Academic literature on the topic 'RFLP analysis'
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Journal articles on the topic "RFLP analysis"
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Trevisan, Giovani, Aditi Sharma, Phillip Gauger, Karen M. Harmon, Jianqiang Zhang, Rodger Main, Michael Zeller, Leticia C. M. Linhares, and Daniel C. L. Linhares. "PRRSV2 genetic diversity defined by RFLP patterns in the United States from 2007 to 2019." Journal of Veterinary Diagnostic Investigation 33, no. 5 (June 28, 2021): 920–31. http://dx.doi.org/10.1177/10406387211027221.
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The genetic diversity of porcine reproductive and respiratory syndrome virus (PRRSV) increases over time. In 1998, restriction-fragment length polymorphism (RFLP) pattern analysis was introduced to differentiate PRRSV wild-type strains from VR2332, a reference strain from which a commercial vaccine (Ingelvac PRRS MLV) was derived. We have characterized here the PRRSV genetic diversity within selected RFLP families over time and U.S. geographic space, using available ISU-VDL data from 2007 to 2019. The 40,454 ORF5 sequences recovered corresponded to 228 distinct RFLPs. Four RFLPs [2-5-2 (21.2%), 1-7-4 (15.6%), 1-4-4 (11.8%), and 1-8-4 (9.9%)] represented 58.5% of all ORF5 sequences and were used for cluster analysis. Over time, there was increased detection of RFLPs 2-5-2, 1-7-4, 1-3-4, 1-3-2, and 1-12-4; decreased detection of 1-4-2, 1-18-4, 1-18-2, and 1-2-2; and different detection trends for 1-8-4, 1-4-4, 1-26-1, 1-22-2, and 1-2-4. An over-time cluster analysis revealed a single cluster for RFLP 2-5-2, supporting that sequences within RFLP 2-5-2 are still relatively conserved. For 1-7-4, 1-4-4, and 1-8-4, there were multiple clusters. State-wise cluster analysis demonstrated 4 main clusters for RFLP 1-7-4 and 1-8-4, and 6 for RFLP 1-4-4. For the other RFLPs, there was a significant genetic difference within them, particularly between states. RFLP typing is limited in its ability to discriminate among different strains of PRRSV. Understanding the magnitude of genetic divergence within RFLPs helps develop PRRSV regional control programs, placement, herd immunization strategies, and design of appropriate animal movements across borders to minimize the risk of PRRSV transmission.
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Deynze, A. E. Van, B. S. Landry, and K. P. Pauls. "The identification of restriction fragment length polymorphisms linked to seed colour genes in Brassica napus." Genome 38, no. 3 (June 1, 1995): 534–42. http://dx.doi.org/10.1139/g95-069.
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Restriction fragment length polymorphisms (RFLPs) linked to genes controlling seed colour were identified in rapeseed (Brassica napus). The efficiency of the RFLP analysis was enhanced by utilizing bulked segregant analysis, DNA clones that had previously been used to construct a RFLP map of B. napus, and a doubled-haploid (DH) population segregating for seed colour. Markers for two of the three seed colour genes segregating in the DH population were identified on the basis of χ2 analyses of marker distributions among visually classified black-, brown-, and yellow-seeded DH lines as well as ANOVA and quantitative trait locus analysis of light-reflectance measurements from seeds of the DH lines. The RFLP markers linked to seed colour that were identified in the present study will allow breeding strategies based on genotype selection to be developed for seed colour in rapeseed.Key words: RFLP markers, seed colour genes, rapeseed.
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Hulbert, S. H., T. W. Ilott, E. J. Legg, S. E. Lincoln, E. S. Lander, and R. W. Michelmore. "Genetic analysis of the fungus, Bremia lactucae, using restriction fragment length polymorphisms." Genetics 120, no. 4 (December 1, 1988): 947–58. http://dx.doi.org/10.1093/genetics/120.4.947.
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Abstract Restriction fragment length polymorphisms (RFLPs) were developed as genetic markers for Bremia lactucae, the biotrophic Oomycete fungus which causes lettuce downy mildew. By using 55 genomic and cDNA probes, a total of 61 RFLP loci were identified among three heterothallic isolates of B. lactucae. Of these 61 RFLP loci, 53 were heterozygous in at least one of the three strains and thus were informative for linkage analysis in at least one of two F1 crosses that were performed. Analysis of the cosegregation of these 53 RFLPs, eight avirulence loci and the mating type locus allowed the construction of a preliminary genetic linkage map consisting of 13 small linkage groups. Based on the extent of linkage detected among probes, the genome of B. lactucae can be estimated to be approximately 2000 cM. Linkage was detected between a RFLP locus and an avirulence gene, providing a potential starting point for chromosome walking to clone an avirulence gene. The high frequency of DNA polymorphism in naturally occurring isolates and the proper Mendelian segregation of loci detected by low copy number probes indicates that it will be possible to construct a detailed genetic map of B. lactucae using RFLPs as markers. The method of analysis employed here should be applicable to many other outbreeding, heterozygous species for which defined inbred lines are not available.
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Garcia, G. M., H. T. Stalker, and G. Kochert. "Introgression analysis of an interspecific hybrid population in peanuts (Arachis hypogaea L.) using RFLP and RAPD markers." Genome 38, no. 1 (February 1, 1995): 166–76. http://dx.doi.org/10.1139/g95-021.
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Forty-six introgression lines (F10C9) from a cross between Arachis hypogaea L. (2n = 4x = 40) and A. cardenasii Krapov. &W.C. Gregory (2n = 2x = 20) were analyzed for the introgression of A. cardenasii chromosome segments. Seventy-three RFLP probes and 70 RAPD primers, expressing from one to four A. cardenasii-specific bands, were used to evaluate the set of introgression lines. Thirty-four RFLP probes and 45 RAPD primers identified putative A. cardenasii introgressed chromosome segments in one or more lines. Introgressed segments were detected by RFLP analysis in 10 of the 11 linkage groups; the smallest introgressed fragments were detected by single RFLP markers and the largest were detected by three or four adjacent markers and represented introgressed segments of 30–40 cM. Similar results were obtained with RAPD markers, although markers detecting introgressed fragments could not be placed on the peanut linkage map. Introgression into both A. hypogaea genomes was detected and its implication in breeding for disease resistance is discussed.Key words: peanut, Arachis hypogaea, Arachis cardenasii, RFLPs, RAPDs, introgression, reciprocal recombination, translocation, alien gene transfer, wide cross.
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Waleron, M., K. Waleron, and E. Łojkowska. "Genotypic characterisation of the Erwinia genus by PCR-RFLP analysis of rpoS gene." Plant Protection Science 38, SI 2 - 6th Conf EFPP 2002 (December 31, 2017): 288–90. http://dx.doi.org/10.17221/10470-pps.
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Genotypic characterisation of the members of the genus Erwinia, based on the PCR-RFLP analysis of a fragment of the rpoS gene was done. PCR primers deduced from described rpoS gene sequences of E. carotovora allowed the amplification of about 880 bp DNA fragments from all tested Erwinia species. The rpoS fragments, amplified from 20 species of the studied Erwinia genus, were compared by RFLP analysis with 4 enzymes (AluI, Hin6I, HinfI, and Tru1I). Restriction analysis allowed drawing 63 common profiles of RFLP products for all tested Erwinia. From 1 to 3 specific RFLP profiles were identified among most of the species tested. However, in two cases: E. chrysanthemi and E. c. subsp. carotovora 15 and 20 specific RFLP groups were detected, respectively. High variability of genetic profiles of the E. chrysanthemi and E. c. subsp. carotovora can be explained by the wide spectrum of plants, which they infect. The results indicated that rpoS PCR-RFLP analysis is a useful tool for identification of species and subspecies belonging to the former Erwinia genus, as well as for differentiation of strains within E. c. subsp. carotovora and E. chrysanthemi.
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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 (March 30, 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 among IBDV strains in a infected flock.
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Seldin, M. F., H. C. Morse, J. P. Reeves, C. L. Scribner, R. C. LeBoeuf, and A. D. Steinberg. "Genetic analysis of autoimmune gld mice. I. Identification of a restriction fragment length polymorphism closely linked to the gld mutation within a conserved linkage group." Journal of Experimental Medicine 167, no. 2 (February 1, 1988): 688–93. http://dx.doi.org/10.1084/jem.167.2.688.
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A linkage map of distal mouse chromosome 1 was generated using restriction fragment length polymorphism (RFLP) analysis of DNA prepared from 95 [C3H-gld/gld X Mus spretus)F1 X C3H-gld/gld] backcross mice. The gene order was: (centromere) C4bp, Ren-1,2, Ly-5, [At-3/gld], Apoa-2/Ly-17, Spna-1 (telomere). All mice expressing the phenotype of gld homozygotes were homozygous for the At-3 RFLP characteristic of C3H mice and none of the mice heterozygous for At-3 RFLPs had characteristics of gld homozygotes, demonstrating close linkage between these genes. The identification of an RFLP closely linked to the gld gene provides a starting point for the identification of a genetic defect that results in abnormal T cells and autoimmune disease.
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Kennard, Wayne, Arian Dijkhuizen, Michael Havey, and Jack Staub. "PROGRESS TOWARD DEVELOPMENT OF AN RFLP MAP FOR CUCUMBER." HortScience 25, no. 9 (September 1990): 1159a—1159. http://dx.doi.org/10.21273/hortsci.25.9.1159a.
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The analysis of genetic linkage in cucumber (Cucumis sativus has primarily involved morphological and disease resistance markers. Linkage analysis in cucumber would benefit from more markers. Restriction fragment length polymorphisms (RFLPs) can occur in relatively large numbers within a single segregating family. Research is presently underway to construct an RFLP map of cucumber. Pst I partial genomic and cDNA libraries of cucumber have been constructed as sources of probes for RFLP analysis. Cucumber DNA from 16 accessions of cucumber and one accession of C. sativus var. hardwickii were digested with either of two restriction enzymes (EcoR I and Hind III). This germplasm allows for the assessment of the variability for RFLPs in cucumber and will provide the parents for map construction.
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Noli, Enrico, Silvio Salvi, and Roberto Tuberosa. "Comparative analysis of genetic relationships in barley based on RFLP and RAPD markers." Genome 40, no. 5 (October 1, 1997): 607–16. http://dx.doi.org/10.1139/g97-080.
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Genetic relationships have seldom been analyzed with different types of molecular markers in order to compare the information provided by each marker class. We investigated genetic relationships among nine barley cultivars using separate cluster analyses based on restriction fragment length polymorphisms (RFLPs) and random amplified polymorphic DNAs (RAPDs). Genomic DNA restricted with three enzymes and hybridized with 68 probes revealed 415 RFLPs (74.2% of all bands). Among the 128 primers used for RAPD analysis, 100 provided a reproducible profile, 89 of which revealed 202 polymorphic and 561 monomorphic bands (26.5 and 73.5%, respectively). A nonrandom distribution of 62 RAPDs with a tendency to cluster near centromeric regions was produced when these RAPDs were mapped using 76 doubled-haploid lines derived from a cross between two of the nine cultivars. The correlation between the RFLP and RAPD similarity matrices computed for the 36 pairwise comparisons among the nine cultivars was equal to 0.83. The dendrograms obtained by cluster analyses of the RFLP and RAPD data differed. These results indicate that in barley the information provided by RFLPs and RAPDs is not equivalent, most likely as a consequence of the fact that the two marker classes explore, at least in part, different portions of the genome.Key words: Hordeum vulgare L., genetic distance, molecular markers, cluster analysis.
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Jackson, C. J., A. J. Fox, D. R. A. Wareing, D. N. Hutchinson, and D. M. Jones. "The application of genotyping techniques to the epidemiological analysis ofCampylobacter jejuni." Epidemiology and Infection 117, no. 2 (October 1996): 233–44. http://dx.doi.org/10.1017/s0950268800001400.
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SummaryCampylobacter jejuniserogroup reference strains and collections of sporadic and outbreak- associated isolates were examined for restriction fragment length polymorphisms (RFLPs), usingC. jejunirandom chromosomal and 16S rRNA gene probes. A collection of 48 Penner (HS) and 14 Lior (HL) serogroup reference strains, plus 10 clinical isolates, generated 35 RFLP and 26 ribotype patterns. In combination the two loci generated 48 distinct genotypes. Both probes were able to differentiate between certain random isolates of the same HS/HL serogroups but greater discrimination was obtained with RFLP than with ribotyping. Genotyping distinguished accurately between related and unrelated strains when applied to several outbreaks. Genotypic analysis ofC. jejuniby restriction fragment length polymorphisms is a valuable technique for epidemiological typing. Chromosomal variation detected by the two unlinked probe loci provides some information about the genetic relationship between isolates.
Dissertations / Theses on the topic "RFLP analysis"
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Gray, Stephen James. "The genotyping of Neisseria meningitidis by restriction fragment length polymorphism (RFLP) analysis." Thesis, Manchester Metropolitan University, 1996. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.360085.
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Spengler, C. J. "PCR-RFLP typification of microbes used in the production of a fermented fish product." Thesis, Stellenbosch : Stellenbosch University, 2001. http://hdl.handle.net/10019.1/52397.
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Thesis (MScFoodSc)--Stellenbosch University, 2001.ENGLISH ABSTRACT: The preservation of various fresh fish products is achieved by either smoking, salting, canning, freezing or fermenting a highly perishable raw product. Since many of these facilities are not readily available, the use of fermentation as a means of preserving the product has been extensively practiced. However, the fermentation of fish is a time consuming practise and only by accelerating the process would it be possible to ensure the production of a more cost effective and readily available safe end-product. The quality of the fermented fish product is partially determined by the fermentation conditions and the metabolic activity of the microbes present. The rapid identification of the microbes present during the fermentation would enable the selection of possible starters to ensure an accelerated production of high quality fermented fish products. This study was thus undertaken to develop identification fingerprints for bacteria isolated from fermented fish products. A 1300 bp fragment of the 16S rRNA genes of each of the bacteria previously isolated was successfully amplified using the PCR technique. The isolates included strains of the genera Bacillus, Staphylococcus, Sphingomonas, Kocuria, Brevibacillus, Cryseomonas, Vibrio, Stenotrophomonas and Agrobacterium. The data obtained can, therefore, be used in the identification of these microbes isolated from other similar fermented fish products. The fingerprints could also be used to assist in determining the dominant microbial populations responsible for the characteristic qualitative changes occurring in the fish product during fermentation. The microbial composition of a fermenting fish product partially determines the quality of the end-product, therefore, the use of selected bacterial starters could result in the accelerated production of a microbial safe fermented fish product. A further objective of this study was to accelerate the production of a fermented fish product by inoculating macerated trout with either selected lactic acid bacteria (LAB) or with selected bacteria with high proteolytic activity over a 30 day fermentation period. The LAB included a combination of Lactobacillus plantarum, Lactococcus diacetylactis and Pediococcus cerevisiae strains, whereas the bacteria with high proteolytic activity included strains of Kocuria varians, Bacillus subtilis, two strains of B. amyloliquefaciens and a combination of these bacterial species. The quality of the fermented product was determined using changes in product pH, titratable acidity (%TA) and free amino nitrogen (FAN) formation as efficiency parameters. The data obtained during the fermentation of the macerated trout showed that the selected starters did not have a significant effect on the pH decrease in the product over a 30 day fermentation period. The LAB strains did not have a significant effect on the %TA of the fermenting fish product, yet the presence of these bacteria appeared to limit the FAN production in the product. The bacteria with high proteolytic activity resulted in slightly enhanced %TA values and a higher FAN content in the fermented product. It was also determined that the LAB and Kocuria varians, in contrast to the Bacillus spp. inoculums, did not survive the fermentation conditions well, possibly due to the low pH environment. The presence of the starter bacteria in the fermenting fish mixture at the end of the fermentation was also successfully determined with the use of the PCR-RFLP technique. The fermented fish product, obtained at the end of the fermentation period, had a good aroma and compared favourably to similar commercially available fermented fish products. The use of different microbial starters could in future enable the production of a diverse range of high quality products, which could be produced and marketed locally.
AFRIKAANSE OPSOMMING: Die preservering van ‘n verskeidenheid vars vis produkte word bereik deur die hoogs bederfbare produk te rook, te sout, te blik, te vries of te fermenteer. Aangesien baie van hierdie fasiliteite nie geredelik beskikbaar is nie, is die gebruik van fermentasie as ‘n preserverings metode al ekstensief beoefen. Die fermentasie van vis is egter 'n tydsame proses en slegs deur die versnelling van die proses sal dit moontlik wees om die produksie van ‘n meer koste effektiewe en geredelike beskikbare veilige eindproduk te verseker. Die kwaliteit van die gefermenteerde vis produk word gedeeltelik bepaal deur die fermentasie kondisies en die metaboliese aktiwiteit van die mikrobes teenwoordig. Die vinnige identifikasie van die mikrobes teenwoordig gedurende die fermentasie sal die seleksie van moontlike suursels om die versnelde produksie van hoë kwaliteit gefermenteerde vis produkte moontlik maak. Hierdie studie is dus onderneem om identifikasie vingerafdrukke vir bakteriee wat gei'soleer is van gefermenteerde vis produkte moontlik te maak. ‘n 1300 bp fragment van die 16S rRNA gene van elkeen van die bakteriee wat voorheen gei'soleer is, is suksesvol geamplifiseer deur die PCR tegniek. Die isolate sluit in stamme van die genera Bacillus, Staphylococcus, Sphingomonas, Kocuria, Brevibacillus, Cryseomonas, Vibrio, Stenotrophomonas en Agrobacterium. Die data kan dus gebruik word in die identifikasie van hierdie mikrobes as dit gei'soleer word van ander gefermenteerde vis produkte. Die vingerafdrukke kan ook gebruik word om die dominante mikrobiese populasies wat verantwoordelik is vir die kenmerklike kwalitatiewe veranderinge wat plaasvind in die vis produk gedurende die fermentasie, te identifiseer. Die mikrobiese samestelling van ‘n fermenterende vis produk bepaal gedeeltelik die kwaliteit van die eindproduk, daarom kan die gebruik van geselekteerde bakteriese suursels die versnelde produksie van ‘n mikrobies veilige gefermenteerde vis produk teweeg bring. ‘n Verdere doel van hierdie studie was om die produksie van ‘n gefermenteerde vis produk te versnel deur fyngemaakte forel met of geselekteerde melksuurbakteriee of met geselekteerde bakteriee met hoë proteolitiese aktiwiteit te inokuleer oor ‘n 30 dag fermentasie periode. Die melksuurbakteriee het ingesluit ‘n kombinasie van Lactobacillus plantarum, Lactococcus diacetylactis en Pediococcus cerevisiae, terwyl die bakterieë met hoë proteolitiese aktiwiteit stamme van Kocuria varians, Bacillus subtilis, twee stamme van Bacillus amyloliquefaciens en ‘n kombinasie van hierdie bakteriese stamme ingesluit het. Die kwaliteit van die gefermenteerde produk is bepaal deur die veranderinge in die pH, titreerbare suur (%TS) en vrye amino stikstof (VAS) vorming van die produk as effektiwiteits parameters te gebruik. Die data wat verkry is gedurende die fermentasie van die fyngemaakte forel het gedui daarop dat die geselekteerde suursels nie ‘n merkwaardige effek op die afname in pH in die produk oor ‘n 30 dag fermentasie periode het nie. Die melksuurbakteriee het nie ‘n merkwaardige effek op die %TS van die gefermenteerde vis produk gehad nie, terwyl dit geblyk het dat die teenwoordigheid van hierdie bakterieë die produksie van VAS in die produk belemmer het. Die bakteriee met hoe proteolitiese aktiwiteit het ‘n effense verhoogde %TS en ‘n hoër VAS inhoud in die gefermenteerde produk veroorsaak. Dit is ook bepaal dat die melksuurbakteriee en Kocuria varians, in teenstelling met die Bacillus spp. inokulums, nie die fermentasie kondisies goed oorleef het nie, moontlik as gevolg van die lae pH omgewing. Die teenwoordigheid van die suursel bakteriee in die fermenterende vis mengsel aan die einde van die fermentasie is ook suksesvol bepaal met die PKR-RFLP tegniek. Die gefermenteerde vis produk, verkry aan die einde van die fermentasie periode, het ‘n goeie aroma gehad en het goed vergelyk met soortgelyke kommersieel beskikbare gefermenteerde vis produkte. Die gebruik van verskillende mikrobiese suursels kan in die toekoms die produksie van ‘n diverse reeks hoë kwaliteit produkte wat plaaslik geproduseer en bemark kan word moontlik maak.
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Jaffe, Benjamin. "Genome analysis of Hordeum bulbosum L. and hybrids with H. vulgare L." Thesis, University of Reading, 1998. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.302327.
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Carter, Bradley Robert. "IS1002-associated RFLP fingerprinting of Bordetella pertussis clinical isolates, as a means of strain typing and epidemiological analysis." Thesis, National Library of Canada = Bibliothèque nationale du Canada, 2001. http://www.collectionscanada.ca/obj/s4/f2/dsk3/ftp04/MQ59367.pdf.
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Finnegan, Anna Kathryn. "The genetic structuring of Atlantic salmon (Salmo salar L.) populations in northwest Europe as revealed through nuclear microsatellite and mtDNA PCR-RFLP analysis." Thesis, University of Exeter, 2009. http://hdl.handle.net/10036/72213.
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The structuring of Atlantic salmon (Salmo salar L.) into discrete, genetically differentiated populations both within and between river catchments is well documented. The utilisation of this knowledge has proved valuable in a variety of evolutionary, ecological, managerial and conservation contexts. In this thesis, the genetic structuring of Atlantic salmon populations in northwest Europe was assessed in two catchments of very different sizes, using a range of molecular and associated population genetic methods; findings from the catchment level research are set in context by a broader phylogeographic study of post-glacial colonisation of the region. A regional study into the glacial origins and post-glacial colonisation routes of Atlantic salmon in northwest Europe was explored by analysing a pre-existing microsatellite dataset and supplementing it with haplotype data from mtDNA PCR-RFLP analysis of the same samples (N=702). Evidence from allele permutation tests undertaken on the microsatellite data alongside mtDNA haplotype frequencies suggested that there was a cryptic northern refuge in northwest France, with colonisation of the British Isles and Ireland occurring from this and the long-known Iberian Peninsula refuge. Catchment level studies were undertaken on the river Dart and river Tweed, involving 1151 fish being genotyped with 14 microsatellite loci with a subset of 211 fish being genotyped by mtDNA PCR-RFLP. In both catchments, populations were found to be weakly differentiated genetically, and were most consistent with the meta-population theory of evolution. Similarly, individual spatial autocorrelation analysis indicated that each major tributary within the catchments could be considered as a distinct management or conservation unit. In the Tweed dataset, however, limitations in the sample coverage across the catchment reduced the robustness of some findings. Historical stocking of the river Dart with fish from Scotland and Iceland is well-documented. The long-term implications of these activities on contemporary Dart populations were assessed by genotyping 177 fish from the donor populations using scale samples taken in the 1960s and comparing them to contemporary Dart populations by undertaking admixture analysis. Overall, admixture between the donor and recipient populations was low and appeared to reflect natural underlying levels of genetic relationships. However, increased admixture of donor stocks with one extant Dart population was apparent, indicating some potentially long-term localised success of the stocked fish through hybridisation with the native populations; nevertheless, with the population continuing to decline, this should not be viewed as a successful supplementation programme. Two tributaries on the river Tweed, the Gala and Leader, were inaccessible to salmon for long periods due to the construction of barriers to migration. On both tributaries, fish passes were installed in the 1940s and re-colonisation of the tributaries was possible. Assignment analysis was undertaken and indicated that, contrary to findings for between catchment studies, salmon straying from the most proximate tributaries (i.e. the Ettrick and Caddon) did not appear to be the principal colonisers of the current Gala and Leader populations. Rather, the highest proportion of Gala samples assigned to the Teviot (42%), with the Leader populations assigning to many tributaries across the catchment (Ettrick 28%; Upper 21%; Teviot 19%). However, given the relatively weak differentiation of the baseline samples and limitations inherent in the dataset, the correct self-assignment of baseline samples was very low (average 26%; range 0-47%), hence interpretation must be undertaken with caution. Nevertheless, the findings suggest that the Gala population may have reached a temporally stable state in the 60 years since it has been accessible to salmon. Whilst the relatively small scale of these studies is acknowledged, the application of the findings in management and conservation of the species are discussed in a wider context. These studies would support the following recommendations: to include information on the historic (refugial) origin of contemporary populations in regional management strategies; to treat each major tributary as a distinct unit as an appropriate scale for catchment level management; and, with stocking and supplementation programmes appearing to have no significant long-term success, coupled with the relative speed with which extirpated tributaries appear to be naturally re-colonised, the use of stocking and supplementation programmes should be discouraged.
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Liu, Sixin. "Molecular marker analysis of adult plant resistance to powdery mildew in common wheat." Diss., Virginia Tech, 1999. http://hdl.handle.net/10919/11236.
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Powdery mildew, caused by Blumeria graminis (DC.) E.O. Speer f. sp. tritici E'm. Marchal (syn. Erysiphe graminis f. sp. tritici), is one of the major diseases of wheat (Triticum aestivum L.) worldwide. The use of cultivars with resistance to powdery mildew is an efficient, economical and environmentally safe way to control powdery mildew. Race-specific resistance has been extensively used in breeding programs; however, it is ephemeral. Adult plant resistance (APR) to powdery mildew is more durable as demonstrated by the cultivar Massey, which has maintained its APR to powdery mildew since its release in 1981. To develop an efficient breeding strategy, it is essential to understand the genetic basis of APR. The objectives of this study were to identify molecular markers associated with APR to powdery mildew in common wheat Massey and to verify their association using recombinant inbred (RI) lines.
A cross was made between the powdery mildew susceptible cultivar Becker and Massey. One hundred and eighty F2:3 lines were rated for disease severity under natural pressure of powdery mildew in field. Using both restriction fragment length polymorphism (RFLP) and microsatellite markers, three quantitative trait loci (QTL), designated as QPm.vt-1B, QPm.vt-2A and QPm.vt-2B, were identified in the Becker x Massey F2:3 generation. These loci are located on chromosomes 1B, 2A and 2B, respectively, and explained 17%, 29% and 11% of the total variation among F2:3 lines for powdery mildew resistance, respectively. Cumulatively, the three QTLs explained 50% of the phenotypic variation among F2:3 lines in a multi-QTL model. The three QTLs associated with APR to powdery mildew were derived from Massey and displayed additive gene action. QPm.vt-2B also fits a recessive model for APR to powdery mildew.
In the second part of this study, 97 RI lines were developed from the Becker x Massey cross. The RI lines were evaluated for APR to powdery mildew under natural disease pressure for three years. Both single marker analysis and interval mapping confirmed the presence of the three QTLs identified in the F2:3 generation. The three QTLs, QPm.vt-1B, QPm.vt-2A and QPm.vt-2B, accounted for 15%, 26% and 15% of the variation of mean powdery mildew severity of the RI lines over three years. In a multi-QTL model, the three QTLs explained 44% of the phenotypic variation of the RI lines. The RI lines were grouped according to the genotype of the three QTLs, represented by markers GWM304a, KSUD22 and PSP3100, respectively. The RI lines with Massey alleles at all three loci had a mean disease severity of 3.4%, whereas the RI lines with Becker alleles at all three loci had a mean disease severity of 22.3%. These severity values are similar to those of the corresponding parents.
The molecular markers identified and verified as to their association with APR to powdery mildew in Massey have the potential for use in marker-assisted selection for resistance to powdery mildew and in pyramiding powdery mildew resistance genes, as well as facilitating a better understanding of the molecular basis of APR to powdery mildew.Ph. D.
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Villanueva, Jorge Luis Chacón. "Epidemiologia molecular do vírus da laringotraqueíte infecciosa isolados de surtos em poedeiras comerciais no Estado de São Paulo." Universidade de São Paulo, 2009. http://www.teses.usp.br/teses/disponiveis/10/10133/tde-23012009-155035/.
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Este estudo teve como objetivo detectar e caracterizar molecularmente isolados de campo do vírus da laringotraqueíte infecciosa (VLTI) detectados de aves comerciais com e sem sintomatologia da doença de diferentes regiões do Estado de São Paulo. O estudo incluiu amostras coletadas durante e após o primeiro surto epidêmico da laringotraqueíte infecciosa (LTI) no Brasil, região de Bastos, e de outras localidades durante o período de 2002-2008. A caracterização molecular foi realizada através da técnica de polimorfismo do comprimento de fragmentos de restrição (RFLP) de produtos da reação em cadeia pela polimerase (PCR) dos genes da glicoproteína E, G, proteína quinase (TK) e da proteína reguladora da transcrição (ICP4), assim como pela análise de seqüências dos genes TK e ICP4. Para seqüenciamento do gene ICP4 foram desenvolvidas duas reações de PCR que amplificam dois diferentes fragmentos do gene ICP4. As técnicas de PCR-RFLP e seqüenciamento de DNA mostraram resultados idênticos, diferenciando os isolados de campo das cepas vacinais de origem de cultivo celular (TCO) e de embrião de galinha (CEO). Os resultados mostraram que o surto clínico na região de Bastos foi causado por uma cepa não vacinal e de alta virulência (cepa Bastos), embora também tenha sido possível detectar dois isolados relacionados à cepa CEO circulando durante o surto. Verificou-se que a cepa causadora do surto severo na região de Bastos continua circulando na região apesar do uso de vacinas atenuadas. Além disso, foram isoladas amostras relacionadas às cepas CEO e à cepa Bastos apartir de granjas comerciais de poedeiras localizadas fora da região de Bastos e que estão envolvidas em quadros clínicos da doença. Este estudo mostra (1): a persistência do vírus selvagem de campo na região de Bastos (cepa Bastos) apesar das medidas de controle e do uso de vacinas atenuadas, (2): a disseminação da cepa Bastos e das cepas vacinais CEO para outras regiões, e (3): a eficacia da estratégia padronizada neste estudo para a caracterização e diferenciação de isolados de campo e de cepas vacinais.The objective of this study was the molecular detection and characterization of field isolates of infectious laryngotracheitis virus (ILTV) detected from commercial chickens with and without clinical signs of the disease from regions of the São Paulo state. The study included samples collected during and after of the first epidemic infectious laryngotracheitis (ILT) outbreak in Brazil, Bastos region, and from other regions during 2002-2008. The molecular characterization was developed by restriction fragment length polymorphic analysis (RFLP) of polymerase chain reaction (PCR) products of glycoprotein E, G, thymidine kinase (TK) and regulatory protein of transcription (ICP4) gene, and by sequence analysis of TK and ICP4 gene. For ICP4 gene sequencing, two PCR assays have been developed for amplification of two different fragments of ICP4 gene. The PCR-RFLP and DNA sequencing techniques showed identical results, they could differentiate the field isolates from vaccine strains, tissue culture origin (TCO) and chicken embryo origin (CEO). The results showed that the severe outbreak in Bastos region was caused by a non-vaccine and virulent strain (Bastos strain); however it was possible to detect two isolates closely related to the CEO vaccine strain circulating during the outbreak. This study showed that the strain, which it caused the severe outbreak in Bastos region continue circulating in these region despite of the use of attenuate vaccines. In addition, the present research showed that isolates related to CEO and Bastos strains are circulating in commercial layer flocks located outside the Bastos region, and were involving in clinical cases of the disease. This study shows (1) the persistence of the wild field strain in Bastos region (Bastos strain) despite of the control measures and the use of attenuate vaccines, (2) the dissemination of the Bastos and CEO strains to other regions, and (3) the efficacy of the strategy standardized in this study to characterization and differentiation of field isolates and vaccine strain.
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Gustafson, Aubree Marie. "T-RFLP analysis of bacterial 16S rRNA gene sequences isolated from river otter (Lontra canadensis) scat and parasite screening for the presence of Toxoplasma gondii." Scholarly Commons, 2009. https://scholarlycommons.pacific.edu/uop_etds/732.
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In order to analyze the bacterial community of river otter scat (fecal material) at the class level, river otter scat samples were collected from Grizzly Island Wildlife Area (Solano County, CA) and the Cosumnes River Preserve (Sacramento County, CA). DNA was isolated from each sample with the MOBIO PowerSoil™ DNA Isolation Kit and 16S rRNA gene sequences were amplified from each sample. After digestion with Mspl, TRFLPs were analyzed in an ABI Prism™ 310 Genetic Analyzetin triplicate and data peak information from each electropherogram was uploaded into the Phylogenetic Assignment Tool (PAT). Species belonging to the Class Bacilli were the most abundant followed by unclassified species.
Two road killed river otters were necropsied to recover brain and blood tissue. DNA was isolated using the Qiagen Tissue DNeasy Kit. Samples from both otters were amplified with a singe tube nested PCR primer set for the detection of the ITS 1 region of Toxoplasma gondii. Scat samples used in the T-RFLP analysis were also tested for the presence ofT. gondii using the same nested primer set. Neither the river otter tissue samples nor any of the scat samples used in this analysis showed evidence of infeGtion with T. gondii.
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Siafakas, Nikolaos. "Molecular classification of coxsackie A virus reference and wild type strains on the basis of RFLP analysis and sequencing of the 5'-UTR : structural and evolutionary aspects." Thesis, University of Essex, 2002. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.369367.
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Marques, Cálita Pollyanna. "Padronização da análise dos produtos da PCR/RFLP que amplifica os genes Ribossomal Internal transcribed spacer (ITS) e Glucose-6- phosphate dehydrogenase (G6PD) para identificação de Leishmania spp. em gel de poliacrilamida." Universidade Federal de Goiás, 2017. http://repositorio.bc.ufg.br/tede/handle/tede/7789.
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Fundação de Amparo à Pesquisa do Estado de Goiás - FAPEG
American Cutaneous Leishmaniasis (LTA) is caused by protozoa of the genus Leishmania and it attacks the skin and/or mucous membranes. It is an endemic zoonosis in Brazil being notified in all the Regions. There is a relation between the species of parasite and the clinical manifestations, contributing to the diagnostic complexity, which up to the present, did not exist species-specific diagnosis. In the present work, the proposal was to standardize the analysis of the PCR/RFLP products to the ITS and G6PD genes in polyacrylamide gel. In order to standardize PCR/RFLP analysis on the ITS and G6PD genes, DNA from the reference Leishmania spp. Sample was used and 5%, 6%, 7% 8% and 10% polyacrylamide were tested. The protocol design considered the size of the amplicons generated by the PCR / RFLP, correlating the concentration of the polyacrylamide. To standardize the electrophoresis time the migration of the dyes used in the DNA sample buffer was monitored. To validate the technique, we selected 521 samples from Tocantins patients fixed on slides and 43 samples of parasite isolates stored in Leishbank. The samples from the patients from Tocantins were analyzed by PCR/RFLP to the kDNA and were selected to those positive for the validation. The concentration of the matrix for analysis of the PCR and RFLP products to the ITS gene was standardized in 6% and 8%, respectively, and distinguished the species L. (L.) amazonensis, but the species L. (V.) braziliensis, L. (V.) guyanensis and L. (V.) lainsoni were not distinguished among themselves, occurring the same between L. (V.) naiffi and L. (V.) shawi. The concentration of the matrix for analysis of the PCR products to the G6PD gene was standardized in 6% and distinguished L. (V.) braziliensis from the others. The validation of the polyacrylamide gel analysis of the PCR products to the ITS target from samples of patients fixed in slides was not performed, since of the 256 samples analyzed only 4 amplified. The validation of the analysis of the products of the PCR to the G6PD target in polyacrylamide gel from 48 samples fixed in slides characterized 81% as L. (V.) braziliensis and, characterized 63% of the isolates of parasites as L. (V.) braziliensis. The PCR/RFLP analyzes performed to discriminate Leishmania spp. are complementary and thus contribute to the species-specific diagnosis of LTA.
A Leishmaniose Tegumentar Americana (LTA) é causada por protozoários do gênero Leishmania e acomete pele e/ou mucosas. É uma zoonose endêmica no Brasil sendo notificada em todas as Regiões. Há uma relação entre a espécie de parasito e as manifestações clínicas, contribuindo à complexidade diagnóstica, que até o presente, não existi o diagnóstico espécie-específico. No presente trabalho, a proposta foi padronizar a análise dos produtos da PCR/RFLP aos genes ITS e G6PD em gel de poliacrilamida. Para padronizar as análises dos produtos da PCR/RFLP aos genes ITS e G6PD, foram utilizadas DNA da amostra de Leishmania spp., de referência, sendo testada a poliacrilamida na concentração de 5%, 6%, 7% 8% e 10%. O delineamento do protocolo considerou o tamanho dos amplicons gerados pela PCR/RFLP, correlacionando-o a concentração da poliacrilamida. Para padronizar o tempo da eletroforese foi monitorada a migração dos corantes usados no tampão da amostra de DNA. Para validar a técnica, foram selecionadas 521 amostras de pacientes tocantinenses fixadas em lâminas e 43 amostras de isolados de parasitos armazenados no Leishbank. As amostras dos pacientes tocantinenses foram analisadas pela PCR/RFLP ao kDNA e foram selecionadas àquelas positivas para a validação. A concentração da matriz para analise dos produtos da PCR e RFLP ao gene ITS ficou padronizada respectivamente em 6% e 8% e distinguiu a espécie L.(L.) amazonensis, porém as espécies L. (V.) braziliensis, L. (V.) guyanensis e L. (V.) lainsoni não foram distinguidas entre si, ocorrendo o mesmo entre L. (V.) naiffi e L. (V.) shawi. A concentração da matriz para analise dos produtos da PCR ao gene G6PD ficou padronizada em 6% e distinguiu L. (V.) braziliensis das demais. A validação da análise em gel de poliacrilamida dos produtos da PCR ao alvo ITS a partir de amostras de pacientes fixadas em lâminas não ser realizada, pois das 256 amostras analisadas somente 4 amplificaram. A validação da análise dos produtos da PCR ao alvo G6PD em gel de poliacrilamida a partir de 48 amostras fixadas em lâminas caracterizou 81% como L. (V.) braziliensis e, caracterizou 63% dos isolados de parasitos como L. (V.) braziliensis. As análises pela PCR/RFLP realizadas para discriminar Leishmania spp. se complementam e, assim, contribuem para o diagnóstico espécie-específico da LTA.
Books on the topic "RFLP analysis"
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Sabir, Adel Abdul-Qadir. Isozyme and RFLP analysis of somaclones of cultivated beets. Birmingham: University of Birmingham, 1990.
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Rouben, B. Overview of current RFSP-code capabilities for CANDU core analysis. Mississauga, Ont: AECL, 1996.
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RFP: Analysis, synthesis, and dissemination of the development-demonstration projects in teacher education. Washington, D.C: National Institute of Education, U.S. Dept. of Education, 1985.
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Gray, Stephen James. The genotyping of neisseria meningitidis by restriction fragment lengthpolymorphism (RFLP) analysis. 1996.
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Bae, Hanhong. RFLP analysis of genetic variation in the laminated-root-rot fungal pathogen of conifers, Phellinus weirii. 1992.
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Abdallah, Roshan. Evaluation of DNA hybridization probes for detecting Xanthomonas campestris pv. vesicatoria and analysis of genomic diversity by RFLP techniques. 1993.
Find full textBook chapters on the topic "RFLP analysis"
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Brettschneider, Reinhold. "RFLP Analysis." In Molecular Tools for Screening Biodiversity, 85–95. Dordrecht: Springer Netherlands, 1998. http://dx.doi.org/10.1007/978-94-009-0019-6_18.
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Severson, David W. "RFLP analysis of insect genomes." In The Molecular Biology of Insect Disease Vectors, 309–20. Dordrecht: Springer Netherlands, 1997. http://dx.doi.org/10.1007/978-94-009-1535-0_26.
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Dai, Shutao, and Yan Long. "Genotyping Analysis Using an RFLP Assay." In Methods in Molecular Biology, 91–99. New York, NY: Springer New York, 2014. http://dx.doi.org/10.1007/978-1-4939-1966-6_7.
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Palmer, Jeffrey D. "Organelle DNA isolation and RFLP analysis." In Plant Genomes: Methods for Genetic and Physical Mapping, 35–53. Dordrecht: Springer Netherlands, 1992. http://dx.doi.org/10.1007/978-94-011-2442-3_3.
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Pehu, E. "RFLP analysis of organellar genomes in somatic hybrids." In Plant Tissue Culture Manual, 695–702. Dordrecht: Springer Netherlands, 1991. http://dx.doi.org/10.1007/978-94-009-0103-2_39.
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Bignon, J. D., G. Semana, J. M. Tiercy, M. Simons, J. M. Lalouel, and D. Cohen. "DNA-RFLP Analysis: HLA-DR Beta Workshop Report." In Immunobiology of HLA, 851–60. New York, NY: Springer New York, 1989. http://dx.doi.org/10.1007/978-1-4612-3552-1_252.
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Sedalnick, Jodee, Edward J. Ball, Shari Clark, Lori Dombrausky, Carolina Salvador, and Peter Stastny. "Serology and RFLP Analysis of the Splits of DQw3." In Immunobiology of HLA, 287–88. Berlin, Heidelberg: Springer Berlin Heidelberg, 1989. http://dx.doi.org/10.1007/978-3-662-39946-0_102.
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Trucco, Massimo, Arnold Fritsch, and Emilia Turco. "Class II RFLP Analysis Using β Domain Specific Probes." In Immunobiology of HLA, 307–8. Berlin, Heidelberg: Springer Berlin Heidelberg, 1989. http://dx.doi.org/10.1007/978-3-662-39946-0_114.
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Müller, E., P. T. H. Brown, S. Hartke, and H. Lörz. "RFLP-analysis of Rice Plants Regenerated from Tissue Cultures." In Progress in Plant Cellular and Molecular Biology, 153–56. Dordrecht: Springer Netherlands, 1990. http://dx.doi.org/10.1007/978-94-009-2103-0_22.
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Solignac, Michel. "Preparation and Visualization of Mitochondrial DNA for RFLP Analysis." In Molecular Techniques in Taxonomy, 295–319. Berlin, Heidelberg: Springer Berlin Heidelberg, 1991. http://dx.doi.org/10.1007/978-3-642-83962-7_19.
Full textConference papers on the topic "RFLP analysis"
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Moodie, P., I. R. Peake, M. B. Liddell, and A. L. Bloom. "CARRIER DETECTION AND PRENATAL DIAGNOSIS IN HAEMOPHILIA A BY GENE ANALYSIS." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644007.
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Restriction fragment length polymorphism (RFLP) analysis has been used to perform family studies, including prenatal diagnosis, in 21 haemophilia A kindred.Two intragenomic RFLPs were studied in conjunction with one linked RFLP. The intragenomic BgII RFLP,situation 3' to exon 26 was detected with cDNA probe C (Genetics Institute) giving bands of 20kb (17% of X chromosomes) and 5kb (83%), and the intragenomic Bell RFLP, situated 3' to exon 18, was detected with the genomic DNA probe pi 14.12 from Genentech. The frequency of this RFLP in the local population was 23% (1.1 kb allele) and 77% (0.88kb allele). The linked probe DXS15 (DX13) was used to detect a Bglll RFLPwith alleles of 5.8kb (45%) and 2.8kkb (55%). A recombination rate of approximately 5% has been estimated between the factor VIII and DXS15 lociCarrier studies were performed in 15 kindreds. 25 obligate carriers were identified and of these, 20 were potentially informative (heterozygous and phase known) for at least 1 RFLP (9 for Bgll, 9 for Bell and 7 for BgIII). 34 possible carriers were studied, of which 13 were diagnosed as normal (6 by BgII, 6 by Bell and 5 by BgIII). 17 were diagnosed as carriers (2 by Bgll, 12 by Bell and 10 by Bglll) and diagnosis was not possible in a further 4 cases. Of these diagnosed as carriers 3 were non-informative for all RFLPs, and 14informative for at least one RFLP (3 by Bgll, 8 by Bell and 8 with BgIII).Prenatal diagnosis was attempted by analysis of DNA extracted by chorionic villussampling in 6 cases of male fetuses at risk of havinghaemophilia A. 1 fetus was diagnosed as being affected (Bell) and was electively terminated. Three otherfetuses were diagnosed as normal by the BgIII/DXS15 RFLP, but the two intragenomic RFLPs were non-informative. Because of the possibility of a crossover allthree patients opted for mid-trimester fetoscopy andmeasurement of fetal factor VIII at Kings College Hospital, London (Dr Reuben Mibashan), where the diagnoses were confirmed. In the 4th case a normal fetus was diagnosed by the Bgll RFLP analysis, but a spontaneous abortion at 12 weeks prevented confirmation of this result. In the final case of twin male fetuses, none of the RFLPs was informative and both were diagnosed as normal by fetal blood sampling at fetoscopy.
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Bernardi, F., G. Marchetti, F. Vannini, L. Felloni, F. Panicucci, and F. Conconi. "SPORADISM INVESTIGATION AND CARRIER DETECTION IN HAEMOPHILIA A BY RFLP ANALYSIS." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644011.
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Restriction fragment lenght polymorphisms (RFLPs)analysis has been employed for carrier detection andfor sporadism study in Haemophilia A. Three RFLPs, one intragenic in FC8 (647/BcII) and two with close linkage to Haemophilia A at DXS52 (Stl4/Taql) and DXS15 (DX13/BgIII), were used.In 20 families 29 carrier status determinations havebeen performed.In order to investigate sporadicity and to estimate the sex ratio of mutation rates directely, 17 families with isolated cases of haemophilia A were studied.In eight out of the 17 families the RFLPsanalysis excluded the carrier status of the maternalgrandmothers.Since by hemostatic studies the eight mothers of the propositi were shown to be haemophilia carriers, the origin of the newly mutated genes was inferred from the RFLP patterns: six haemophilic genes derive from the normal maternal grandfathers and two from the maternal grandmothers.Possible recombinations between FVIII locus and the extragenic RFLPs loci have to be considered; however the intragenic Bell RFLP is informative in five out of the eight families and the DXl3 and Stl4 patterns are concordant.The data indicate a higher mutation rate in males than in females gametes as previously suggested, althought not unanimously, by segregation analysis and coagulation studies. The RFLP analysis in a large number of families with isolated cases of haemophilia isnecessary to define the precise ratio of sex mutation rate for this disease.Work supported by P.F. Ing. Gen. Basi Mol. Mai. Ered. Contratto CNR N 8400877.
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Lillicrap, D., A. R. Giles, J. J. A. Holden, and B. N. White. "THE RELATIVE EFFICACY OF GENETIC ANALYSIS AND COAGULATION TESTING IN THE DIAGNOSIS OF CARRIERS OF HEMOPHILIA A." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644010.
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This study has assessed the relative benefits of restriction fragment length polymorphism (RFLP) linkage and coagulation testing in the diagnosis of carriers of hemophilia A. 221 samples from 55 families have been studied for intragenic and flanking RFLPs. All samples were tested for the Factor VIII intragenic Bell RFLP and for the flanking marker St 14. 83% of obligate carrier females were heterozygous at oneor both of these two polymorphicsites. However, only38% of these women were heterozygous at the intragenic site and might safely be offered prenatal diagnosis using this marker for the hemophilia mutation. Carrier diagnosis was obtained in 52% of 81 potential carriers tested. Diagnosis wasbased on intragenic RFLP information in only 48% of these cases. Genetic diagnosis was possible in 27 atrisk women from families with no prior history of hemophilia. Four of these women were diagnosed as carriers on the basis of a gross Factor VIII gene deletion and the remaining 23 women were identified as non-carriers by the Bell (11) and Stl4 (12) RFLP data. 39 women remained undiagnosed after gene analysis studies. 23 of these women were female relatives of sporadic hemophiliacs and thus RFLP segregation analysis was inappropriate. A further 9 potential carriers were undiagnosed because of homozygosity in key individuals in their families. In 31 potential carriers we have quantitated Factor VIII:C (one stage assay) and vWf:Ag (Laurell and ELISA) and derived probabilities for carrier status. In 3 women there was conflicting genetic and coagulation data. Meanwhile, in 12 undiagnosed women from sporadic families, carrier diagnostic probabilities of > 0.9 were obtained. These studies indicate that optimal carrier detection for hemophilia A requires more intragenic and closely linked RFLPs and the continuance of coagulation testing to assist women from sporadic families.
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Bastola, Dhundy R., Sarfraz H. Chandio, Peter C. Iwen, Steven H. Hinrichs, and and Hesham Ali. "RFLP-WAVE Analysis for Rapid Identification of Medically Important Fungi." In 2008 41st Annual Hawaii International Conference on System Sciences. IEEE, 2008. http://dx.doi.org/10.1109/hicss.2008.379.
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Horvath, Laszlo, and Imre J. Rudas. "Modeling and Analysis of Requests, Behaviors, and Actions for RFLP Structure." In 2015 IEEE International Conference on Systems, Man, and Cybernetics (SMC). IEEE, 2015. http://dx.doi.org/10.1109/smc.2015.136.
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de la Salle, C., M. J. Baas, L. Grunebaum, R. Gialeraki, T. Mandalaki, and J.-P. Cazenave. "MOLECULAR ANALYSIS OF COAGULATION FACTOR VIII AND IX GENES BY DNA PROBES." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1643873.
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About 250 individuals belonging to 44 families with hemophilia A or B were studied in our laboratory. The detection of carriers was first established by pedigree analysis of each family . and coagulation and immunological assays of factor VIII or IX. The availability of specific probes for the molecular study of these two genes makes possible a diagnosis with certainty in the case of informative families. 25 families of hemophilia A were studied. For each person, blood was collected into EDTA and leucocyte DNA was extracted, digested by restriction endonucleases, electrophoresed in 0.9 % agarose gels and transferred to nitrocellulose filters by Southern blotting. Two probes were used for the analysis of factor VIII gene. The St 14 probe (J.L. Mandel) located on the q28 region of the X chromosome and closely linked to the gene, determines a restriction fragment length polymorphism (RFLP) when the DNA is digested by the enzyme TaqI. The p114-12 genomic probe (Genentech) corresponding to the exons 17 and 18 of the factor VIII gene, reveals a RFLP in the DNA digested by the enzyme BclI. 19 families -of hemophilia B were studied. A total factor IX cDNA probe was used for the screening of potential deletions in the case of hemophiliacs with circulating antibodies. A genomic probe containing the exons II, III and IV of factor IX was used to detect the TaqI RFLP. For the study of factor VIII gene, the extragenic probe St 14 gives a very high percentage of informativity (about 90 %) but recombination can occur between the probe and the gene. The p 114-12 probe, which is used to confirm the results given by the St 14 probe, gives about 20 % informativity. In our study, we were able to diagnose carrier state with certainty in 92 % of the families. For hemophilia B, the genomic probe gives about 40 % informativity. A large deletion of the region of the factor IX gene has been found in one family and remains to be mapped. In conclusion, carrier detection and prenatal diagnosis can be established with certainty by molecular studies in most cases of hemophilia A using the St 14 probe, with a 5 % risk of recombination when the BclI RFLP cannot confirm. This diagnosis is possible in about 40 % of the cases of hemophilia B.
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Maramis, Christos F., Anastasios N. Delopoulos, and Alexandros F. Lambropoulos. "Analysis of PCR-RFLP gel electrophoresis images for accurate and automated HPV typing." In 2010 10th IEEE International Conference on Information Technology and Applications in Biomedicine (ITAB 2010). IEEE, 2010. http://dx.doi.org/10.1109/itab.2010.5687732.
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Ploos van Amstel, J. K., A. L. van der Zanden, P. H. Reitsma, and R. M. Bertina. "RESTRICTION ANALYSIS AND SOUTHERN BLOTTING OF TOTAL HUMAN DNA REVEALS THE EXISTENCE OF MORE THAN ONE GENE HOMOLOGOUS WITH PROTEIN S cDNA." In XIth International Congress on Thrombosis and Haemostasis. Schattauer GmbH, 1987. http://dx.doi.org/10.1055/s-0038-1644639.
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A deficiency in protein S, the cofactor of activated protein C, is associated with an increased risk for the development of venous thrombosis. It is inherited as an autosomal dominant disorder. To improve the detection of heterozygotes in affected families, we have started to search for restriction fragment length polymorphism (RFLP) in the protein S gene. This study revealed the existence of two genes containing sequences homologous to protein S cDNA.Three non-overlapping fragments of clone pSUL5, which codes for the carboxy-terminal part of protein S and contains the complete 3' untranslated region, were isolated and used as probes in search for RFLP of the protein S gene.Surprisingly the non-overlapping probes shared more than one hybridizing band. The hybridization took place under stringent assay conditions.This observation is contradictory to the intron-exon organization of a gene and suggests the existence of two genes, containing sequences homologous with pSUL5. Both genes could be assigned to chromosome 3 by mapping through somatic cell hybrids. Whether two functional protein S genes are present in the human genome remains to be established.
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Dong, Ping, Yujiao Sun, Hongqi Wang, Liding Chen, and Hui Zhang. "Notice of Retraction: Study on Riparian Zone Microbial Community Structure of the Wenyu River by T-RFLP Analysis." In 2011 5th International Conference on Bioinformatics and Biomedical Engineering. IEEE, 2011. http://dx.doi.org/10.1109/icbbe.2011.5780057.
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Eltai, Nahla O., Sara H. Al-Hadidi, Asmaa A. Al Than, Sanjay H. Doiphode, and Hadi M. Yassine. "Salmonellosis among Pediatric Population in Qatar: Prevalence, Antibiotic Resistance and Molecular Epidemiology." In Qatar University Annual Research Forum & Exhibition. Qatar University Press, 2020. http://dx.doi.org/10.29117/quarfe.2020.0126.
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Objectives: This study aims to characterize at the molecular level the genes encoding resistance in Salmonella and explain the molecular mechanisms underlying resistance to ceftriaxone, cefepime, amoxicillin-clavulanate, tetracycline, trimethoprim-sulfamethoxazole, chloramphenicol, colistin and azithromycin in Salmonella. It aims as well to characterize the 16S rRNA gene region by restriction fragment length polymorphism (RFLP) to investigate if this region constitutes an appropriate ‘coincidental’ marker to distinguish important pathogenic Salmonella species. Finally, determine the lineages of Salmonella species and evolutionary relationships among bacteria classified within the same genus. Methodology: 246 Salmonella isolates were collected from children under 16 years old during Jan. 2018 - Dec 2019, presented with gastroenteritis at Hamad Medical Corporation. Isolates were tested for antibiotic susceptibility against nineteen relevant antibiotics using E-test. Isolates that harbor antibiotic resistance were confirmed using PCR specific primers for 38 genes. In addition, the variable region of class 1 and 2 integrons were identified by PCR among amoxicillin-clavulanate (AMC) resistant samples. RFLP targeting16S rRNAwas performed using seven restriction enzymes including AluI, Bgl I, Bgl II, EcoR I, SmaI, Hinf I & Hae III. Results: Resistance was detected against 15 antibiotics and (38.2%) of isolates were resistant to at least one antibiotic. Overall, high resistance was reported to tetracycline (23.9%), ampicillin (21.1%), AMC (18.7%) and sulfamethoxazoletrimethoprim (13%). Further, 22.4% of the isolates were multidrug-resistant (MDR), with 4.1% being ESBL producers. 90 % of ESBL producers had one of bla CTX-M-Group. Class (1) AMC resistant samples showed the highest resistance to different antibiotics. 16S rRNA-RFLP analysis divided Salmonella isolates into two main groups. Conclusion: Our results indicate a high antimicrobial resistance pattern of Salmonella, which necessities the development of regulatory programs to combats antimicrobial resistance. In particular, our results showed high resistance to Class (1) AMC cassette that involves the transmission and expression of the resistance. This might lead to a concern of increased multidrug resistance in the future. This study provides evidence guidance to activate and implement the pillars of an antimicrobial stewardship program in animal and human health to reduce MDR salmonellosis.
Reports on the topic "RFLP analysis"
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Hartley, III, D., C. Snyder, and M. Boling. Decision analysis methods for selecting RFP (Request for Proposal) responses. Office of Scientific and Technical Information (OSTI), September 1989. http://dx.doi.org/10.2172/5174065.
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