may be related to the cellular effects of EDN.


Subject(s)
Amino Acids, Basic/metabolism , Eosinophil-Derived Neurotoxin/metabolism , Glycosaminoglycans/metabolism , Amino Acid Sequence , Amino Acids, Basic/chemistry , Animals , Binding Sites , CHO Cells , Cell Line , Cricetinae , Cricetulus , Eosinophil-Derived Neurotoxin/chemistry , Eosinophil-Derived Neurotoxin/genetics , Eosinophils/metabolism , Heparin/metabolism , Humans , Maltose-Binding Proteins/genetics , Maltose-Binding Proteins/metabolism , Molecular Docking Simulation , Protein Binding , Protein Structure, Tertiary
11.
Org Biomol Chem ; 10(4): 760-72, 2012 Jan 28.
Article in English | MEDLINE | ID: mdl-22143347

ABSTRACT

A convenient route for the synthesis of heparin oligosaccharides involving regioselective protection of D-glucosamine and a concise preparation of rare L-ido sugars from diacetone α-D-glucose is described. Stereoselective coupling of a D-glucosamine-derived trichloroacetimidate with a 1,6-anhydro-ß-L-idopyranosyl 4-alcohol gave the desired α-linked disaccharide, which was used as repeating unit for dual chain elongation and termination. Stepwise assembly from the reducing to the non-reducing end with a D-glucosamine-derived monosaccharide as starting unit furnished the oligosaccharide skeletons having different chain lengths. A series of functional group transformations afforded the expected heparin oligosaccharides with 3, 5 and 7 sugar units. Interaction of these oligosaccharides with eosinophil-derived neurotoxin (EDN), a cationic ribonuclease and a mediator produced by human eosinophils, was further investigated. The results revealed that at 5 µg mL(-1), the heptasaccharide has sufficiently strong interference to block EDN binding to Beas-2B cells. The tri- and pentasaccharides have moderate inhibitory properties at 50 µg mL(-1) concentration, but no inhibition has been observed at 10 µg mL(-1). The IC(50) values of the tri-, penta- and heptasaccharides are 69.4, 47.2 and 0.225 µg mL(-1), respectively.


Subject(s)
Anticoagulants/chemical synthesis , Anticoagulants/pharmacology , Eosinophil-Derived Neurotoxin/metabolism , Heparin/chemical synthesis , Heparin/pharmacology , Cell Line , Eosinophil-Derived Neurotoxin/antagonists & inhibitors , Humans , Oligosaccharides/chemical synthesis , Oligosaccharides/pharmacology
12.
J Histochem Cytochem ; 70(8): 597-608, 2022 08.
Article in English | MEDLINE | ID: mdl-35912522

ABSTRACT

Microscopic examination of biopsied and resected prostatic specimens is the mainstay in the diagnosis of prostate cancer. However, conventional analysis of hematoxylin and eosin (H&E)-stained tissue is time-consuming and offers limited two-dimensional (2D) information. In the current study, we devised a method-termed Prostate Rapid Optical examination for cancer STATus (proSTAT)-for rapid screening of prostate cancer using high-resolution 2D and three-dimensional (3D) confocal images obtained after hydrophilic tissue clearing of 100-µm-thick tissue slices. The results of the proSTAT method were compared with those of traditional H&E stains for the analysis of cores (n=15) obtained from radical prostatectomy specimens (n=5). Gland lumen formation, consistent with Gleason pattern 3, was evident following tracking of multiple optical imaging sections. In addition, 3D rendering allowed visualizing a tubular network of interconnecting branches. Rapid 3D fluorescent labeling of tumor protein p63 accurately distinguished prostate adenocarcinoma from normal tissue and benign lesions. Compared with conventional stains, the 3D spatial and molecular information extracted from proSTAT may significantly increase the amount of available data for pathological assessment of prostate specimens. Our approach is amenable to automation and-subject to independent validation-can find a wide spectrum of clinical and research applications.


Subject(s)
Prostate , Prostatic Neoplasms , Coloring Agents , Humans , Male , Microscopy, Confocal , Neoplasm Grading , Prostate/diagnostic imaging , Prostate/pathology , Prostatectomy/methods , Prostatic Neoplasms/diagnostic imaging , Prostatic Neoplasms/pathology
13.
Front Oncol ; 12: 951560, 2022.
Article in English | MEDLINE | ID: mdl-36353548

ABSTRACT

Background: Perineural invasion (PNI), a form of local invasion defined as the ability of cancer cells to invade in, around, and through nerves, has a negative prognostic impact in oral cavity squamous cell carcinoma (OCSCC). Unfortunately, the diagnosis of PNI suffers from a significant degree of intra- and interobserver variability. The aim of this pilot study was to develop a deep learning-based human-enhanced tool, termed domain knowledge enhanced yield (Domain-KEY) algorithm, for identifying PNI in digital slides. Methods: Hematoxylin and eosin (H&E)-stained whole-slide images (WSIs, n = 85) were obtained from 80 patients with OCSCC. The model structure consisted of two parts to simulate human decision-making skills in diagnostic pathology. To this aim, two semantic segmentation models were constructed (i.e., identification of nerve fibers followed by the diagnosis of PNI). The inferred results were subsequently subjected to post-processing of generated decision rules for diagnostic labeling. Ten H&E-stained WSIs not previously used in the study were read and labeled by the Domain-KEY algorithm. Thereafter, labeling correctness was visually inspected by two independent pathologists. Results: The Domain-KEY algorithm was found to outperform the ResnetV2_50 classifier for the detection of PNI (diagnostic accuracy: 89.01% and 61.94%, respectively). On analyzing WSIs, the algorithm achieved a mean diagnostic accuracy as high as 97.50% versus traditional pathology. The observed accuracy in a validation dataset of 25 WSIs obtained from seven patients with oropharyngeal (cancer of the tongue base, n = 1; tonsil cancer, n = 1; soft palate cancer, n = 1) and hypopharyngeal (cancer of posterior wall, n = 2; pyriform sinus cancer, n = 2) malignancies was 96%. Notably, the algorithm was successfully applied in the analysis of WSIs to shorten the time required to reach a diagnosis. The addition of the hybrid intelligence model decreased the mean time required to reach a diagnosis by 15.0% and 23.7% for the first and second pathologists, respectively. On analyzing digital slides, the tool was effective in supporting human diagnostic thinking. Conclusions: The Domain-KEY algorithm successfully mimicked human decision-making skills and supported expert pathologists in the routine diagnosis of PNI.

14.
J Biol Chem ; 285(12): 8985-94, 2010 Mar 19.
Article in English | MEDLINE | ID: mdl-20100832

ABSTRACT

Cationic antimicrobial peptides/proteins (AMPs) are important components of the host innate defense mechanisms against invading microorganisms. Here we demonstrate that OprI (outer membrane protein I) of Pseudomonas aeruginosa is responsible for its susceptibility to human ribonuclease 7 (hRNase 7) and alpha-helical cationic AMPs, instead of surface lipopolysaccharide, which is the initial binding site of cationic AMPs. The antimicrobial activities of hRNase 7 and alpha-helical cationic AMPs against P. aeruginosa were inhibited by the addition of exogenous OprI or anti-OprI antibody. On modification and internalization of OprI by hRNase 7 into cytosol, the bacterial membrane became permeable to metabolites. The lipoprotein was predicted to consist of an extended loop at the N terminus for hRNase 7/lipopolysaccharide binding, a trimeric alpha-helix, and a lysine residue at the C terminus for cell wall anchoring. Our findings highlight a novel mechanism of antimicrobial activity and document a previously unexplored target of alpha-helical cationic AMPs, which may be used for screening drugs to treat antibiotic-resistant bacterial infection.


Subject(s)
Antimicrobial Cationic Peptides/chemistry , Lipopolysaccharides/chemistry , Pseudomonas aeruginosa/metabolism , Cell Membrane/metabolism , Cell Wall/metabolism , Cloning, Molecular , Cross-Linking Reagents/chemistry , Cytosol/metabolism , Escherichia coli/metabolism , Humans , Lipoproteins/chemistry , Models, Biological , Polymers/chemistry , Protein Conformation , Protein Structure, Secondary
15.
Bioinformatics ; 26(8): 1022-8, 2010 Apr 15.
Article in English | MEDLINE | ID: mdl-20190251

ABSTRACT

MOTIVATION: Carbohydrate-binding modules (CBMs) share similar secondary and tertiary topology, but their primary sequence identity is low. Computational identification of ligand-binding residues allows biologists to better understand the protein-carbohydrate binding mechanism. In general, functional characterization can be alternatively solved by alignment-based manners. As alignment accuracy based on conventional methods is often sensitive to sequence identity, low sequence identity among query sequences makes it difficult to precisely locate small portions of relevant features. Therefore, we propose a feature-incorporated alignment (FIA) to flexibly align conserved signatures in CBMs. Then, an FIA-based target-template prediction model was further implemented to identify functional ligand-binding residues. RESULTS: Arabidopsis thaliana CBM45 and CBM53 were used to validate the FIA-based prediction model. The predicted ligand-binding residues residing on the surface in the hypothetical structures were verified to be ligand-binding residues. In the absence of 3D structural information, FIA demonstrated significant improvement in the estimation of sequence similarity and identity for a total of 808 sequences from 11 different CBM families as compared with six leading tools by Friedman rank test.


Subject(s)
Carbohydrates/chemistry , Sequence Alignment/methods , Arabidopsis/metabolism , Binding Sites , Ligands , Models, Molecular , Protein Conformation , Substrate Specificity
16.
BMC Cell Biol ; 11: 6, 2010 Jan 20.
Article in English | MEDLINE | ID: mdl-20089176

ABSTRACT

BACKGROUND: Eosinophilic granulocytes are important for the human immune system. Many cationic proteins with cytotoxic activities, such as eosinophil cationic protein (ECP) and eosinophil-derived neurotoxin (EDN), are released from activated eosinophils. ECP, with low RNase activity, is widely used as a biomarker for asthma. ECP inhibits cell viability and induces apoptosis to cells. However, the specific pathway underlying the mechanisms of ECP-induced cytotoxicity remains unclear. This study investigated ECP-induced apoptosis in bronchial epithelial BEAS-2B cells and elucidated the specific pathway during apoptosis. RESULTS: To address the mechanisms involved in ECP-induced apoptosis in human BEAS-2B cells, investigation was carried out using chromatin condensation, cleavage of poly (ADP-ribose) polymerase (PARP), sub-G1 distribution in cell cycle, annexin V labeling, and general or specific caspase inhibitors. Caspase-8-dependent apoptosis was demonstrated by cleavage of caspase-8 after recombinant ECP treatment, accompanied with elevated level of tumor necrosis factor alpha (TNF-alpha). Moreover, ECP-induced apoptosis was effectively inhibited in the presence of neutralizing anti-TNF-alpha antibody. CONCLUSION: In conclusion, our results have demonstrated that ECP increased TNF-alpha production in BEAS-2B cells and triggered apoptosis by caspase-8 activation through mitochondria-independent pathway.


Subject(s)
Apoptosis , Eosinophil Cationic Protein/metabolism , Eosinophils/metabolism , Tumor Necrosis Factor-alpha/metabolism , Annexin A5/metabolism , Antibodies/metabolism , Caspase 8/metabolism , Cell Line, Tumor , Eosinophil Cationic Protein/genetics , Eosinophil-Derived Neurotoxin/metabolism , Eosinophils/immunology , G1 Phase , Humans , Poly(ADP-ribose) Polymerases/metabolism , Recombinant Proteins/genetics , Recombinant Proteins/metabolism , Tumor Necrosis Factor-alpha/immunology
17.
Drug Deliv ; 27(1): 542-555, 2020 Dec.
Article in English | MEDLINE | ID: mdl-32241176

ABSTRACT

Nanoparticles (NPs), such as liposomes, effectively evade the severe toxicity of unexpected accumulation and passively shuttle drugs into tumor tissues by enhanced permeability and retention. In the case of non-small cell lung cancer and pancreatic ductal adenocarcinoma, cancer-associated fibroblasts promote the aggregation of a gel-like extracellular matrix that forms a physical barrier in the desmoplastic stroma of the tumor. These stroma are composed of protein networks and glycosaminoglycans (GAGs) that greatly compromise tumor-penetrating performance, leading to insufficient extravasation and tissue penetration of NPs. Moreover, the presence of heparan sulfate (HS) and related proteoglycans on the cell surface and tumor extracellular matrix may serve as molecular targets for NP-mediated drug delivery. Here, a GAG-binding peptide (GBP) with high affinity for HS and high cell-penetrating activity was used to develop an HS-targeting delivery system. Specifically, liposomal doxorubicin (L-DOX) was modified by post-insertion with the GBP. We show that the in vitro uptake of L-DOX in A549 lung adenocarcinoma cells increased by GBP modification. Cellular uptake of GBP-modified L-DOX (L-DOX-GBP) was diminished in the presence of extracellular HS but not in the presence of other GAGs, indicating that the interaction with HS is critical for the cell surface binding of L-DOX-GBP. The cytotoxicity of doxorubicin positively correlated with the molecular composition of GBP. Moreover, GBP modification improved the in vivo distribution and anticancer efficiency of L-DOX, with enhanced desmoplastic targeting and extensive distribution. Taken together, GBP modification may greatly improve the tissue distribution and delivery efficiency of NPs against HS-abundant desmoplastic stroma-associated neoplasm.


Subject(s)
Adenocarcinoma of Lung/drug therapy , Antibiotics, Antineoplastic/administration & dosage , Antibiotics, Antineoplastic/pharmacokinetics , Doxorubicin/analogs & derivatives , Heparitin Sulfate/metabolism , Lung Neoplasms/drug therapy , A549 Cells , Adenocarcinoma of Lung/metabolism , Animals , Antibiotics, Antineoplastic/chemistry , Cell Line, Tumor , Doxorubicin/administration & dosage , Doxorubicin/chemistry , Doxorubicin/pharmacokinetics , Drug Delivery Systems , Female , Glycosaminoglycans/metabolism , Humans , Liposomes/administration & dosage , Liposomes/chemical synthesis , Liposomes/chemistry , Liposomes/pharmacokinetics , Lung Neoplasms/metabolism , Mice , NIH 3T3 Cells , Nanoparticles/administration & dosage , Nanoparticles/chemistry , Nanoparticles/metabolism , Polyethylene Glycols/administration & dosage , Polyethylene Glycols/chemistry , Polyethylene Glycols/pharmacokinetics , Tissue Distribution/drug effects , Tumor Microenvironment , Xenograft Model Antitumor Assays
18.
Biomolecules ; 10(1)2020 01 07.
Article in English | MEDLINE | ID: mdl-31936124

ABSTRACT

Cosmeceutical peptides have become an important topic in recent decades in both academic and industrial fields. Many natural or synthetic peptides with different biological functions including anti-ageing, anti-oxidation, anti-infection and anti-pigmentation have been developed and commercialized. Current cosmeceutical peptides have already satisfied most market demand, remaining: "cargos carrying skin penetrating peptide with high safety" still an un-met need. To this aim, a cell-penetrating peptide, CPPAIF, which efficiently transported cargos into epithelial cells was exanimated. CPPAIF was evaluated with cell model and 3D skin model following OECD guidelines without using animal models. As a highly stable peptide, CPPAIF neither irritated nor sensitized skin, also did not disrupt skin barrier. In addition, such high safety peptide had anti-inflammation activity without allergic effect. Moreover, cargo carrying activity of CPPAIF was assayed using HaCaT cell model and rapid CPPAIF penetration was observed within 30 min. Finally, CPPAIF possessed transepidermal activity in water in oil formulation without disruption of skin barrier. All evidences indicated that CPPAIF was an ideal choice for skin penetrating and its anti-inflammatory activity could improve skin condition, which made CPPAIF suitable and attractive for novel cosmeceutical product development.


Subject(s)
Cell-Penetrating Peptides/pharmacology , Cosmeceuticals/pharmacology , Animals , Anti-Inflammatory Agents/pharmacology , Cell-Penetrating Peptides/metabolism , Cosmeceuticals/chemical synthesis , Cosmetics/chemical synthesis , Cosmetics/pharmacology , Drug Delivery Systems , Humans , Models, Biological , Skin
19.
BMC Genomics ; 10: 613, 2009 Dec 16.
Article in English | MEDLINE | ID: mdl-20015385

ABSTRACT

BACKGROUND: It has been recognized cancer cells acquire characters reminiscent of those of normal stem cells, and the degree of stem cell gene expression correlates with patient prognosis. Lgr5(+) or CD133(+) epithelial stem cells (EpiSCs) have recently been identified and these cells are susceptible to neoplastic transformation. It is unclear, however, whether genes enriched in EpiSCs also contribute in tumor malignancy. Endometrial endometrioid carcinoma (EEC) is a dominant type of the endometrial cancers and is still among the most common female cancers. Clinically endometrial carcinoma is classified into 4 FIGO stages by the degree of tumor invasion and metastasis, and the survival rate is low in patients with higher stages of tumors. Identifying genes shared between advanced tumors and stem cells will not only unmask the mechanisms of tumor malignancy but also provide novel therapeutic targets. RESULTS: To identify EpiSC genes in late (stages III-IV) EECs, a molecular signature distinguishing early (stages I-II) and late EECs was first identified to delineate late EECs at the genomics level. ERBB2 and CCR1 were genes activated in late EECs, while APBA2 (MINT2) and CDK inhibitor p16 tumor suppressors in early EECs. MAPK pathway was significantly up in late EECs, indicating drugs targeting this canonical pathway might be useful for treating advanced EECs. A six-gene mini-signature was further identified to differentiate early from advanced EECs in both the training and testing datasets. Advanced, invasive EECs possessed a clear EpiSC gene expression pattern, explaining partly why these tumors are more malignant. CONCLUSIONS: Our work provides new insights into the pathogenesis of EECs and reveals a previously unknown link between adult stem cells and the histopathological traits of EECs. Shared EpiSC genes in late EECs may contribute to the stem cell-like phenotypes shown by advanced tumors and hold the potential of being candidate therapeutic targets and novel prognosis biomarkers.


Subject(s)
Carcinoma, Endometrioid/genetics , Endometrial Neoplasms/genetics , Epithelial Cells/cytology , Epithelial Cells/metabolism , Gene Expression Regulation, Neoplastic/physiology , Stem Cells/cytology , Stem Cells/metabolism , Adult , Aged , Aged, 80 and over , Cadherins/genetics , Carrier Proteins/genetics , Computational Biology , Cyclin-Dependent Kinase Inhibitor p16/genetics , Female , Gene Expression Regulation, Neoplastic/genetics , Humans , Immunohistochemistry , Middle Aged , Neoplasm Staging , Nerve Tissue Proteins/genetics , Oligonucleotide Array Sequence Analysis , Receptor, ErbB-2/genetics , Receptor, ErbB-2/metabolism , Receptors, CCR1/genetics
20.
J Cell Biochem ; 106(2): 317-26, 2009 Feb 01.
Article in English | MEDLINE | ID: mdl-19115260

ABSTRACT

Human eosinophil-derived neurotoxin (EDN, RNase2) and eosinophil cationic protein (ECP, RNase3) sequences possess as high as 92% identity in their promoter regions. The major difference within this region is a 34-nucleotide (34-nt) segment appeared only in the edn promoter. In addition, six discrete segments existed in the regulatory regions of both edn and ecp. Our previous study indicated that the 34-nt segment is responsive for higher transcription activity of edn in comparison with ecp, via binding to transcription activator Sp1. In this study, the roles of the six discrete segments in transcription regulation were investigated and the -350/-329 region (ednR2) was shown to be involved in the regulation of edn expression. When the ednR2 segment of edn was replaced with that of ecp, a significant decrease in edn promoter activity was detected. Supershift, chromatin immunoprecipitation, and DNA affinity precipitation assays further showed that a transcription factor HNF4 bound to the ednR2 region of edn promoter in vitro. Interestingly, HNF4 overexpression resulted in the reduction of edn promoter activity in HepG2 cells, due to involvement of both ednR2 and the 34-nt regions, and direct interaction between HNF4 and Sp1, which abolishes Sp1 binging to the 34-nt segment. Moreover, when the Sp1 was depleted in the cell, overexpressed HNF4 enhanced edn promoter activity. Our results provide novel mechanisms for HNF4 function as an activator to regulate edn promoter activity, which account for differential transcription regulation of human eosinophil RNases.


Subject(s)
Eosinophil-Derived Neurotoxin/metabolism , Eosinophils/enzymology , Gene Expression Regulation/genetics , Hepatocyte Nuclear Factor 4/metabolism , Transcription, Genetic/genetics , Cell Line, Tumor , Eosinophil Cationic Protein/metabolism , Eosinophil-Derived Neurotoxin/genetics , Humans , Promoter Regions, Genetic/genetics , Protein Binding , Sp1 Transcription Factor/metabolism
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