Rasooly1 1fda center for food safety and applied nutrition, college park, md, and 2fda center for biologics evaluation and research. Dna microarray for genotyping antibiotic resistance. Investigating the molecular mechanisms of organophosphate. A novel mechanism of gall midge resistance in the rice.
The mechanisms of drug resistance are multifactorial, including disruption of transporter pumps, oncogenes, tumor suppressor genes, dna repair system, mitochondrial alterations, autophagy and epithelialmesenchymal transition 9,10. However, the molecular basis of this resistance remains uncharacterized. Further analysis indicated that the antibiotic resistance genes in the ch, sc. Toxicogenomic analysis of sodium hypochlorite antimicrobial. Based on an array of bioinformatics analyses of our microarray data and rtqpcr validation, we found that four main mechanisms are likely to contribute in concert to the resistance. The software package is composed of discrete application modules that enable you to obtain a comprehensive view of the genome, gene expression, and gene regulation. Pyrazinamide pza is a key antibiotic for the treatment of drug susceptible tuberculosis. Selection of a field population with acephate significantly increased resistance ratio to 5. Understanding stress resistance mechanisms in plants. Preoperative 5fluorouracil 5fu based chemoradiotherapy is a standard treatment for locally advanced colorectal cancer crc. Identification of genes associated with platinum drug. Mechanism of sorafenib resistance in patients with. Effective databases, tools and software influence final outcomes, so a professional. The pdrmediated drug resistance was concluded to be the predominant mechanism of clinical azole resistance among the c.
Microarray analysis of erythromycin resistance determinants. Microarray analysis of circular rna expression profile. To evaluate the use of a microarray for the detection of erythromycin resistance genes, we used the six mls. Multimodal models integrating experimental data, databases, and the literature results from relevant, prior nsf support next generation software. Application of microarray and functionalbased screening methods. Similar frequencies were observed in another study on poultry in china , while among human utis the frequency of genes differs between community and clinical samples. Within powerful tools of analysis, microarray technology is being widely applied to this field, since it allows the simultaneous investigation of the expression of thousands of genes, giving a more complex picture of the potential molecular mechanisms underlying drug resistance. The fall armyworm spodoptera frugiperda is an economically important pest of small grain crops that occurs in all maize growing regions of the americas. Microarraybased detection and expression analysis of. Microarray analysis of the transcriptome for bacterial wilt resistance in pepper capsicum annuum l. It also provides further evidence of the diverse reservoir of resistance mechanisms present in.
To develop a dna microarray for analysis of genes encoding resistance determinants to erythromycin and the related macrolide, lincosamide and streptogramin b mls compounds. A microarray study of altered gene expression after cytarabine resistance in acute myeloid leukemia. To better understand acephate resistance mechanisms, biological, biochemical, and molecular experiments were systematically conducted with susceptible lls and acephateselected llr strains. We developed a dna microarray for genotyping genetic resistance determinants in a. Breast cancer chemoresistanceassociated mirna microarray. Use of highdensity tiling microarrays to identify mutations.
The present study was conducted to investigate the effects of dietary plantderived phytonutrients, carvacrol, cinnamaldehyde and capsicum oleoresin, on the translational regulation of genes associated with immunology, physiology and metabolism using highthroughput microarray analysis and in vivo disease challenge model of avian coccidiosis. The tarnished plant bug has become increasingly resistant to organophosphates in recent years. A transcriptomics approach to unveiling the mechanisms of. In conclusion, this oligonucleotide microarray was easily, simply and inexpensively constructed, and is capable of identifying a variety of antimicrobial resistance genes in diverse bacteria. Microarray analysis in human hepatocytes suggests a. Investigation of mechanisms of bendiocarb resistance in.
Microarraybased assay for antibiotic resistance abr detection developed. By using software default cutoff values, fragments toward the 3 end of the genes between 70 and 300 bp in length were selected as probes for the microarray, provided they matched the criteria of 75% similarity to all other genes in the an. The resulting global geneexpression profile, also called the bacterial transcriptome, is, thus, being used to elucidate the bacterial responses to antibiotic stress and to better define the mechanism of action of antimicrobial compounds. The presence of antimicrobial resistance and virulence factors of 174 escherichia coli strains isolated from healthy portuguese gallus gallus was evaluated. An oligonucleotidebased dna microarray was custom designed roche nimblegen to detect antibiotic resistance genes in human gut microbiota. Our studies demonstrate the feasibility of obtaining potential molecular profile or fingerprint of anticancer drugs in cancer cells by cdna microarray, which might yield further insights into the mechanisms of drug resistance and suggest alternative methods of treatment.
Exploring the mechanisms of resistance to teladorsagia. Monitoring the expression profiles of doxorubicininduced. As described above, the mls microarray contains seven different 20 to 30 long nucleotides oligoprobes for each of genes. In this report, we used a dna microarray chip covering 369 resistance types to. Gene expression and pathway analysis of ovarian cancer cells.
The microarray covers determinants for various mechanisms of resistance, like enzymatic inactivation of antibiotics, enzymatic modification, mutation of the target sites, gene. Dna microarray analysis reveals that antibiotic resistance. Integrated detection of extendedspectrumbetalactam. The present study objective is to investigate mechanisms promoting resistance to bendiocarb in an. An ebook reader can be a software application for use on a computer such as microsofts free reader application, or a booksized computer the is used solely as a reading device such as nuvomedias rocket ebook. The power of these tools has been applied to a range of applications, including discovering novel disease subtypes, developing new diagnostic tools, and identifying underlying mechanisms of disease or drug response.
A highly specific microarray to study metabolicbased insecticide resistance in malaria vectors jeanphilippe david, clare strode, john vontas, dimitra nikou, ashley vaughan, patricia m. Optimized nitrogen management enhances lodging resistance of rice and its morphoanatomical, mechanical, and molecular mechanisms skip to. Antimicrobial resistance determinants detection by microarray supported the high resistance observed to betalactams and tetracyclines. Extendedspectrum betalactamase esbl phenotype was observed in 18% of the. Dna microarray analysis reveals that antibiotic resistancegene.
Two different erm erythromycin ribosome methylation methylase genes, erm b and erm a tr variant, are the most common in spyogenes 11. Aug 22, 2016 resistance to the carbamate insecticide bendiocarb is emerging in anopheles gambiae populations from the city of yaounde in cameroon. Mechanism of sorafenib resistance in patients with advanced hepatocellular carcinoma the safety and scientific validity of this study is the responsibility of the study sponsor and investigators. Microarray analysis of erythromycin resistance genes. Microarray and molecular analyses of the azole resistance. Microarrays targeting resistance determinants have been described with focus on certain species 30, 45, 46, 49, specific resistance mechanisms 10, 53, or resistance. Pdf dna microarray analysis reveals that antibiotic resistance. Pza resistance is mainly mediated by mutations in the pnca gene. Monitoring the expression profiles of doxorubicininduced and. To better understand acephate resistance mechanisms, biological. Current understanding of drug resistance development in response to cytostatic drugs is based largely on research on drugsensitive and resistant pairs of cell lines. Our results demonstrated several differentially expressed circrnas that may be involved in the transformation of the gem resistance of pc and may provide potential molecular biomarkers or therapeutic targets for pc in the future. Emergence of resistance implies that tumor cells are able to survive chemotherapy and eventually metastasize. The rapid evolution of toxin resistance in animals has important consequences for the ecology of species and our economy.
A microarray study of altered gene expression after cytarabine. However, the effect of 5fubased chemoradiotherapy on crc is limited due to the development of chemoradiation resistance crr, and the molecular mechanisms underlying this resistance are yet to be investigated. Gene expression array analysis bioinformatics tools omicx. Examples of areas investigated by use of microarray analysis are oxidative stress and effect of antibacterial compounds intended for both disinfection and pharmaceutical use 27, 40, 43.
Evidence suggest that drug resistance mechanisms other than. Volume 10, issue 2, article r21research open access use of highdensity tiling microarr ays to identify mutations globally and elucidate mechanisms of drug resistance in plasmodium. Development of a dna microarray to detect antimicrobial. We first constructed a custom highdensity microarray containing over 4. Dna microarrays, on the other hand, are an increasingly used tool for multiplexed genotyping. Genomics and proteomics toxicogenomic analysis of sodium hypochlorite antimicrobial mechanisms in pseudomonas aeruginosa david a. Microarray analysis of erythromycin resistance determinants d. The objective of the present study was to evaluate the potential development of dna microarray chips to detect rifampicin rfp and isoniazid inh resistance in mycobacterium tuberculosis mtb, using samples from clinical tuberculosis tb patients in soochow city, china. Molecular mechanisms of resveratrol action in lung cancer. The involvement of a pdrmediated drug resistance mechanism in the clinical resistant isolates was further confirmed by molecular genetic analysis. To understand the mechanisms and epidemiology of antimicrobial resistance. Microarray analysis of gene expression in drug resistant ovarian cancer cell lines.
We found that increasing the number of resistance mechanisms. Mar 12, 2014 the human gut is a reservoir for antibiotic resistance genes. To identify mechanisms and mediators of resistance to antiangiogenic therapy in human glioblastoma. List of degs identified as ginactivated genes in the analysis of the abomasal lymph node samples that have not been previously reported as gin related genes and that could be related to the immune mechanisms specifically activated in adult sheep. A cdnamicroarray analysis of camptothecin resistance in. To identify genes and pathways important in the development of drug resistance, we performed gene expression profiling analysis on the ov90 drug sensitive cell line and on the resistant cell lines using illumina sentrix microarrays. Today, more than antibiotic resistance mechanisms were described 10,22. Pesticide resistance in insects has been a subject of intensive study, however, very little is known about how drosophila species became resistant to natural toxins with ecological relevance, such as. Current approaches for microarraybased gene expression profiling analysis. Microarrays targeting resistance determinants have been described with focus on certain species 30, 45, 46, 49, speci. The antimicrobial resistance determinant microarray ardm. Predictive performance of microarray gene signatures. Optimized nitrogen management enhances lodging resistance. Applications of microarray technology in breast cancer.
The expression profiles may reveal the mode of action of the compound and may also provide information on potential resistance mechanisms. Pesticide resistance in insects has been a subject of intensive study. Dna microarray analysis of fluconazole resistance in a. Frontiers the mechanisms of maize resistance to fusarium. Dna microarray detection of antimicrobial resistance genes. Dna microarray detection of antimicrobial resistance genes in. Shawn carbonell, yulong hu, sean tsao, maxwell wing tom. If resistance to a given drug or combinatorial therapy is caused by more than one mechanism, robust and highly accurate predictive gene signatures may not be successfully derived using current bioinformatics approaches, even if. Analysis of the mechanisms of drug resistance in cancer by dna microarray. Dna microarray for the detection of antimicrobial resistance genes in virtually any bacteria. Lowcost microarray platform to detect antibiotic resistance genes.
Microbiome as a tool and a target in the effort to address antimicrobial resistance. Use of dna microarray chips for the rapid detection of. In a gene targetbased approach, a microarray was employed to screen for the presence of over 70 clinically important resistance genes. Germany using iconoclust software, as already described standard version. The antimicrobial resistance determinant microarray ardm overview fundamental biology materials sensors energy with improvement in frontline trauma care, efficiency of medical evacuation on the battlefield, and widespread use of body armor, the rate of battlefield mortality has decreased significantly, with increasing numbers of soldiers. Due to political instability and socioeconomic challenges in the region, knowledge of insecticide resistance status and resistance mechanisms in these vectors is limited. Microarray analysis of gene regulations and potential. To determine the molecular basis for this potentially clinically relevant resistance mechanism, we applied cdna microarray analysis to the same set of cell lines in the present study. Potential mechanisms of resistance to venetoclax and. We carried out microarray gene expression analysis and immunohistochemistry comparing 21 recurrent glioblastomas progressing during antiangiogenic treatment with vegf neutralizing antibody bevacizumab to paired pretreatment tumors from the same patients.
Microarray analysis of gene regulations and potential association. To address the challenge of detecting and identifying myriad sources of resistance, we have developed the antimicrobial resistance determinant microarray ardm to provide dnabased analysis for 278 resistance genes covering 12 classes of antibiotics. Optimized nitrogen management enhances lodging resistance of. Genes identified by microarray were not recovered in the activitybased screen, indicating that these two methods can be complementary in facilitating the identification of a range of resistance mechanisms present within the human microbiome. The functional ampicillin resistance screen recovered genes encoding. Application of microarray and functionalbased screening. Lite microarray analysis system and scanarray express software version 1. Resistance profiles were determined against 33 antimicrobials by microbroth dilution.
Bacteria possess a wide range of antimicrobial resistance mechanisms against different types of antibiotics, and several microbiological methods can be used to identify multidrugresistant bacteria. Dec 30, 2019 optimized nitrogen management enhances lodging resistance of rice and its morphoanatomical, mechanical, and molecular mechanisms skip to main content thank you for visiting. Rasooly1 1fda center for food safety and applied nutrition, college park, md, and 2fda center for biologics evaluation and research, rockville, md, usa 2002252. Resistance was prevalent for tetracycline 70% and ampicillin 63%. The human gut is a reservoir for antibiotic resistance genes. These cells were then compared to their parental counterparts for obvious changes in bcl2 family gene sequences or copy number, bcl2 family transcript levels, andor the expression of bcl2 family proteins to gain a better understanding of the mechanisms of resistance to venetoclax. In order to explore if multiple mechanisms confer the resistance. In order to gain insights into the molecular mechanisms underlying the phenotypic changes leading to differential acquisition of resistance to four azoles, the transcriptomewide changes occurring on the 21st, 31st, and 45th days of fluconazole induction were analyzed by microarray hybridization.
One goal of this study was to determine whether we could use hybridization methods to detect snps and cnvs globally in the p. Genomestudio software enables you to visualize and analyze microarray data generated on illumina platforms. In this report, we used a dna microarray chip covering 369 resistance types to investigate the relationship between antibiotic. Request pdf dna microarray detection of antimicrobial resistance genes in. This microarray contained a total of 8,746 probes targeting 2,915 antibiotic resistance genes that were classified into 369 antibiotic resistance gene types according to the ardb. Microarray gene expression profiling and highthroughput immunoblotting powerblot methodologies were employed to gain insights into the molecular mechanisms of resveratrol action in human lung cancer. Dna microarrays are an exceptional tool for detecting multiple ar genes in a. Pesticide resistance in insects has been a subject of intensive study, however.
However, the molecular mechanisms underlying the infection process remain poorly understood, which hampers the application of quantitative resistance in breeding programs. Rapid microarraybased assay for detection of pyrazinamide. Genome wide expression analysis by oligonucleotide microarray may provide a new insight into novel candidate genes that are involved in drug resistance. Mechanisms of antimicrobial resistance in bacteria. Dec 01, 2015 the rapid evolution of toxin resistance in animals has important consequences for the ecology of species and our economy. The objective of our study was to provide a molecular analysis using dna microarray based assays of commensal e. Identification of differentially expressed genes in mg63. Zhu yc, guo z, he y, luttrell r 2012 microarray analysis of gene regulations and potential association with acephate resistance and fitness. The identification of genetic changes that confer drug resistance or other phenotypic changes in pathogens can help optimize treatment strategies, support the development of new therapeutic agents, and provide information about the likely function of genes. In this study, we evaluated the usefulness of oligonucleotide resequencing microarrays for identifying gas and its associated antibiotic resistance markers. But, this article focuses on dna microarray technology as an effective methodology for recognising antibioticresistance properties among bacterial strains. Apr 27, 2018 novel candidate genes for gin resistance response presented in this work. In summary, microarray gene expression, blast2go annotation, and other molecular comparisons, in concert with bioassays and enzyme activity data, revealed a significant increase of metabolic processes in the acephateselected strain, suggesting metabolic detoxification as a major resistance mechanism. Analysis of the mechanisms of drug resistance in cancer by.
The methods described in this study can be used to design a microarray capable of detecting all sequenced antimicrobial resistance genes. Two nonculture based approaches were employed to obviate potential bias associated with difficult to culture members of the microbiota. Pdf microarray analysis of erythromycin resistance determinants. In this study, we used a combination of experimental approaches to understand the biological activity and molecular mechanisms of resveratrol. Drug resistance in cancer is a major obstacle to successful chemotherapy. Elucidating mechanisms of phenotypic drug resistance can also assist in identifying the mode of action of uncharacterized but potent. A microarray analysis the rapid evolution of toxin resistance in animals has important consequences for the ecology of species and our economy. Macrolide resistance in streptococci occurs predominantly by two mechanisms. Synergism assays and microarray analysis suggested that metabolic mechanisms were most likely responsible for the temephos resistance. Listing a study does not mean it has been evaluated by the u. Interestingly, although the greatest synergism was observed with the carboxylesterase inhibitor, def, the primary candidate genes from the microarray analysis, and confirmed by quantitative pcr, were cytochrome.
Evaluation of an expanded microarray for detecting antibiotic. Only the common target genes predicted by at least nine types of software were. The democratic republic of the congo drc is characterized as a holoendemic malaria area with the main vectors being anopheles funestus and members of the anopheles gambiae complex. Gene expression microarray or dna microarray is a very powerful highthroughput tool capable of monitoring the expression of thousands of genes in an organism simultaneously. Microarray studies, therefore, provide a snapshot of the genomewide response of an organism to its environment.
Use of resequencing oligonucleotide microarrays for. Its diverse applications include monitoring chromosome gains and losses, tumour classification, drug discovery and development, dna resequencing, mutation detection and investigating the mechanism of tumour development. Abcb1 mdr1 induction defines a common resistance mechanism in paclitaxel and olaparibresistant ovarian cancer cells skip to main content thank you for visiting. Using microarray gene signatures to elucidate mechanisms. Microarray analysis of circular rna expression profiles. Microarray analysis of the transcriptome for bacterial. Dna microarray analysis of fluconazole resistance in a laboratory candida albicans strain article in acta biochimica et biophysica sinica 4012. Analysis of the mechanisms of drug resistance in cancer by dna microarray by roald ravatn, msc, phd and khewvoon chin, phd drug resistance in cancer is a major obstacle to successful chemotherapy. The oligonucleotide microarray is a promising new technology which could potentially address this need. May 17, 2018 we then performed microarray analysis of sw1990gz cells, along with their parental control cells. Microarray analysis verifies two distinct phenotypes of. The mechanisms of sheep resistance to gin infections involve complex immune responses. Malaria vectors in the democratic republic of the congo. Bioinformatic identification of chemoresistanceassociated.
Microarraybased detection of resistance and virulence. The intensive use of chemical pesticides for its control has led to the selection of resistant populations, however, to date, the molecular mechanisms underlying resistance have not been characterised. To understand the mechanisms and epidemiology of antimicrobial resistance, frye. Microarray evaluation of antimicrobial resistance and. Here, we reveal the disease resistance mechanism of the maize inbred line of bt1 which displays high resistance to ear rot using rna high throughput sequencing. Microarray analysis verifies two distinct phenotypes of glioblastomas resistant to.
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