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2.
Hum Reprod ; 35(7): 1505-1514, 2020 07 01.
Article in English | MEDLINE | ID: mdl-32538428

ABSTRACT

STUDY QUESTION: Can a machine-learning-based model trained in clinical and biological variables support the prediction of the presence or absence of sperm in testicular biopsy in non-obstructive azoospermia (NOA) patients? SUMMARY ANSWER: Our machine-learning model was able to accurately predict (AUC of 0.8) the presence or absence of spermatozoa in patients with NOA. WHAT IS KNOWN ALREADY: Patients with NOA can conceive with their own biological gametes using ICSI in combination with successful testicular sperm extraction (TESE). Testicular sperm retrieval is successful in up to 50% of men with NOA. However, to the best of our knowledge, there is no existing model that can accurately predict the success of sperm retrieval in TESE. Moreover, machine-learning has never been used for this purpose. STUDY DESIGN, SIZE, DURATION: A retrospective cohort study of 119 patients who underwent TESE in a single IVF unit between 1995 and 2017 was conducted. All patients with NOA who underwent TESE during their fertility treatments were included. The development of gradient-boosted trees (GBTs) aimed to predict the presence or absence of spermatozoa in patients with NOA. The accuracy of these GBTs was then compared to a similar multivariate logistic regression model (MvLRM). PARTICIPANTS/MATERIALS, SETTING, METHODS: We employed univariate and multivariate binary logistic regression models to predict the probability of successful TESE using a dataset from a retrospective cohort. In addition, we examined various ensemble machine-learning models (GBT and random forest) and evaluated their predictive performance using the leave-one-out cross-validation procedure. A cutoff value for successful/unsuccessful TESE was calculated with receiver operating characteristic (ROC) curve analysis. MAIN RESULTS AND THE ROLE OF CHANCE: ROC analysis resulted in an AUC of 0.807 ± 0.032 (95% CI 0.743-0.871) for the proposed GBTs and 0.75 ± 0.052 (95% CI 0.65-0.85) for the MvLRM for the prediction of presence or absence of spermatozoa in patients with NOA. The GBT approach and the MvLRM yielded a sensitivity of 91% vs. 97%, respectively, but the GBT approach has a specificity of 51% compared with 25% for the MvLRM. A total of 78 (65.3%) men with NOA experienced successful TESE. FSH, LH, testosterone, semen volume, age, BMI, ethnicity and testicular size on clinical evaluation were included in these models. LIMITATIONS, REASONS FOR CAUTION: This study is a retrospective cohort study, with all the associated inherent biases of such studies. This model was used only for TESE, since micro-TESE is not performed at our center. WIDER IMPLICATIONS OF THE FINDINGS: Machine-learning models may lay the foundation for a decision support system for clinicians together with their NOA patients concerning TESE. The findings of this study should be confirmed with further larger and prospective studies. STUDY FUNDING/COMPETING INTEREST(S): The study was funded by the Division of Obstetrics and Gynecology, Soroka University Medical Center, there are no potential conflicts of interest for all authors.


Subject(s)
Azoospermia , Azoospermia/therapy , Female , Humans , Machine Learning , Male , Pregnancy , Prospective Studies , Retrospective Studies , Sperm Retrieval , Spermatozoa , Testis
3.
Hum Reprod ; 34(6): 966-977, 2019 06 04.
Article in English | MEDLINE | ID: mdl-31111889

ABSTRACT

STUDY QUESTION: Is it feasible to disseminate testicular tissue cryopreservation with a standardized protocol through a coordinated network of centers and provide centralized processing/freezing for centers that do not have those capabilities? SUMMARY ANSWER: Centralized processing and freezing of testicular tissue from multiple sites is feasible and accelerates recruitment, providing the statistical power to make inferences that may inform fertility preservation practice. WHAT IS KNOWN ALREADY: Several centers in the USA and abroad are preserving testicular biopsies for patients who cannot preserve sperm in anticipation that cell- or tissue-based therapies can be used in the future to generate sperm and offspring. STUDY DESIGN, SIZE, DURATION: Testicular tissue samples from 189 patients were cryopreserved between January 2011 and November 2018. Medical diagnosis, previous chemotherapy exposure, tissue weight, and presence of germ cells were recorded. PARTICIPANTS/MATERIALS, SETTING, METHODS: Human testicular tissue samples were obtained from patients undergoing treatments likely to cause infertility. Twenty five percent of the patient's tissue was donated to research and 75% was stored for patient's future use. The tissue was weighed, and research tissue was fixed for histological analysis with Periodic acid-Schiff hematoxylin staining and/or immunofluorescence staining for DEAD-box helicase 4, and/or undifferentiated embryonic cell transcription factor 1. MAIN RESULTS AND THE ROLE OF CHANCE: The average age of fertility preservation patients was 7.9 (SD = 5) years and ranged from 5 months to 34 years. The average amount of tissue collected was 411.3 (SD = 837.3) mg and ranged from 14.4 mg-6880.2 mg. Malignancies (n = 118) were the most common indication for testicular tissue freezing, followed by blood disorders (n = 45) and other conditions (n = 26). Thirty nine percent (n = 74) of patients had initiated their chemotherapy prior to undergoing testicular biopsy. Of the 189 patients recruited to date, 137 have been analyzed for the presence of germ cells and germ cells were confirmed in 132. LIMITATIONS, REASONS FOR CAUTION: This is a descriptive study of testicular tissues obtained from patients who were at risk of infertility. The function of spermatogonia in those biopsies could not be tested by transplantation due limited sample size. WIDER IMPLICATIONS OF THE FINDINGS: Patients and/or guardians are willing to pursue an experimental fertility preservation procedure when no alternatives are available. Our coordinated network of centers found that many patients request fertility preservation after initiating gonadotoxic therapies. This study demonstrates that undifferentiated stem and progenitor spermatogonia may be recovered from the testicular tissues of patients who are in the early stages of their treatment and have not yet received an ablative dose of therapy. The function of those spermatogonia was not tested. STUDY FUNDING/COMPETING INTEREST(S): Support for the research was from the Eunice Kennedy Shriver National Institute for Child Health and Human Development grants HD061289 and HD092084, the Scaife Foundation, the Richard King Mellon Foundation, the Departments of Ob/Gyn & Reproductive Sciences and Urology of the University of Pittsburgh Medical Center, United States-Israel Binational Science Foundation (BSF), and the Kahn Foundation. The authors declare that they do not have competing financial interests.


Subject(s)
Cryopreservation , Fertility Preservation/methods , Infertility, Male/therapy , Testis , Adolescent , Adult , Age Factors , Antineoplastic Agents/adverse effects , Biopsy , Child , Child, Preschool , Fertility Preservation/standards , Hematologic Diseases/complications , Hematologic Diseases/therapy , Humans , Infertility, Male/etiology , Male , Neoplasms/complications , Neoplasms/therapy , Radiotherapy/adverse effects , Sperm Count , Sperm Retrieval , Spermatogonia/physiology , Young Adult
4.
J Photochem Photobiol B ; 180: 155-165, 2018 Mar.
Article in English | MEDLINE | ID: mdl-29433053

ABSTRACT

Early detection of soil-borne pathogens, which have a negative effect on almost all agricultural crops, is crucial for effective targeting with the most suitable antifungal agents and thus preventing and/or reducing their severity. They are responsible for severe diseases in various plants, leading in many cases to substantial economic losses. In this study, infrared (IR) spectroscopic method, which is known as sensitive, accurate and rapid, was used to discriminate between different fungi in a mixture was evaluated. Mixed and pure samples of Colletotrichum, Verticillium, Rhizoctonia, and Fusarium genera were measured using IR microscopy. Our spectral results showed that the best differentiation between pure and mixed fungi was obtained in the 675-1800 cm-1 wavenumber region. Principal components analysis (PCA), followed by linear discriminant analysis (LDA) as a linear classifier, was performed on the spectra of the measured classes. Our results showed that it is possible to differentiate between mixed-calculated categories of phytopathogens with high success rates (~100%) when the mixing percentage range is narrow (40-60) in the genus level; when the mixing percentage range is wide (10-90), the success rate exceeded 85%. Also, in the measured mixed categories of phytopathogens it is possible to differentiate between the different categories with ~100% success rate.


Subject(s)
Fungi/isolation & purification , Soil Microbiology , Spectroscopy, Fourier Transform Infrared , Colletotrichum/chemistry , Colletotrichum/isolation & purification , Discriminant Analysis , Fungi/chemistry , Fusarium/chemistry , Fusarium/isolation & purification , Microscopy , Multivariate Analysis , Principal Component Analysis , Rhizoctonia/chemistry , Rhizoctonia/isolation & purification , Verticillium/chemistry , Verticillium/isolation & purification
5.
Analyst ; 140(9): 3098-106, 2015 May 07.
Article in English | MEDLINE | ID: mdl-25790802

ABSTRACT

Colletotrichum coccodes (C. coccodes) is a pathogenic fungus that causes anthracnose on tomatoes and black dot disease in potatoes. It is considered as a seed tuber and soil-borne pathogen that is difficult to control. C. coccodes isolates are classified into Vegetative Compatibility Groups (VCGs). Early classification of isolates into VCGs is of great importance for a better understanding of the epidemiology of the disease and improving its control. Moreover, the differentiation among these isolates and the assignment of newly-discovered isolates enable control of the disease at its early stages. Distinguishing between isolates using microbiological or genetic methods is time-consuming and not readily available. Our results show that it is possible to assign the isolates into their VCGs and to classify them at the isolate level with a high success rate using Principal Component Analysis (PCA) and Linear Discriminant Analysis (LDA).


Subject(s)
Colletotrichum/chemistry , Plant Diseases/microbiology , Solanum lycopersicum/microbiology , Solanum tuberosum/microbiology , Spectrophotometry, Infrared , Colletotrichum/classification , Colletotrichum/isolation & purification , Discriminant Analysis , Principal Component Analysis
6.
J Photochem Photobiol B ; 141: 308-14, 2014 Dec.
Article in English | MEDLINE | ID: mdl-25463683

ABSTRACT

Phytophthora infestans (P. infestans) is the causal agent of late blight in potato and tomato. This pathogen devastated the potato crops in Ireland more than a century years ago and is still causing great losses worldwide. Although fungicides controlling P. infestans have been used successfully for almost 100 years, some isolates have developed resistance to most common fungicides. Identification and characterization of these resistant isolates is required for better control of the disease. Current methods that are based on microbiological and molecular techniques are both expensive and time consuming. Fourier Transform Infra-Red spectroscopy (FTIR) is an inexpensive and reagent-free technique that provides accurate results in only a few minutes. In this study the infrared absorption spectra of the sporangia of P. infestans were measured to evaluate the potential of FTIR spectroscopy in tandem with multivariate analysis in order to classify those sporangia into those that were resistant and those that were non-resistant to the phenylamide fungicide mefenoxam. Based on individual measurements, our results show that FTIR spectroscopy enables classification of P. infestans isolates into mefenoxam resistant and mefenoxam non-resistant types with specificity of 81.9% and sensitivity of 75.5%. Using average spectra per leaf, it was possible to improve the classification results to 88% sensitivity and 95% specificity.


Subject(s)
Alanine/analogs & derivatives , Phytophthora infestans/drug effects , Alanine/pharmacology , Discriminant Analysis , Drug Resistance , Fungicides, Industrial/pharmacology , Solanum lycopersicum/growth & development , Phytophthora infestans/chemistry , Phytophthora infestans/isolation & purification , Plant Diseases/parasitology , Plant Leaves/parasitology , Principal Component Analysis , Spectroscopy, Fourier Transform Infrared
7.
Methods ; 68(2): 325-30, 2014 Jul 01.
Article in English | MEDLINE | ID: mdl-24582779

ABSTRACT

In this study the potential of infrared (IR) spectroscopy for the classification of Colletotrichum coccodes (C. coccodes) isolates into vegetative compatibility groups (VCGs) was evaluated. Isolates which belong to the same VCG may have similar pathological and physiological traits that differ from those that are not assigned to the same VCG. Early classification of isolates into VCGs is of a great importance for a better understanding of the epidemiology of the disease and improves its control. The main goal of the present study was to classify 14 isolates of C. coccodes into VCGs and differentiate between them, based on their IR absorption spectra as obtained by the FTIR-ATR sampling technique. Advanced statistical and mathematical methods, including Principal Component Analysis (PCA) and Linear Discriminant Analysis (LDA), were applied to the spectra after manipulation. The results show that it is possible to assign the isolates into VCGs with more than 90% success based on the wavenumber low region (1800-800 cm(-1)) and using 15 PCs. However, on the isolate level, the best differentiation results were obtained using PCA (15 PCs) and LDA for the combined regions (2990-2800 cm(-1), 1800-800 cm(-1)), with identification success rates of 87.2%.


Subject(s)
Colletotrichum/classification , Colletotrichum/isolation & purification , Principal Component Analysis , Spectroscopy, Fourier Transform Infrared/methods , Genetic Variation , Models, Theoretical , Multivariate Analysis
8.
Methods ; 68(2): 364-70, 2014 Jul 01.
Article in English | MEDLINE | ID: mdl-24582780

ABSTRACT

Herpes viruses are involved in a variety of human disorders. Herpes Simplex Virus type 1 (HSV-1) is the most common among the herpes viruses and is primarily involved in human cutaneous disorders. Although the symptoms of infection by this virus are usually minimal, in some cases HSV-1 might cause serious infections in the eyes and the brain leading to blindness and even death. A drug, acyclovir, is available to counter this virus. The drug is most effective when used during the early stages of the infection, which makes early detection and identification of these viral infections highly important for successful treatment. In the present study we evaluated the potential of Raman spectroscopy as a sensitive, rapid, and reliable method for the detection and identification of HSV-1 viral infections in cell cultures. Using Raman spectroscopy followed by advanced statistical methods enabled us, with sensitivity approaching 100%, to differentiate between a control group of Vero cells and another group of Vero cells that had been infected with HSV-1. Cell sites that were "rich in membrane" gave the best results in the differentiation between the two categories. The major changes were observed in the 1195-1726 cm(-1) range of the Raman spectrum. The features in this range are attributed mainly to proteins, lipids, and nucleic acids.


Subject(s)
Herpes Simplex/diagnosis , Herpesvirus 1, Human/isolation & purification , Spectrum Analysis, Raman/methods , Virus Replication/drug effects , Acyclovir/administration & dosage , Animals , Antiviral Agents/administration & dosage , Chlorocebus aethiops , Herpes Simplex/drug therapy , Herpes Simplex/virology , Herpesvirus 1, Human/drug effects , Herpesvirus 1, Human/pathogenicity , Humans , Vero Cells/drug effects
9.
Differentiation ; 86(1-2): 38-47, 2013.
Article in English | MEDLINE | ID: mdl-23939027

ABSTRACT

Glial cell line-derived neurotrophic factor (GDNF) regulates spermatogonial stem cell (SSC) maintenance. In the present study, we examined the levels and the cellular origin of GDNF in mouse testes during age-development, and the capacity of GDNF to induce migration of enriched GFR-α1 positive cells in vitro. The involvement of MAP kinase (MEK) and NF-kB signal pathways were examined. Our results show high levels of GDNF in testicular tissue of one-week-old mice which significantly decreased with age when examined by ELISA, real time PCR (qPCR) and immunofluorescence staining (IF) analysis. GDNF receptor (GFR-α1) expression was similar to GDNF when examined by qPCR analysis. Only Sertoli cell cultures (SCs) from one-week-old mice produced GDNF compared to SCs from older mice. However, peritubular cells from all the examined ages did not produce GDNF. The addition of recombinant GDNF (rGDNF) or supernatant from SCs from one-week-old mice to GFR-α1 positive cells induced their migration in vitro. This effect was significantly reduced by the addition of inhibitors to MEK (PD98059, U0126), NF-kB (PDTC) and IkB protease inhibitor (TPCK). Our results show for the first time the capacity of rGDNF and supernatant from SCs to induce migration of enriched GFR-α1 positive cells, and the possible involvement of MEK, NF-kB and IkB in this process. This study may suggest a novel role for GDNF in the regulation SSC niches and spermatogenesis.


Subject(s)
Cell Movement , Glial Cell Line-Derived Neurotrophic Factor/metabolism , Mitogen-Activated Protein Kinase Kinases/metabolism , NF-kappa B/metabolism , Spermatogonia/physiology , Animals , Glial Cell Line-Derived Neurotrophic Factor/genetics , Glial Cell Line-Derived Neurotrophic Factor Receptors/genetics , Glial Cell Line-Derived Neurotrophic Factor Receptors/metabolism , Male , Mice , Mice, Inbred BALB C , Mitogen-Activated Protein Kinase Kinases/antagonists & inhibitors , NF-kappa B/antagonists & inhibitors , Proline/analogs & derivatives , Proline/pharmacology , Protein Kinase Inhibitors/pharmacology , Sertoli Cells/metabolism , Sertoli Cells/physiology , Spermatogenesis , Spermatogonia/cytology , Spermatogonia/metabolism , Thiocarbamates/pharmacology
10.
Biochim Biophys Acta ; 1830(3): 2720-7, 2013 Mar.
Article in English | MEDLINE | ID: mdl-23671933

ABSTRACT

BACKGROUND: Cancer is one of the leading worldwide causes of death. It may be induced by a variety of factors, including carcinogens, radiation, genetic factors, or DNA and RNA viruses. The early detection of cancer is critical for its successful therapy, which can result in complete recovery from some types of cancer. METHODS: Raman spectroscopy has been widely used in medicine and biology. It is a noninvasive, nondestructive, and water-insensitive technique that can detect changes in cells and tissues that are caused by different disorders, such as cancer. In this study, Raman spectroscopy was used for the identification and characterization of murine fibroblast cell lines (NIH/3T3) and malignant fibroblast cells transformed by murine sarcoma virus (NIH-MuSV) cells. RESULTS: Using principal component analysis and LDA it was possible to differentiate between the NIH/3T3 and NIH-MuSV cells with an 80-85% success rate based on their Raman shift spectra. CONCLUSIONS: The best results for differentiation were achieved from spectra that were obtained from the rich membrane sites. GENERAL SIGNIFICANCE: Because of its homogeneity and complete control of most factors affecting its growth, cell culture is a preferred model for the detection and identification of specific biomarkers related to cancer transformation or other cellular modifications.


Subject(s)
Cell Membrane/pathology , Cell Transformation, Neoplastic/pathology , Cell Transformation, Viral , Fibroblasts/pathology , Spectrum Analysis, Raman , Animals , Cell Membrane/virology , Cell Proliferation , Cytopathogenic Effect, Viral , Fibroblasts/virology , Mice , Molecular Diagnostic Techniques , Moloney murine sarcoma virus/physiology , NIH 3T3 Cells , Principal Component Analysis
11.
Analyst ; 137(15): 3558-64, 2012 Aug 07.
Article in English | MEDLINE | ID: mdl-22728584

ABSTRACT

Colletotrichum coccodes (C. coccodes) is a pathogenic fungus which causes anthracnose on tomatoes and black dot disease in potatoes. It is important to differentiate among these isolates and to detect the origin of newly discovered isolates, in order to treat the disease in its early stages. However, distinguishing between isolates using common biological methods is time-consuming, and not always available. We used Fourier Transform Infra-Red (FTIR)-Attenuated Total Reflectance (ATR) spectroscopy and advanced mathematical and statistical methods to distinguish between different isolates of C. coccodes. To our knowledge, this is the first time that FTIR-ATR spectroscopy was used, combined with multivariate analysis, to classify such a large number of 15 isolates belonging to the same species. We obtained a success rate of approximately 90% which was achieved using the region 800-1775 cm(-1). In addition we succeeded in determining the relative spectral similarity between different fungal isolates by developing a new algorithm. This method could be an important potential diagnostic tool in agricultural research, since it may outline the extent of the biological similarity between fungal isolates. Based on the PCA calculations, we grouped the fifteen isolates included in this study into four different degrees of similarity.


Subject(s)
Colletotrichum/isolation & purification , Multivariate Analysis , Spectroscopy, Fourier Transform Infrared
12.
Int J Pediatr Otorhinolaryngol ; 76(3): 419-22, 2012 Mar.
Article in English | MEDLINE | ID: mdl-22277266

ABSTRACT

OBJECTIVE: Fibrin glue is used as a haemostatic agent or as a sealant. The aim of this study is to objectively evaluate the efficacy of the use of fibrin glue Quixil - a human surgical sealer - in tonsillectomy, for the reduction of post-operative inflammatory response. STUDY DESIGN: A prospective randomized single-blind study. METHODS: The study was performed on 40 consecutive patients undergoing adenotonsillectomy (T&A). Patients were randomly assigned to one of two sub-groups: a study group and a control group. The tonsillar beds of patients in the study group were coated with fibrin glue (Quixil, OMRIX biopharmaceuticals) at the end of the operation; the patients in the control group were treated for hemostasis without the use of fibrin glue. Complete blood counts and circulating pro-inflammatory cytokines (assayed by specific immunoassay - ELISA) were assessed in samples drawn pre- and 16 h post-tonsillectomy. RESULTS: Forty patients (aged 5.8 ± 2.4 years) were consecutively enrolled; 45% (18) of the patients were treated with fibrin glue, 55% (22) were not. Compared to controls, Quixil-treated patients demonstrated a reduction in post-tonsillectomy circulating leukocytes (29.2% vs. 45.4%, p<0.05), neutrophiles (28.3% vs. 42.1%, p<0.05), IL-6 (+1% vs. +42%, p<0.05), and TNF-alpha (+8% vs. +26%, p<0.05. CONCLUSIONS: Intra-operative fibrin glue therapy is associated with decreased immediate inflammatory response following T&A. Further studies are warranted to assess long-term outcome. LEVEL OF EVIDENCE: 1B.


Subject(s)
Fibrin Tissue Adhesive/therapeutic use , Hemostatics/therapeutic use , Interleukin-6/blood , Tonsillectomy/adverse effects , Tonsillitis/blood , Tumor Necrosis Factor-alpha/blood , Adenoidectomy/adverse effects , Child , Child, Preschool , Female , Humans , Inflammation/blood , Inflammation/etiology , Inflammation/prevention & control , Male , Prospective Studies , Single-Blind Method , Sleep Apnea, Obstructive/blood , Sleep Apnea, Obstructive/pathology , Sleep Apnea, Obstructive/surgery , Tonsillitis/pathology , Tonsillitis/surgery
13.
Andrologia ; 44(1): 1-8, 2012 Feb.
Article in English | MEDLINE | ID: mdl-21615452

ABSTRACT

Recently, IL-18 was identified in human testes. Moreover, an inverse correlation was found between the levels of IL-18 and the number and motility of spermatozoa. We examined the presence of IL-18 protein in normal and impaired spermatogenesis. Testicular tissue specimens were taken from 25 nonobstructive azoospermic patients undergoing testicular sperm extraction and from autopsies of three healthy controls. The presence of IL-18 in human testicular cells was examined by immunohistochemical staining of paraffin-embedded sections, using a specific antibody for human IL-18. In testicular tissue of healthy controls as well as in study cases, presence of IL-18 was identified in somatic, mitotic, meiotic and post-meiotic cells in correlation with their presence. In all patients, Leydig cells were less intensively stained. Mitotic cells were immunostained in the control group and less intensively in hypospermatogenesis and maturation arrest subgroups. Primary spermatocytes were in general most efficiently stained. The expression of IL-18 mRNA (as examined by real-time PCR analysis) showed significantly lower expression in testicular tissues with impaired spermatogenesis when compared to normal tissues. We report the first study demonstrating the presence of IL-18 in human testicular tissue at the protein level. The presence of this cytokine in somatic as well as in different types of germ cells may suggest its involvement in the regulation of the spermatogenic process and steroidogenesis under physiological and pathological conditions.


Subject(s)
Fertility/immunology , Infertility, Male/immunology , Interleukin-18/metabolism , Testis/immunology , Azoospermia/genetics , Azoospermia/immunology , Base Sequence , Case-Control Studies , Fertility/genetics , Humans , Immunohistochemistry , Infertility, Male/genetics , Interleukin-18/genetics , Klinefelter Syndrome/genetics , Klinefelter Syndrome/immunology , Male , RNA, Messenger/genetics , RNA, Messenger/metabolism , Sertoli Cell-Only Syndrome/genetics , Sertoli Cell-Only Syndrome/immunology , Spermatogenesis/immunology
14.
Analyst ; 136(13): 2818-24, 2011 Jul 07.
Article in English | MEDLINE | ID: mdl-21611647

ABSTRACT

Microscopic Fourier transform infrared spectroscopy (FTIR) which is based on the characteristic molecular vibrational spectra of cells was previously applied for the identification of various biological samples. In the present study, FTIR spectroscopy was used for the characterization of different stages during the development of herpes viruses infection. Vero cells in culture were infected with high and low doses of different herpes viruses [herpes simplex virus types 1 and 2 (HSV-1, -2) or varicella-zoster virus (VZV)], and cellular changes were observed by optical and electron microscopy and analyzed by FTIR microscopy at different periods of time post-infection. Specific different spectral changes were observed at various stages of the viral infection development. The spectral intensity in the 1220-1260 cm(-1) region (mainly attributed to phosphate levels) was considerably increased in all infected cells compared to normal uninfected cells during the early stages of the viral infection development. However, at the late stages of the viral infection development (when all the cells in the infected culture lost their spindle shape and became circular) the spectral intensities in this region significantly decreased in the infected compared to the control cells. In addition, the peak at 1023 cm(-1), attributed to carbohydrates, almost fully disappeared at early stages of the viral infection development, whereas at late stages of the infection it raised to an equivalent or higher level than that of the uninfected control cells. These results support the potential of developing FTIR microspectroscopy as a simple, reagent free method for the early detection and accurate differentiation of different stages during the development of herpes virus infection.


Subject(s)
Alphaherpesvirinae/physiology , Spectroscopy, Fourier Transform Infrared/methods , Animals , Artifacts , Chlorocebus aethiops , Microscopy, Electron, Scanning , Vero Cells , Viral Load
15.
Analyst ; 136(5): 988-95, 2011 Mar 07.
Article in English | MEDLINE | ID: mdl-21258677

ABSTRACT

Fusarium is a large fungi genus of a large variety of species and strains which inhabits soil and vegetation. It is distributed worldwide and affiliated to both warm and cold weather. Fusarium oxysporum species, for instance, cause the Fusarium wilt disease of plants, which appears as a leaf wilting, yellowing and eventually plant death. Early detection and identification of these pathogens are very important and might be critical for their control. Previously, we have managed to differentiate among different fungi genera (Rhizoctonia, Colletotrichum, Verticillium and Fusarium) using FTIR-ATR spectroscopy methods and cluster analysis. In this study, we used Fourier-transform infrared (FTIR) attenuated total reflection (ATR) spectroscopy to discriminate and differentiate between different strains of F. oxysporum. The result obtained was of spectral patterns distinct to each of the various examined strains, which belong to the same species. These differences were not as significant as those found between the different genera species. We applied advanced statistical techniques: principal component analysis (PCA) and linear discriminant analysis (LDA) on the FTIR-ATR spectra in order to examine the feasibility of distinction between these fungi strains. The results are encouraging and indicate that the FTIR-ATR methodology can differentiate between the different examined strains of F. oxysporum with a high success rate. Based on our PCA and LDA calculations performed in the regions [900-1775 cm(-1), 2800-2990 cm(-1), with 9 PCs], we were able to classify the different strains with high success rates: Foxy1 90%, Foxy2 100%, Foxy3 100%, Foxy4 92.3%, Foxy5 83.3% and Foxy6 100%.


Subject(s)
Fungi/classification , Fusarium/isolation & purification , Spectroscopy, Fourier Transform Infrared/methods , Statistics as Topic , Algorithms , Discriminant Analysis , Fungi/genetics , Fusarium/genetics , Principal Component Analysis
16.
Analyst ; 135(8): 1934-40, 2010 Aug.
Article in English | MEDLINE | ID: mdl-20526516

ABSTRACT

In last decades infrared spectroscopy has demonstrated potential as a novel technology for early cancer diagnosis. Among the various IR spectroscopic techniques special interest has arisen from methods based on evanescent wave absorbance due to the possibility for in situ and in vivo implementation. The goal of the present study is to examine the potential of Attenuated Total Reflectance (ATR) spectroscopy for early detection of premalignant changes. As a model we used both cell lines and primary cells, which were transformed to be malignant by a retrovirus. Spectral measurements were performed at various post infection stages in parallel with morphological observations. Our results showed gradual and consistent spectral alterations in both cell cultures due to carcinogenesis, which were outlined using Principal Component Analysis (PCA). The main spectral differences appeared in three spectral ranges: at 3000-2800 cm(-1) (attributed to stretching vibrational modes of lipids and proteins), at 1470-1300 cm(-1)(attributed to bending overlapping modes of lipids and proteins) and also at the highly overlapping spectral range at 1000-1200 cm(-1) (attributed to bending and starching vibrational modes corresponding to all types of biological macromolecules). In order to obtain robust unsupervised classifications of the malignant progression we applied approaches of Linear Discriminant Analysis (LDA). The classifications based on Mahalanobis distances allowed us to discern that the accuracy of successful identification of premalignant stages varied between 86.5-97.2%. Our results show that ATR spectroscopy in tandem with proper statistical tools may provide a promising technique for early detectable signals of malignant progression.


Subject(s)
Early Detection of Cancer/methods , Precancerous Conditions/diagnosis , Spectrophotometry, Infrared/methods , Animals , Cells, Cultured , Discriminant Analysis , Fibroblasts/cytology , Mice , NIH 3T3 Cells , Principal Component Analysis , Sensitivity and Specificity
17.
Eur Biophys J ; 38(7): 971-80, 2009 Sep.
Article in English | MEDLINE | ID: mdl-19499216

ABSTRACT

Light-induced fluorescence (LIF) spectroscopy has demonstrated ability as a novel, noninvasive and sensitive technology for early detection of cancer. The goal of the present study is to examine the potential of this spectroscopic method for early detection and characterization of premalignant changes. As a model we used both cell lines and primary cells, which were transformed to malignant by retrovirus. Fluorescence measurements and morphological observations of the infected cells were performed at various postinfection times. Our results showed gradual attenuation of fluorescence intensities due to cancer progression which corresponds to aromatic amino acids and nicotinamide adenine dinucleotide (NADH) molecules. In order to obtain grading and supervised classifications of the spectral premalignant changes we used approaches of linear discriminant analysis. The classifications based on Mahalanobis distances allowed us to demonstrate that the accuracy of identification of premalignant stages varied between 83.1% and 96.4%. In summary, we conclude that LIF in tandem with proper statistical tools may be a promising technique for early detection of malignant progression.


Subject(s)
Cell Transformation, Viral , Light , Neoplasms/pathology , Animals , Cell Line , Discriminant Analysis , Fluorescence , Humans , Linear Models , Mice , Moloney murine leukemia virus/physiology , Spectrometry, Fluorescence , Time Factors
18.
Placenta ; 29(7): 593-601, 2008 Jul.
Article in English | MEDLINE | ID: mdl-18471873

ABSTRACT

The aim of the present study was to examine the effect of lipopolysaccharide (LPS) on the secretion of the pro-inflammatory cytokine interleukin-1beta (IL-1beta) and of its natural inhibitor interleukin-1 receptor antagonist (IL-1Ra), by perfused human term and preterm placental tissue. Eight term and eight preterm placentae were collected immediately after delivery; four term and four preterm placentae were perfused with control medium (without LPS) and the other four term and four preterm placentae were perfused with medium containing LPS. The release of IL-1beta into the maternal compartment by term placenta was significantly higher than the release by preterm placenta (p<0.001). However, there were no significant differences between IL-1beta levels released into the fetal compartments of term and preterm placentae. No significant differences were observed in the release of IL-1Ra into the maternal and fetal compartments of term placenta, when compared to preterm placenta. Exposure to LPS significantly decreased the capacity of term placenta to release IL-1beta into the maternal compartment (p<0.001) and increased the capacity of term placenta to release IL-1Ra into the maternal and fetal compartments (p<0.001 and p=0.017, respectively). However, the capacity of preterm placentae to release IL-1beta and IL-Ra into the maternal and fetal compartments was not affected by LPS. IL-1beta was expressed by both term and preterm placentae before and after perfusion (+/- LPS), by epithelial cells of the amnion, chorion, by syncytiotrophoblast and stromal cells of villous tissue and by the decidua. IL-1Ra in term and preterm placentae was expressed before perfusion mainly in epithelial cells of the amnion. After perfusion of term placentae (+/- LPS), additional IL-1Ra expression was seen in epithelial cells of the amnion and in syncytiotrophoblast and stromal cells of villous tissue and by the decidua. However, perfusion of preterm placentae (+/- LPS) did not affect IL-1Ra expression. The localization of IL-1beta and IL-1Ra in both term and preterm human placental tissue suggests a their physiologic role. The data presented indicates that the IL-1 system in term and preterm placentae seems to be differently affected by LPS. Down-regulation in the release of the pro-inflammatory cytokine IL-1beta and the up-regulation of its antagonist (IL-1Ra) may be a part of the inflammatory response to infection in human term, but not preterm, placentae. The IL-1 system in term and preterm placentae seems to be differently affected by LPS.


Subject(s)
Interleukin 1 Receptor Antagonist Protein/metabolism , Interleukin-1beta/metabolism , Lipopolysaccharides/pharmacology , Placenta/drug effects , Premature Birth , Term Birth , Female , Humans , Lipopolysaccharides/administration & dosage , Organ Culture Techniques , Perfusion , Placenta/metabolism , Pregnancy , Premature Birth/metabolism , Term Birth/metabolism , Time Factors
19.
J Microsc ; 228(Pt 2): 200-10, 2007 Nov.
Article in English | MEDLINE | ID: mdl-17970920

ABSTRACT

The present study focuses on evaluating the potential of flattened AgClBr fibre-optic evanescent wave spectroscopy (FTIR-FEWS) technique for detection and identification of cancer cells in vitro using cell culture as a model system. The FTIR-FEWS results are compared to those from FTIR-microspectroscopy (FTIR-MSP) method extensively used to identify spectral properties of intact cells. Ten different samples of control and malignant cells were measured in parallel by the above two methods. Our results show a significant similarity between the results obtained by the two methodologies. The absorbance level of Amide I/Amide II, phosphates and carbohydrates were significantly altered in malignant compared to the normal cells using both systems. Thus, common biomarkers such as Amide I/Amide II, phosphate and carbohydrate levels can be derived to discern between normal and cancer cells. However, marked differences are also noted between the two methodologies in the protein bands due to CH3 bending vibration (1480-1350 cm(-1)). The spectral differences may be attributed to the variation in the penetration depth of the two methodologies. The use of flattened fibre rather than the standard cylindrical fibre has several practical advantages and is considered as an important step towards in vivo measurements in real time, such as that of skin nevi and melanoma using special designs of fibre-optic-based sensors.


Subject(s)
Spectroscopy, Fourier Transform Infrared/methods , Animals , Cell Line, Transformed/ultrastructure , Fiber Optic Technology , Mice , NIH 3T3 Cells/ultrastructure , Neoplasms/diagnosis , Sensitivity and Specificity
20.
Neuroscience ; 141(4): 1909-18, 2006 Sep 15.
Article in English | MEDLINE | ID: mdl-16806718

ABSTRACT

Intrauterine inflammation is a major risk for offspring neurodevelopmental brain damage and may result in cognitive limitations and poor cognitive and perceptual outcomes. In the present study we tested the possibility that prenatal exposure to a high level of inflammatory factors may increase the risk for neurodegeneration in aging. The effect of systemic maternal inflammation (MI), induced by lipopolysaccharide (LPS) on offspring brain aging, was examined in 8 month old (adult) and 20 month old (aged) offspring mice. A significant effect of age was found in the distance and velocity of exploration in the open field in both groups. In addition, MI aged offspring covered longer distances and enter frequently to the center of the field compared with the aged control group. Although only little difference was found in the aged MI offspring compared with the control offspring, the overall profile of behavior of these mice differs from that of the control group, as detected by clustering analysis. The expression of the death-associated protein FAS-ligand and the amount of apoptotic cell death were examined in the brains of aged offspring. Similar levels of FAS-ligand expression and parallel density of apoptotic cells were detected in the brains of aged mice of control and MI groups. Altogether, moderate systemic MI was not found to increase the risk for cell death in the aged offspring; limited effect was found in mice profile of behavior.


Subject(s)
Aging/physiology , Inflammation/metabolism , Prenatal Exposure Delayed Effects , Age Factors , Aging/drug effects , Analysis of Variance , Animals , Animals, Newborn , Behavior, Animal , Brain/drug effects , Brain/growth & development , Brain/pathology , Cell Death/physiology , Cytokines/metabolism , Exploratory Behavior , Fas Ligand Protein/metabolism , Female , Gestational Age , Immunohistochemistry/methods , Inflammation/chemically induced , Inflammation/pathology , Learning/physiology , Lipopolysaccharides/toxicity , Mice , Motor Activity/drug effects , Motor Activity/physiology , Pregnancy , Pregnancy Complications
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