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Journal articles on the topic 'RFLP[Restriction fragment length polymorphism assay]'

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Published: 4 June 2021

Last updated: 14 February 2022

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1

Ozbes, G., Ertas HB, and A. Muzo. "Restriction fragment length polymorphism analysis of isolates of infectious bursal disease viruses from Turkey." Veterinární Medicína 48, No. 12 (2012): 359–62. http://dx.doi.org/10.17221/5790-vetmed.

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Infectious bursal disease Virus (IBDV) specific reverse transcriptase/polymerase chain recation (RT/PCR) positive 40 broiler bursa fabricius samples obtained from a commercially reared flock were investigated for genetic diversity by PCR-RFLP assay. The assay amplifies a 743 bp fragment of the IBDV VP2 gene. The RFLP profiles of 40 of these positive samples were determined using the enzyme MboI. Most of the viruses had the same RFLP with the MboI enzyme. RFLP analysis of the isolates produced two different band profiles. The results of this study showed that little genetic heterogeneity exists

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2

Gedil, Melaku Ayele, Crispin Wye, Simon Berry, et al. "An integrated restriction fragment length polymorphism - amplified fragment length polymorphism linkage map for cultivated sunflower." Genome 44, no. 2 (2001): 213–21. http://dx.doi.org/10.1139/g00-111.

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Restriction fragment length polymorphism (RFLP) maps have been constructed for cultivated sunflower (Helianthus annuus L.) using three independent sets of RFLP probes. The aim of this research was to integrate RFLP markers from two sets with RFLP markers for resistance gene candidate (RGC) and amplified fragment length polymorphism (AFLP) markers. Genomic DNA samples of HA370 and HA372, the parents of the F2 population used to build the map, were screened for AFLPs using 42 primer combinations and RFLPs using 136 cDNA probes (RFLP analyses were performed on DNA digested with EcoRI, HindIII, Ec

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3

Qatatsheh, Ala A., Rula Amr, Murad A. Al-Holy, Amin N. Olaimat, and R. Ibrahim. "Identification of Single Nucleotide Polymorphisms in Selenium-Glutathione Peroxidase (GPX1) Gene." Current Research in Nutrition and Food Science Journal 7, no. 3 (2019): 819–27. http://dx.doi.org/10.12944/crnfsj.7.3.21.

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Human genetic variation is quite common with single nucleotide polymorphisms (SNPs) accounting for the majority of the variants. In the present study, primers for amplification of the appropriate part of the human GPX1 gene by polymerase chain reaction (PCR) were designed. The aim of this study was to develop a restriction fragment length polymorphism (RFLP) assay to detect and characterize GPX1 polymorphism in the coding region and validate the assays by sequencing. This study demonstrated that the RFLP method, which can be rapid, is reliable and valid as a tool for identifying the different

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4

Meagher, R. B., M. D. McLean, and J. Arnold. "Recombination within a subclass of restriction fragment length polymorphisms may help link classical and molecular genetics." Genetics 120, no. 3 (1988): 809–18. http://dx.doi.org/10.1093/genetics/120.3.809.

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Abstract Restriction fragment length polymorphisms (RFLPs) are being used to construct complete linkage maps for many eukaryotic genomes. These RFLP maps can be used to predict the inheritance of important phenotypic loci and will assist in the molecular cloning of linked gene(s) which affect phenotypes of scientific, medical and agronomic importance. However, genetic linkage implies very little about the actual physical distances between loci. An assay is described which uses genetic recombinants to measure physical distance from a DNA probe to linked phenotypic loci. We have defined the subs

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5

Hernandez, S. Moises, Glenn P. Morlock, W. Ray Butler, Jack T. Crawford, and Robert C. Cooksey. "Identification of Mycobacterium Species by PCR-Restriction Fragment Length Polymorphism Analyses Using Fluorescence Capillary Electrophoresis." Journal of Clinical Microbiology 37, no. 11 (1999): 3688–92. http://dx.doi.org/10.1128/jcm.37.11.3688-3692.1999.

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We developed a scheme for the rapid identification ofMycobacterium species based upon PCR amplification of polymorphic genetic regions with fluorescent primers followed by restriction and analysis by fluorescence capillary electrophoresis.Mycobacterium species were identified by restriction enzyme analysis of a 439-bp segment of the 65-kDa heat shock protein gene (labeled [both strands] at the 5′ end with 4,7,2′,7′-tetrachloro-6-carboxyfluorescein) using HaeIII and BstEII and of a 475-bp hypervariable region of the 16S rRNA gene (labeled [both strands] at the 5′ end with 6-carboxyfluorescein)

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Halward, Tracy M., H. Thomas Stalker, Elizabeth A. Larue, and Gary Kochert. "Genetic variation detectable with molecular markers among unadapted germ-plasm resources of cultivated peanut and related wild species." Genome 34, no. 6 (1991): 1013–20. http://dx.doi.org/10.1139/g91-156.

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Peanut germ plasm consists of the cultivated allotetraploid species Arachis hypogaea L. and a large number of wild species, which are nearly all diploids. Our previous work indicated a very low level of genetic variability in American cultivars, as assayed by restriction fragment length polymorphism (RFLP) analysis. Since American cultivars might represent a narrow genetic base, we expanded our study to include unadapted germ-plasm lines from the various South American centers of origin, Africa, and China, where considerable morphological and physiological variability has been reported to exis

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7

Marshall, Stephen M., Pasquale L. Melito, David L. Woodward, Wendy M. Johnson, Frank G. Rodgers, and Michael R. Mulvey. "Rapid Identification of Campylobacter,Arcobacter, and Helicobacter Isolates by PCR-Restriction Fragment Length Polymorphism Analysis of the 16S rRNA Gene." Journal of Clinical Microbiology 37, no. 12 (1999): 4158–60. http://dx.doi.org/10.1128/jcm.37.12.4158-4160.1999.

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A rapid two-step identification scheme based on PCR-restriction fragment length polymorphism (PCR-RFLP) analysis of the 16S rRNA gene was developed in order to differentiate isolates belonging to theCampylobacter, Arcobacter, andHelicobacter genera. For 158 isolates (26 reference cultures and 132 clinical isolates), specific RFLP patterns were obtained and species were successfully identified by this assay.

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8

Restrepo, S., T. L. Valle, M. C. Duque, and V. Verdier. "Assessing genetic variability among Brazilian strains ofXanthomonas axonopodispv.manihotisthrough restriction fragment length polymorphism and amplified fragment length polymorphism analyses." Canadian Journal of Microbiology 45, no. 9 (1999): 754–63. http://dx.doi.org/10.1139/w99-062.

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Xanthomonas axonopodis pv.manihotis (Xam) causes bacterial blight, a major disease of cassava, which is a starchy root crop that feeds about 500 million people throughout the world. To better select resistant cassava germplasm, we examined the population structure of Xam in Brazil, Latin America's largest producer of cassava, and a major center of diversity for the crop. The 79 strains collected between 1941 and 1996 from three edaphoclimatic zones were analyzed by restriction fragment length polymorphism (RFLP), using a probe linked to a Xam pathogenicity gene (pthB). Thirty-eight haplotypes

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TANAKA, YUICHIRO, HAJIME TAKAHASHI, NAO KITAZAWA, and BON KIMURA. "Rapid Estimation of Microbial Populations in Fish Samples by Using Terminal Restriction Fragment Length Polymorphism Analysis of 16S rDNA." Journal of Food Protection 73, no. 1 (2010): 104–13. http://dx.doi.org/10.4315/0362-028x-73.1.104.

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A rapid system using terminal restriction fragment length polymorphism (T-RFLP) analysis targeting 16S rDNA is described for microbial population analysis in edible fish samples. The defined terminal restriction fragment database was constructed by collecting 102 strains of bacteria representing 53 genera that are associated with fish. Digestion of these 102 strains with two restriction enzymes, HhaI and MspI, formed 54 pattern groups with discrimination to the genus level. This TRFLP system produced results comparable to those from a culture-based method in six natural fish samples with a qua

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Kawasaki, Susumu, Pina M. Fratamico, Irene V. Wesley, and Shinichi Kawamoto. "Species-Specific Identification of Campylobacters by PCR-Restriction Fragment Length Polymorphism and PCR Targeting of the Gyrase B Gene." Applied and Environmental Microbiology 74, no. 8 (2008): 2529–33. http://dx.doi.org/10.1128/aem.00975-07.

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ABSTRACT PCR-restriction fragment length polymorphism (RFLP) analysis of a 960-bp fragment of the Campylobacter gyrB gene with either DdeI or XspI restriction enzymes generated unique digestion patterns for 12 different Campylobacter species. In addition, PCR assays using species-specific primer sets targeting gyrB were specific for the respective Campylobacter species. Therefore, PCR-RFLP analysis and species-specific PCR assays based on the gyrB gene provide valuable tools for rapid and unambiguous identification of the majority of Campylobacter species.

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11

BRZEZINSKI, JENNIFER L. "Detection of Crustacean DNA and Species Identification Using a PCR–Restriction Fragment Length Polymorphism Method." Journal of Food Protection 68, no. 9 (2005): 1866–73. http://dx.doi.org/10.4315/0362-028x-68.9.1866.

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The detection of potentially allergenic proteins, such as those derived from crustaceans, in food products is a major concern for the food processing industry. A PCR–restriction fragment length polymorphism (PCR-RFLP) method was designed to detect the presence of crustacean DNA in food products and to determine the species source of the DNA. This PCR assay amplifies an approximately 205-bp fragment of the 16S rRNA gene in crustacean species, including shrimp, crab, lobster, and crawfish. This reaction will not amplify DNA derived from mammals, such as cow and sheep. After amplification, the PC

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JINNEMAN, KAREN C., JUNE H. WETHERINGTON, WALTER E. HILL, et al. "An Oligonucleotide-Ligation Assay for the Differentiation between Cyclospora and Eimeria spp. Polymerase Chain Reaction Amplification Products." Journal of Food Protection 62, no. 6 (1999): 682–85. http://dx.doi.org/10.4315/0362-028x-62.6.682.

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An oligonucleotide-ligation assay (OLA) was developed and compared to a restriction fragment length polymorphism (RFLP) test for distinguishing between 294-bp polymerase chain reaction (PCR) amplification products of the 18S rRNA gene from Cyclospora and Eimeria spp. The PCR/OLA correctly distinguished between three Cyclospora, three E. tenella, and one E. mitis strains and the ratio of positive to negative spectrophotometric absorbance (A490) values for each strain ranged from 4.086 to 15.280 (median 9.5). PCR/OLA provides a rapid, reliable, spectrophotometric alternative to PCR/RFLP.

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13

Meyer, Rolf, Christiane Höfelein, Jürg Lüthy, and Urs Candrian. "Polymerase Chain Reaction–Restriction Fragment Length Polymorphism Analysis: A Simple Method for Species Identification in Food." Journal of AOAC INTERNATIONAL 78, no. 6 (1995): 1542–51. http://dx.doi.org/10.1093/jaoac/78.6.1542.

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Abstract The polymerase chain reaction (PCR) technique was applied to meat species identification in marinated and heat-treated or fermented products and to the differentiation of closely related species. DNA was isolated from meat samples by using a DNA-binding resin and was subjected to PCR analysis. Primers used were complementary to conserved areas of the vertebrate mitochondrial cytochrome b (cytb) gene and yielded a 359 base-pair (bp) fragment, including a variable 307 bp region. Restriction endonuclease analysis based on sequence data of those fragments was used for diffferentiation amo

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Cai, Hugh Y., Hazel Alexander, Susy Carman, Dara Lloyd, Gaylan Josephson, and M. Grant Maxie. "Restriction Fragment Length Polymorphism of Porcine Reproductive and Respiratory Syndrome Viruses Recovered from Ontario Farms, 1998–2000." Journal of Veterinary Diagnostic Investigation 14, no. 4 (2002): 343–47. http://dx.doi.org/10.1177/104063870201400415.

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From January 1998 to July 2000, 2,456 clinical samples, including lung, tonsil, lymph node, and serum, from 760 cases submitted to the Animal Health Laboratory, Ontario, Canada, were tested for porcine reproductive and respiratory syndrome viruses (PRRSV) using reverse transcriptase polymerase chain reaction (RT-PCR) and RT-PCR product restriction fragment length polymorphism (RFLP) analysis. A total of 516 samples from 284 cases were RT-PCR positive for the PRRSV open reading frame (ORF) 7 sequence. The RT-PCR RFLP typing assay was performed using 2 different sets of primers, amplifying 716 o

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15

Simsek, S., A. Utuk, and I. Balkaya. "Molecular differentiation of Turkey cattle isolates of Fasciola hepatica and Fasciola gigantica." Helminthologia 48, no. 1 (2011): 3–7. http://dx.doi.org/10.2478/s11687-011-0001-y.

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AbstractThe most common and widespread liver flukes of the genus Fasciola are Fasciola hepatica and F. gigantica. Adults of both species occur in many domestic ruminants and in humans and can cause serious disease. The differential diagnosis of these flukes infection is very important because of their different transmission and epidemiological characteristics. A simple and rapid PCR-restriction fragment length polymorphism (RFLP) assay, using the common restriction enzymes AluI and RsaI, is described to distinguish between both fasciolid species. After the digestion of the mitochondrial cytoch

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Kim, Yul-Ho, Ok-Sun Kim, Jae-Hwan Roh, et al. "Identification of Soybean mosaic virus Strains by RT-PCR/RFLP Analysis of Cylindrical Inclusion Coding Region." Plant Disease 88, no. 6 (2004): 641–44. http://dx.doi.org/10.1094/pdis.2004.88.6.641.

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A reverse-transcriptase polymerase chain reaction/restriction fragment length polymorphism (RT-PCR/RFLP) was employed successfully for detection and identification of Soybean mosaic virus (SMV) strains. A primer pair amplifying a 1,385-bp fragment of the cylindrical inclusion (CI) coding region was used for RT-PCR and the RFLP profiles of the RT-PCR products were compared after restriction digestion with RsaI, EcoRI, or AccI restriction endonucleases. These enzymes were chosen based on the nucleotide sequences of SMV strains G2, G5, G5H, G7, and G7H in the CI coding region. These five strains,

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M. Soliman, S., H. S. Soliman, H. I. Mohamed, M. A. Salem, and S. A. Ahmed. "Diagnostic performance of RFLP-PCR and sarcosine based indirect ELISA versus immunoassays in Brucella infected and vaccinated small ruminants." BULGARIAN JOURNAL OF VETERINARY MEDICINE 23, no. 3 (2020): 319–30. http://dx.doi.org/10.15547/bjvm.2217.

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This study was carried out for evaluation of the diagnostic performance of different serological assays; buffered acidified plate antigen test (BAPAT), rose bengal plate test (RBPT), immunochromatographic assay (ICA), rivanol test (RivT), indirect ELISA using two types of coating antigens (smooth lipopolysaccharide; S-LPS and N-lauroylsarcosine-extracted antigens; SE) and complement fixation test (CFT). Relative sensitivity and specificity of various techniques were estimated. The traditional serological tests failed to distinguish the vaccinated from naturally infected animals. Using iELISA w

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Tsang, T. C., D. R. Bentley, I. M. Nilsson, and F. Giannelli. "The Use of DNA Amplification for Genetic Counselling Related Diagnosis in Haemophilia B." Thrombosis and Haemostasis 61, no. 03 (1989): 343–47. http://dx.doi.org/10.1055/s-0038-1646592.

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SummaryA single base pair variation in the coding sequence of coagulation factor IX produces a protein polymorphism detectable with monoclonal antibodies and a restriction fragment length polymorphism (RFLP). This allows carrier and prenatal diagnoses in 48% of Caucasian families segregating for haemophilia B. However, this RFLP cannot be detected by standard Southern blotting, while the antibody assay may grve equivocal results in some females and can only allow prenatal diagnoses on second trimester fetal blood samples. We show that, using the polymerase chain reaction, the polymorphic DNA s

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CHAKRABORTY, P., N. N. BARMAN, and I. SHARMA. "Restriction fragment length polymorphism analysis of rotavirus VP7-encoding gene from humans and animals of Northeast India: a relative study of Indian and global isolates." Epidemiology and Infection 143, no. 12 (2015): 2503–11. http://dx.doi.org/10.1017/s0950268814003343.

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SUMMARYA restriction fragment length polymorphism (RFLP) assay was developed to examine the genetic relationship between 67 (29 Indian, 38 global) rotavirus isolates of human, bovine and porcine neonates. The assay involved direct digestion of RT–PCR amplified VP7 cDNAs with three restriction enzymes (VspI,HaeIII,NlaIV) independently. Forty-eight RFLP patterns were identified for all 67 strains, and of these 20 patterns were associated with Indian isolates. A correlation between the restriction patterns and G type was apparent through deduction of enzyme restriction sites from known sequences.

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Shen, Zeli, David B. Schauer, Harry L. T. Mobley, and James G. Fox. "Development of a PCR-Restriction Fragment Length Polymorphism Assay Using the Nucleotide Sequence of the Helicobacter hepaticus Urease Structural Genes ureAB." Journal of Clinical Microbiology 36, no. 9 (1998): 2447–53. http://dx.doi.org/10.1128/jcm.36.9.2447-2453.1998.

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Infection with Helicobacter hepaticus causes chronic active hepatitis in certain strains of mice and is associated with hepatocellular carcinoma in A/JCr mice. Like the gastric helicobacters,H. pylori and H. mustelae, H. hepaticus possesses a high level of urease activity. However, theH. hepaticus urease structural gene sequences have not been previously determined, and the role of the urease enzyme in colonization and in pathogenesis is not known. PCR was used to amplify a portion of the urease structural genes from H. hepaticusgenomic DNA. Amplified DNA fragments were cloned, and the nucleot

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Yang, Jiang Ke, Wei Tao Zhang, Tian Ying Yuan, and Jun Chu Zhou. "Genotypic characteristics of therrnoperon and genome of indigenous soybeanBradyrhizobiain cropping zones of China." Canadian Journal of Microbiology 52, no. 10 (2006): 968–76. http://dx.doi.org/10.1139/w06-052.

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Four genetic assays, 16S rRNA restriction fragment length polymorphism (RFLP), 16S rRNA sequencing, 16S–23S rRNA intergenetic spacer (IGS) RFLP, and amplified fragment length polymorphism (AFLP), were conducted to determine the genotypic characteristics of 44 indigenous strains of Bradyrhizobium from soybean (Glycine max L.) cropping zones of China. The results generated from different assays showed that soybean bradyrhizobial isolates comprised four genomic groups. Group I was composed of strains mainly isolated from the North and Northeast plains of China. All four assays confirmed this grou

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MONTALVO, A. M., J. FRAGA, L. MONZOTE, et al. "Heat-shock protein 70 PCR-RFLP: a universal simple tool for Leishmania species discrimination in the New and Old World." Parasitology 137, no. 8 (2010): 1159–68. http://dx.doi.org/10.1017/s0031182010000089.

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SUMMARYIntroduction. Species typing in leishmaniasis gains importance in diagnostics, epidemiology, and clinical studies. A restriction fragment length polymorphism (RFLP) assay of PCR amplicons from a partial heat-shock protein 70 gene (hsp70) had been described for the New World, allowing identification of some species. Methods. Based on an initial in silico analysis of 51 hsp70 sequences, most of which we recently determined in the frame of a phylogenetic study, species-specific restriction sites were identified. These were tested by PCR-RFLP on 139 strains from 14 species, thereby document

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Kalb, Rainer, Sentot Santoso, Katja Unkelbach, Volker Kiefel, and Christian Mueller-Eckhardt. "Localization of the Br Polymorphism on a 144 bp Exon of the GPIa Gene and Its Application in Platelet DNA Typing." Thrombosis and Haemostasis 71, no. 05 (1994): 651–54. http://dx.doi.org/10.1055/s-0038-1642498.

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SummaryAlloimmunization against the human platelet alloantigen system Br (HPA-5) is the second most common cause of neonatal alloimmune thrombocytopenia (NAIT) in Caucasian populations. We have recently shown that a single base polymorphism at position 1648 on platelet mRNA coding for GPIa results in an aminoacid substitution at position 505 on the mature GPIa which is associated with the two serological defined Br phenotypes.Since DNA-typing of platelet alloantigens offers possibilities for useful clinical applications, we designed genomic DNA-based restriction fragment length polymorphism (R

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OULAD, M., Y. TAHAMTAN, and N. SOHRABI. "Polymorphism of ompH gene of Pasteurella multocida serotype A strains isolated in Iran." Journal of the Hellenic Veterinary Medical Society 69, no. 1 (2018): 847. http://dx.doi.org/10.12681/jhvms.16439.

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One of the most frequent causes of respiratory infection and death in sheep and goats is Pasteurella multocida. In humans, it has been associated with diseases of the respiratory tracts, arthritis, osteomyelitis and meningitis. Outer membrane protein H (OmpH) has a role in immunogenicity and pathogenicity of P. multocida. The aim of this study was to characterize the genetic diversity of ompH gene of a panel of P. multocida serotype A strains isolated in sheep. Forty P. multocida serotype A strains isolated in previous study were selected and analyzed by restriction fragment length polymorphis

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Qu, Xinshun, and Barbara J. Christ. "Single Cystosorus Isolate Production and Restriction Fragment Length Polymorphism Characterization of the Obligate Biotroph Spongospora subterranea f. sp. subterranea." Phytopathology® 96, no. 10 (2006): 1157–63. http://dx.doi.org/10.1094/phyto-96-1157.

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Spongospora subterranea f. sp. subterranea causes powdery scab in potatoes and is distributed worldwide. Genetic studies of this pathogen have been hampered due, in part, to its obligate parasitism and the lack of molecular markers for this pathogen. In this investigation, a single cystosorus inoculation technique was developed to produce large amounts of S. subterranea f. sp. subterranea plasmodia or zoosporangia in eastern black nightshade (Solanum ptycanthum) roots from which DNA was extracted. Cryopreservation of zoosporangia was used for long-term storage of the isolates. S. subterranea f

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Yu, Chang-Ping, Rajiv Ahuja, Gary Sayler, and Kung-Hui Chu. "Quantitative Molecular Assay for Fingerprinting Microbial Communities of Wastewater and Estrogen-Degrading Consortia." Applied and Environmental Microbiology 71, no. 3 (2005): 1433–44. http://dx.doi.org/10.1128/aem.71.3.1433-1444.2005.

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ABSTRACT A quantitative fingerprinting method, called the real-time terminal restriction fragment length polymorphism (real-time-t-RFLP) assay, was developed for simultaneous determination of microbial diversity and abundance within a complex community. The real-time-t-RFLP assay was developed by incorporating the quantitative feature of real-time PCR and the fingerprinting feature of t-RFLP analysis. The assay was validated by using a model microbial community containing three pure strains, an Escherichia coli strain (gram negative), a Pseudomonas fluorescens strain (gram negative), and a Bac

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Schneider, B., and K. S. Gibb. "Detection of Phytoplasmas in Declining Pears in Southern Australia." Plant Disease 81, no. 3 (1997): 254–58. http://dx.doi.org/10.1094/pdis.1997.81.3.254.

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Forty-nine pear tree samples collected in Victoria, most of them showing decline symptoms, were tested by polymerase chain reaction (PCR) analysis to detect phytoplasmas. Two universal phytoplasma-specific primer pairs, fP1/rP7 and fU5/rU3, were tested, but only fU5/rU3 amplified the phytoplasma DNA adequately. Nested PCR with universal and group-specific primers, however, proved more effective. Thirty pear trees reacted positively in a nested PCR assay. Restriction fragment length polymorphism (RFLP) analysis with the restriction enzymes MseI and AluI of the PCR fragment amplified with the pr

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Awasthi, Sharda Prasad, Masahiro Asakura, Sucharit Basu Neogi, Atsushi Hinenoya, T. Ramamurthy, and Shinji Yamasaki. "Development of a PCR-restriction fragment length polymorphism assay for detection and subtyping of cholix toxin variant genes of Vibrio cholerae." Journal of Medical Microbiology 63, no. 5 (2014): 667–73. http://dx.doi.org/10.1099/jmm.0.070797-0.

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Cholix toxin (ChxA) is an exotoxin reported in Vibrio cholerae non-O1/non-O139. Apart from its prototype (ChxA I) we have recently identified two novel variants of this toxin, ChxA II and ChxA III. Our previous investigations indicated that the first two variants may instigate extra-intestinal infections and ChxA II can be more lethal than ChxA I in mice. However, all three cholix toxins (ChxA I to III) failed to show any enterotoxicity in rabbit ileal loops. In this study we developed a PCR-restriction fragment length polymorphism (RFLP) assay to differentiate all three chxA variants to furth

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Horvat, S., and L. Bünger. "Polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) assay for the mouse leptin receptor (Leprdb) mutation." Laboratory Animals 33, no. 4 (1999): 380–84. http://dx.doi.org/10.1258/002367799780487850.

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Eshkoor, Sima, Patimah Ismail, Sabariah Rahman, and Saidi Moin. "Does GSTP1 Polymorphism Contribute to Genetic Damage Caused by Ageing and Occupational Exposure?" Archives of Industrial Hygiene and Toxicology 62, no. 4 (2011): 291–98. http://dx.doi.org/10.2478/10004-1254-62-2011-2088.

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Does GSTP1 Polymorphism Contribute to Genetic Damage Caused by Ageing and Occupational Exposure?The aim of our study was to see the effects of GSTP1 polymorphism on biomarkers of ageing, including micronuclei (MN), comet tail length, and relative telomere length in automobile repair workers, who are exposed to a broad spectrum of potential mutagens. The analysis was performed on buccal cells collected from occupationally exposed and non-exposed (control) subjects. Samples were analysed using cytogenetic and molecular methods, including restriction fragment length polymorphism (RFLP), MN test,

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Duttweiler, K. B., G. Y. Sun, J. C. Batzer, T. C. Harrington, and M. L. Gleason. "An RFLP-Based Technique for Identifying Fungi in the Sooty Blotch and Flyspeck Complex on Apple." Plant Disease 92, no. 5 (2008): 794–99. http://dx.doi.org/10.1094/pdis-92-5-0794.

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A restriction fragment length polymorphism (RFLP)-based technique was developed to identify members of the sooty blotch and flyspeck (SBFS) disease complex on apple because these fungi are difficult to identify using agar-plate isolation and morphological description. The method includes polymerase chain reaction (PCR) amplification of the internal transcribed spacer (ITS) region of ribosomal DNA (rDNA) using a fungal-specific forward primer (ITS1-F) and an SBFS-specific reverse primer (Myc1-R), followed by digestion of the PCR product by the HaeIII restriction enzyme. When applied to previous

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SandhyaRani T, Srikumar R, Prabhakar Reddy E, and Latha S. "Molecular detection of Candida species by Restriction Fragment Length Polymorphism (RFLP) analysis of PCR from HIV infected persons." International Journal of Research in Pharmaceutical Sciences 10, no. 3 (2019): 1596–601. http://dx.doi.org/10.26452/ijrps.v10i3.1317.

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Oral Candidiasis an important opportunistic fungal infection in HIV patients. This is the first sign of HIV infection. It can spread from the mouth through the pharynx to the oesophagus. Oral Candidiasis is most regularly complicated with oesophagal Candidiasis, which may restrain nourishment and result in weight reduction, alarming the overall health of the HIV tainted persons. In present study, we have a tendency to determine in Candida species by blend of Restriction Fragment Length Polymorphism (RFLP) examination of PCR from HIV tainted people and furthermore we demonstrated that phenotypi

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Restrepo, S., C. M. Vélez, and V. Verdier. "Measuring the Genetic Diversity of Xanthomonas axonopodis pv. manihotis Within Different Fields in Colombia." Phytopathology® 90, no. 7 (2000): 683–90. http://dx.doi.org/10.1094/phyto.2000.90.7.683.

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Cassava bacterial blight, caused by Xanthomonas axonopodis pv. manihotis, is a widespread disease that affects cassava (Manihot esculenta). We collected 238 X. axonopodis pv. manihotis strains by intensively sampling single fields in four edaphoclimatic zones (ECZs) in Colombia. DNA polymorphism of different X. axonopodis pv. manihotis populations was assessed by restriction fragment length polymorphism (RFLP) analyses, repetitive sequence-based polymerase chain reaction (rep-PCR), and amplified fragment length polymorphism (AFLP) assays. Genetic diversity, phenetic relationships among strains

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Al-Nahhas, Samar Anis, and Rania Magdy Kaldas. "Characterization of Leishmania Species Isolated from Cutaneous Human Samples from Central Region of Syria by RFLP Analysis." ISRN Parasitology 2013 (September 19, 2013): 1–5. http://dx.doi.org/10.5402/2013/308726.

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Cutaneous leishmaniasis (CL) is an endemic disease and a public health problem in Hama governorate located in the central region of Syria. The aim of this study was to characterize Leishmania species isolated from human skin samples. A polymerase chain reaction, restriction fragment length polymorphism (PCR-RFLP) assay, was performed on skin lesion material samples from 32 patients with confirmed CL by direct microscopic examination in order to prove its usefulness and efficiency for identification of Leishmania species. Leishmania tropica (L. tropica) is confirmed as an etiologic agent of CL

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Andrew, Marion, and Linda M. Kohn. "Single Nucleotide Polymorphism-Based Diagnostic System for Crop-Associated Sclerotinia Species." Applied and Environmental Microbiology 75, no. 17 (2009): 5600–5606. http://dx.doi.org/10.1128/aem.02761-08.

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ABSTRACT A molecular diagnostic system using single nucleotide polymorphisms (SNPs) was developed to identify four Sclerotinia species: S. sclerotiorum (Lib.) de Bary, S. minor Jagger, S. trifoliorum Erikss., and the undescribed species Sclerotinia species 1. DNAs of samples are hybridized with each of five 15-bp oligonucleotide probes containing an SNP site midsequence unique to each species. For additional verification, hybridizations were performed using diagnostic single nucleotide substitutions at a 17-bp sequence of the calmodulin locus. The accuracy of these procedures was compared to t

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Spaniolas, Stelios, Christos Bazakos, Gregory A. Tucker, and Malcolm J. Bennett. "Comparison of SNP-Based Detection Assays for Food Analysis: Coffee Authentication." Journal of AOAC INTERNATIONAL 97, no. 4 (2014): 1114–20. http://dx.doi.org/10.5740/jaoacint.13-237.

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Abstract Recently, DNA-based authentication methods were developed to serve as complementary approaches to analytical chemistry techniques. The single nucleotide polymorphism (SNP)-based reaction chemistries, when combined with the existing detection methods, could result in numerous analytical approaches, all with particular advantages and disadvantages. The dual aim of this study was (a) to develop SNP-based analytical assays such as the single-base primer extension (SNaPShotTM) and pyrosequencing in order to differentiate Arabica and Robusta varieties for the authentication of coffee beans

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Artemov, Gleb N., Valentina S. Fedorova, Dmitriy A. Karagodin, et al. "New Cytogenetic Photomap and Molecular Diagnostics for the Cryptic Species of the Malaria Mosquitoes Anopheles messeae and Anopheles daciae from Eurasia." Insects 12, no. 9 (2021): 835. http://dx.doi.org/10.3390/insects12090835.

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The Eurasian malaria vector Anopheles messeae is a widely spread and genetically diverse species. Five widespread polymorphic chromosomal inversions were found in natural populations of this mosquito. A cryptic species, Anopheles daciae, was differentiated from An. messeae by the presence of several nucleotide substitutions in the Internal Transcribed Spacer 2 (ITS2) region of ribosomal DNA. However, because of the absence of a high-quality reference cytogenetic map, the inversion polymorphisms in An. daciae and An. messeae remain poorly understood. Moreover, a recently determined heterogeneit

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Lacombe-Antoneli, Ángela, Segundo Píriz, Alberto Quesada, and Santiago Vadillo. "Discrimination between Bacteroides, Dichelobacter, Fusobacterium, Porphyromonas and Prevotella isolated from caprine footrot by PCR-RFLP — Short communication." Acta Veterinaria Hungarica 57, no. 2 (2009): 197–202. http://dx.doi.org/10.1556/avet.57.2009.2.1.

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Footrot is widely considered the most severe and most common foot pathology in small ruminants. This study tested the ability of a molecular typing system based on polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) assay of the 16S rRNA gene to discriminate between the strict anaerobe genera most commonly isolated from footrot (Bacteroides, Dichelobacter, Fusobacterium, PorphyromonasandPrevotella) in goats in Extremadura (Spain), with a view to facilitating identification for diagnostic purposes and thus providing a useful tool for future epidemiological studies. Alt

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Allen, Marchelle I., Josee Gauthier, Manon DesLauriers, et al. "Two Sensitive PCR-Based Methods for Detection of Hepatitis B Virus Variants Associated with Reduced Susceptibility to Lamivudine." Journal of Clinical Microbiology 37, no. 10 (1999): 3338–47. http://dx.doi.org/10.1128/jcm.37.10.3338-3347.1999.

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Two novel assays, a restriction fragment length polymorphism (RFLP) assay and an assay based on the 5′-nuclease activity of TaqDNA polymerase, were developed for screening viral variants in lamivudine-treated patients’ sera containing <1,000 copies of the hepatitis B virus (HBV) genome per ml. Both assays were designed to detect single-nucleotide changes within the HBV DNA polymerase gene that are associated with lamivudine resistance in vitro and have been used to screen a number of patients’ sera for variant virus. Results obtained with these assays and standard sequencing technology were

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Cakina, Suat, Ozgul Ocak, Adile Ozkan, Selma Yucel, and Handan Isin Ozisik Karaman. "Vitamin D receptor gene polymorphisms in multiple sclerosis disease: A case-control study." Revista Romana de Medicina de Laborator 26, no. 4 (2018): 489–95. http://dx.doi.org/10.2478/rrlm-2018-0028.

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Abstract Multiple sclerosis (MS) is a common neurologic disorder that is a chronic inflammatory, demyelinating, and neurodegenerative disease of the central nervous system (CNS). Its etiology remains unknown. Several recent studies have found that decreased susceptibility to vitamin D deficiency is also associated with a decreased risk of MS. The role of vitamin D receptor (VDR) gene and its polymorphisms are highlighted as susceptible components. In this study, we aimed to identify the relationship between ApaI (rs7975232), BsmI (rs 1544410), and TaqI (rs731236) gene polymorphisms with MS. Ap

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Jarvis, K. G., C. J. Grim, A. A. Franco, et al. "Molecular Characterization of Cronobacter Lipopolysaccharide O-Antigen Gene Clusters and Development of Serotype-Specific PCR Assays." Applied and Environmental Microbiology 77, no. 12 (2011): 4017–26. http://dx.doi.org/10.1128/aem.00162-11.

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ABSTRACTCronobacter(formerlyEnterobacter sakazakii) is a recently defined genus consisting of six species,C. sakazakii,C. malonaticus,C. dublinensis,C. muytjensii,C. turicensis, andCronobactergenomospecies 1. In this study, MboII restriction fragment length polymorphism (RFLP) patterns of O-antigen gene clusters, located betweengalFandgnd, were used to identify serotypes inCronobacterspp. Seven O-antigen RFLP clusters were generated, including threeC. sakazakiiclusters, previously identified as serotypes O1, O2, and O3. The O-antigen regions of six strains with unique RFLP patterns, including

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Romppanen, Eeva-Liisa, and Ilkka Mononen. "Detection of the Finnish-Type Congenital Nephrotic Syndrome by Restriction Fragment Length Polymorphism and Dual-Color Oligonucleotide Ligation Assays." Clinical Chemistry 46, no. 6 (2000): 811–16. http://dx.doi.org/10.1093/clinchem/46.6.811.

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Abstract Background: Congenital nephrotic syndrome of Finnish type (NPHS1) is an autosomal recessive disorder characterized by severe proteinuria of intrauterine onset. Ninety-four percent of the Finnish NPHS1 chromosomes have been reported to carry either a 2-bp deletion in exon 2 (FinMajor) or a nonsense mutation in exon 26 (FinMinor) of the NPHS1 gene. The high prevalence of only two mutations in the Finnish population enables the use of molecular techniques in the diagnosis of NPHS1 and for carrier screening. Methods and Results: We describe two different molecular methods for the detectio

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Chang, Ching-Chi, Benji Brayan I. Silva, Huai-Ying Huang, et al. "Development and Validation of KASP Assays for the Genotyping of Racing Performance-Associated Single Nucleotide Polymorphisms in Pigeons." Genes 12, no. 9 (2021): 1383. http://dx.doi.org/10.3390/genes12091383.

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Pigeon racing’s recent upturn in popularity can be attributed in part to the huge prize money involved in these competitions. As such, methods to select pigeons with desirable genetic characteristics for racing or for selective breeding have also been gaining more interest. Polymerase chain reaction—restriction fragment length polymorphism (PCR-RFLP) for genotyping-specific genes is one of the most commonly used molecular techniques, which can be costly, laborious and time consuming. The present study reports the development of an alternative genotyping method that employs Kompetitive Allele S

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Dahourou, George, Sophie Guillot, Olivier Le Gall, and Radu Crainic. "Genetic recombination in wild-type poliovirus." Journal of General Virology 83, no. 12 (2002): 3103–10. http://dx.doi.org/10.1099/0022-1317-83-12-3103.

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Poliovirus isolates were screened for recombinants by combined analysis of two distant polymorphic segments of the poliovirus genome (one in the capsid and the other in the polymerase-coding region). Using a restriction fragment length polymorphism (RFLP) assay, a high number of recombinant genomes was found among vaccine-derived strains excreted by poliovirus vaccine vaccinees or vaccine-associated paralytic poliomyelitis cases. Some of these subjects carried a wild-type poliovirus (non-vaccine-specific) nucleotide sequence in the 3′ part of the genome. Using a similar approach, a collection

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Rolshausen, P. E., F. Trouillas, and W. D. Gubler. "Identification of Eutypa lata by PCR-RFLP." Plant Disease 88, no. 9 (2004): 925–29. http://dx.doi.org/10.1094/pdis.2004.88.9.925.

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Eutypa lata is a vascular canker pathogen of woody plants commonly diagnosed by isolating the pathogen from infected tissue. Related fungi from the same family, the Diatrypaceae, also have been found in association with grapevine in Californian vineyards. An in situ polymerase chain reaction (PCR) method has been developed for detection of E. lata in infected wood tissue. However, our results indicate that this method also would amplify other Diatrypaceous fungi, which could potentially lead to an incorrect diagnosis. Therefore, we developed a PCR-restriction fragment length polymorphism (PCR-

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Yu, Miao, Qian-Zhou Jiang, Zhe-Yi Sun, Yuan-Yuan Kong, and Zhi Chen. "Association between Single Nucleotide Polymorphisms in Vitamin D Receptor Gene Polymorphisms and Permanent Tooth Caries Susceptibility to Permanent Tooth Caries in Chinese Adolescent." BioMed Research International 2017 (2017): 1–7. http://dx.doi.org/10.1155/2017/4096316.

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Purpose. Dental caries is a multifactorial infectious disease. In this study, we investigated whether single nucleotide polymorphisms (SNPs) in vitamin D receptor (VDR) gene were associated with susceptibility to permanent tooth caries in Chinese adolescents. Method. A total of 200 dental caries patients and 200 healthy controls aged 12 years were genotyped for VDR gene polymorphisms using the PCR-restriction fragment length polymorphism (PCR-RFLP) assay. All of them were examined for their oral and dental status with the WHO criteria, and clinical information such as the Decayed Missing Fille

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Demjanová, Soňa, Pavlina Jevinová, Monika Pipová, and Ivana Regecová. "Identification of Penicillium verrucosum, Penicillium commune, and Penicillium crustosum Isolated from Chicken Eggs." Processes 9, no. 1 (2020): 53. http://dx.doi.org/10.3390/pr9010053.

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Penicillium species belong to main causative agents of food spoilage leading to significant economic losses and potential health risk for consumers. These fungi have been isolated from various food matrices, including table eggs. In this study, both conventional Polymerase Chain Reaction (PCR) and Polymerase Chain Reaction-Internal Transcribed Spacer-Restriction Fragment Length Polymorphism (PCR-ITS-RFLP) methods were used for species identification of Penicillium (P.) spp. isolated from the eggshells of moldy chicken eggs. Seven restriction endonucleases (Bsp1286I, XmaI, HaeIII, HinfI, MseI,

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Cunha, M. G., and D. M. Rizzo. "Development of Fungicide Cross Resistance in Helminthosporium solani Populations from California." Plant Disease 87, no. 7 (2003): 798–803. http://dx.doi.org/10.1094/pdis.2003.87.7.798.

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Helminthosporium solani populations on potato from the Tulelake area in California frequently have been exposed to thiophanate-methyl but not benomyl. Assessment of three H. solani populations found that 182 of 238 isolates were resistant to both thiophanate-methyl and benomyl and 56 isolates were sensitive to both fungicides. None of the isolates exhibited a differential reaction to the two fungicides. The effective concentrations that reduced growth by 50% for resistant isolates of H. solani were approximately 400 mg/liter for thiophanate- methyl and 35 mg/liter for benomyl. Two point mutati

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Bartnykaitė, Agnė, Aistė Savukaitytė, Rasa Ugenskienė, et al. "Associations of MDM2 and MDM4 Polymorphisms with Early-Stage Breast Cancer." Journal of Clinical Medicine 10, no. 4 (2021): 866. http://dx.doi.org/10.3390/jcm10040866.

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Breast cancer is one of the most common cancers worldwide. Single nucleotide polymorphisms (SNPs) in MDM2 and MDM4 have been associated with various cancers. However, the influence on clinical characteristics of breast cancer has not been sufficiently investigated yet. Thus, this study aimed to investigate the relationship between SNPs in MDM2 (rs2279744, rs937283, rs937282) and MDM4 (rs1380576, rs4245739) and I–II stage breast cancer. For analysis, the genomic DNA was extracted from 100 unrelated women peripheral blood. Polymorphisms were analyzed with polymerase chain reaction-restriction fr

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Yugueros, Javier, Alejandro Temprano, Beatriz Berzal, et al. "Glyceraldehyde-3-Phosphate Dehydrogenase-Encoding Gene as a Useful Taxonomic Tool for Staphylococcusspp." Journal of Clinical Microbiology 38, no. 12 (2000): 4351–55. http://dx.doi.org/10.1128/jcm.38.12.4351-4355.2000.

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The gap gene of Staphylococcus aureus, encoding glyceraldehyde-3-phosphate dehydrogenase, was used as a target to amplify a 933-bp DNA fragment by PCR with a pair of primers 26 and 25 nucleotides in length. PCR products, detected by agarose gel electrophoresis, were also amplified from 12 Staphylococcusspp. analyzed previously. Hybridization with an internal 279-bp DNA fragment probe was positive in all PCR-positive samples. No PCR products were amplified when other gram-positive and gram-negative bacterial genera were analyzed using the same pair of primers.AluI digestion of PCR-generated pro

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