Relevant bibliographies by topics / Molecular typing

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  1. Journal articles
  2. Dissertations / Theses
  3. Books
  4. Book chapters
  5. Conference papers
  6. Reports

Academic literature on the topic 'Molecular typing'

Author: Grafiati
Published: 4 June 2021
Last updated: 10 March 2023

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Journal articles on the topic "Molecular typing"

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Müller, F. M. C., A. Lischewski, D. Harmsen, and J. Hacker. "Standardized molecular typing." Mycoses 42 (December 1999): 69–72. http://dx.doi.org/10.1111/j.1439-0507.1999.tb00016.x.

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de Valk, H. A., C. H. W. Klaassen, and J. F. G. M. Meis. "Molecular typing ofAspergillusspecies." Mycoses 51, no. 6 (November 2008): 463–76. http://dx.doi.org/10.1111/j.1439-0507.2008.01538.x.

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Wu, Fann, and Phyllis Della-Latta. "Molecular typing strategies." Seminars in Perinatology 26, no. 5 (October 2002): 357–66. http://dx.doi.org/10.1053/sper.2002.36269.

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Milford, Edgar L. "HLA molecular typing." Current Opinion in Nephrology and Hypertension 2, no. 6 (November 1993): 892–97. http://dx.doi.org/10.1097/00041552-199311000-00006.

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Park, Eun-Hee, Mi-Hee Kim, Joung-A. Kim, Nan-Sook Han, Ju Hyeoun Lee, Sang Gi Min, Yon Koung Park, Seong Hyun Jin, Gu Young Jeong, and Jae Hun Bin. "Molecular Typing of Legionella pneumophila Isolated in Busan, Using PFGE." Journal of Life Science 15, no. 2 (April 1, 2005): 161–68. http://dx.doi.org/10.5352/jls.2005.15.2.161.

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Pitt, T. L. "Molecular typing in practice." Journal of Hospital Infection 43 (December 1999): S85—S88. http://dx.doi.org/10.1016/s0195-6701(99)90069-5.

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Jeršek, Barbara. "Molecular typing ofListeria Monocytogenes." Acta Microbiologica et Immunologica Hungarica 49, no. 1 (March 2002): 81–92. http://dx.doi.org/10.1556/amicr.49.2002.1.8.

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Kobayashi, N., K. Taniguchi, K. Kojima, S. Urasawa, N. Uehara, Y. Omizu, Y. Kishi, A. Yagihashi, and I. Kurokawa. "Analysis of methicillin-resistant and methicillin-susceptibleStaphylococcus aureusby a molecular typing method based on coagulase gene polymorphisms." Epidemiology and Infection 115, no. 3 (December 1995): 419–26. http://dx.doi.org/10.1017/s095026880005857x.

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SummaryA molecular typing method forStaphylococcus aureusbased on coagulase gene polymorphisms (coagulase gene typing) was evaluated by examining a total of 240 isolates which comprised 210 methicillin-resistantS. aureus(MRSA) and 30 methicillin-susceptibleS. aureus(MSSA) collected from a single hospital. ByAlulrestriction enzyme digestion of the PCR-amplified 3′-end region of the coagulase gene including 81-bp repeated units, the MRSA and MSSA isolates examined were divided into 6 and 12 restriction fragment length polymorphism (RFLP) patterns, respectively, whereas five patterns were commonly detected in MRSA and MSSA. MRSA isolates that showed a particular RFLP pattern were considered to be predominant in the hospital. Coagulase typing with type-specific antisera was also performed for allS. aureusisolates for comparison. Coagulase types II and VII were most frequently detected and included isolates with four and five differentAluIRFLP patterns, respectively, whereas each of the other coagulase types corresponded to a single RFLP pattern. These results indicated that RFLP typing was more discriminatory than serological typing, for typingS. aureusand demonstrated its utility in epidemiologic investigation ofS. aureusinfection in hospitals.
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Gerlach, John A. "Human Lymphocyte Antigen Molecular Typing." Archives of Pathology & Laboratory Medicine 126, no. 3 (March 1, 2002): 281–84. http://dx.doi.org/10.5858/2002-126-0281-hlamt.

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Abstract The human lymphocyte antigen (HLA) typing community was one of the early groups to adopt molecular testing. This action was borne out of the need to identify the many alleles of the highly polymorphic HLA system. Early paradigms used restriction fragment length polymorphism regimes, but the polymerase chain reaction method of amplification quickly replaced that less-than-discriminating choice. Methods currently in use for HLA typing, with commercial kits available, are sequence-specific oligonucleotide probe (both dot blot and the reverse blot dot), sequence-specific primer amplification, restriction fragment length polymorphism of amplified products, double-stranded sequence conformation polymorphism (with and without reference strand), sequence-based typing, and microarray technologies. More than 1250 alleles are recognized by the World Health Organization and meet their criteria for assignment. These alleles can be identified by molecular methods and represent alleles present at class I and class II loci of the HLA complex. On occasion, ambiguous results still persist, even with the best molecular typing methods. Therefore, it is clear to the HLA typing community that a combination of the above methods may be needed to allow true discrimination of the possible alleles an individual carries in their genetic makeup. It is also clear that a typing laboratory may need to resort to nonmolecular serology to understand the significance and impact of the type generated by the HLA molecular typing laboratory.
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Pfaller, Michael A. "Molecular Epidemiology in the Care of Patients." Archives of Pathology & Laboratory Medicine 123, no. 11 (November 1, 1999): 1007–10. http://dx.doi.org/10.5858/1999-123-1007-meitco.

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Abstract Several different epidemiologic typing methods have been applied in studies of microbial pathogens. These methods include the more traditional nonmolecular approaches as well as the more sophisticated molecular typing methods. Application of traditional epidemiologic typing methods, such as antibiogram, serotyping, biotyping, and phage typing, have occasionally been useful in describing the epidemiology of infectious diseases. However, these methods have generally been considered to be too variable, labor intensive, and slow to be of practical value in epidemiologic investigations. In response to these limitations, several techniques have been adopted from the molecular biology field for use as epidemiologic typing methods and have been applied in studies of bacteria, fungi, viruses, and protozoa. The most widely used molecular typing methods are the DNA-based methods, such as plasmid profiling, restriction endonuclease analysis of plasmid and genomic DNA, Southern hybridization analysis using specific DNA probes, and chromosomal DNA profiling using either pulsed-field gel electrophoresis or polymerase chain reaction–based methods. The various molecular typing methods may be applied to the investigation of outbreaks of infections or may be used in the context of epidemiologic surveillance. For outbreak investigation, typing methods are used to compare isolates from a suspected outbreak to delineate clonally related and unrelated strains with the goal of short-term control of transmission. In the context of epidemiologic surveillance, molecular typing methods may be used to monitor geographic spread and prevalence shifts of epidemic and endemic clones with the goal of long-term evaluation of preventive strategies or for the detection and monitoring of emerging and reemerging infections. The specific typing method selected may vary with the task at hand; however, the typing studies must always be used to supplement, rather than replace, careful epidemiologic investigation.
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Dissertations / Theses on the topic "Molecular typing"

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Al, Qurashi Yasir Mohammed A. "Molecular typing of adenoviruses." Thesis, University of Manchester, 2009. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.506268.

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Patel, Sushil. "Molecular typing and identification of mycobacteria." Thesis, University of London, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.300635.

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Desai, Meeta. "Molecular epidemiological typing of Streptococcus pyogenes." Thesis, Open University, 1999. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.299021.

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Ngan, Chi-shing, and 顏志成. "Rapid typing of mycobacterium tuberculosis in respiratory specimens using PCR-based mycobacterial interspersed repetitive units (MIRU)typing." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2009. http://hub.hku.hk/bib/B4378334X.

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Matsheka, Maitshwarelo Ignatius. "Molecular identification and typing of campylobacter concisus." Doctoral thesis, University of Cape Town, 2000. http://hdl.handle.net/11427/2713.

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Hoff, Justin Wallace. "Molecular typing of wine yeasts : evaluation of typing techniques and establishment of a database." Thesis, Stellenbosch : Stellenbosch University, 2012. http://hdl.handle.net/10019.1/19942.

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Thesis (MSc)--Stellenbosch University, 2012.
ENGLISH ABSTRACT: The yeast species, Saccharomyces cerevisiae and S. bayanus are well known for the key role they play during alcoholic fermentation in both wine and beer industries. These yeasts are available in pure active dried form and can be used to produce different wine styles and to manage quality. There are more than 200 commercial wine yeast strains on the market and include naturally isolated strains and hybrids. With all these commercial yeasts available, strain authenticity is very important to the manufacturer of active dried wine yeasts (ADWY) because it can prevent commercial losses and maintain market credibility. It is as important to the winemaker as it may impact wine quality. Various traditional and molecular techniques have been successfully applied to perform quality control of wine yeast strains. The aims of this study were to evaluate electrophoretic karyotyping (CHEF) and PCRbased methods to distinguish between Saccharomyces wine yeast strains and to establish a database containing molecular profiles of commercial strains. CHEF karyotyping was chosen because it is generally used in the wine industry to distinguish between wine yeast strains, but can be time-consuming. Alternatively, PCR-based methods are considered to be reliable and fast. These PCR methods included the evaluation of interdelta regions, multiplex-PCR of miniand microsatellites, MET2 gene RFLP analysis and the use of several species-specific primers. In this study, 62 commercial wine yeast strains, were randomly selected from various manufacturers of ADWY, and two reference strains, S. bayanus CBS 380 and S. cerevisiae CBS 1171, were evaluated. CHEF karyotyping could successfully differentiate between all 64 yeast strains. The two primer sets used for interdelta amplifications, delta1-2 and delta12-21, yielded 59 and 62 profiles, respectively. Yeast strains considered to be similar or identical according to interdelta amplification results, were resolved with CHEF karyotyping. CHEF karyotyping was proven to be more accurate than interdelta amplifications in distinguishing between commercial wine yeast strains. However, the results of interdelta amplifications were very useful and less time-consuming. The multiplex-PCR of mini- and microsatellite primers only succeeded in identifying a specific band within 55 of the 64 yeast strains including the S. cerevisiae reference strain, a possible indication of species specificity. However, oenological designation using MET2 gene RFLP analysis and species-specific primers indicated that all the commercial strains in this study had a S. cerevisiae ancestry. Restriction analysis of the MET2 gene with EcoRI also successfully identified AWRI Fusion and Zymaflore X5 as hybrid yeast strains. A wine yeast database was created and contains three libraries, i.e. CHEF karyotypes, delta1-2 and delta12-21 electrophoretic profiles. The database was proven to be functional and showed great accuracy in grouping and identifying test strains. The database has many possible applications, but there is still some optimisation and refinement needed.
AFRIKAANSE OPSOMMING: Die Saccharomyces sensu stricto kompleks, is bekend vir die belangrike rol wat hierdie giste speel tydens alkoholiese fermentasie in biede wyn en bier industrieë. Dit is om hierdie rede dat kelders rein aktief gedroogte wyngis gebruik vir die produksie van spesifieke wynstyle, asook kwaliteit. Daar is meer as 200 kommersiële wyngiste op die mark beskikbaar en dit sluit natuurlike isolate en hibriede in. Daarom is gisras verifikasie baie belangrik vir die vervaardiger van aktief gedroogde wyngiste asook die wynmaker om finansiële verliese te voorkom en mark vertrouenswaardigheid te handhaaf. Verskeie tradisionele en molekulêre metodes word suksesvol toegepas vir gehalte beheer van die gisrasse. Die doel van hierdie studie was om elektroforetiese kariotipering (CHEF) en PKR gebaseerde tegnieke se vermoë om tussen Saccharomyces wyngiste te onderskei, te ondersoek. Ook deel van die doelwitte was om ‘n databasis te skep wat die verskillende elektroforetiese profiele van die kommersiële gisrasse bevat. Tydens hierdie studie is 62 kommersiële gisrasse van verskeie vervaardigers ewekansig geselekteer. Saccharomyces bayanus CBS 380 en S. cerevisiae CBS 1171 is as verwysingsrasse gebruik. Elektroforetiese kariotipering (CHEF) is gekies omdat dit een van die mees algemeenste tegnieke is wat gebruik word om tussen wyngiste te onderskei, maar dit word as tydrowend en arbeidsintensief beskou. As ‘n alternatief is daar na PKR gebaseerde tegnieke gekyk. Hierdie tegnieke word as betroubaar en vinnig beskou. Verskeie PKR gebaseerde tegnieke is ondersoek, naamlik PKR van interdelta areas, multipleks-PKR van mini- en mikrosatelliete, MET2 geen RFLP analise en die gebruik van spesie-spesifieke inleiers. Interdelta amplifikasies en mini- en makrosatelliet inleiers is geselekteer as gevolg van hul vermoë om Saccharomyces wyngiste tot op spesie en ras vlak te onderskei. Die MET2 geen en spesie-spesifieke inleiers is geselekteer om die kommersiele wyngis as S. cerevisiae, S. bayanus of as hibriede te klassifiseer. CHEF kariotipering kon tussen al 64 giste onderskeid tref. Die twee stelle inleiers wat vir interdelta amplifikasie gebruik was, delta1-2 en delta12-21, het onderskeidelik 59 en 62 profiele gelewer. Gis rasse wat identiese profiele met die delta inleiers gelewer het, kon egter met CHEF kariotipering onderskei word. Die resultate het getoon dat CHEF kariotipering beter tussen die kommersiële wyngiste kon onderskei as die interdelta amplifikasies, maar dat die interdelta amplifikasies nogsteeds goeie onderskeiding toon en dat dit minder tydrowend is. Die multipleks-PKR van mini- en mikrosatelliete kon slegs ‘n enkele band in 55 van die 64 giste uit lig. ‘n Moontlike aanduiding van spesie spesifiekheid. Die oenologiese groepering volgens MET2 geen analise en spesies-spesifieke inleiers dui aan dat al die kommersiele wyngiste wat in hierdie studie gebruik is, moontlik van S. cerevisiae afkomstig is. Restriksie analise van die MET2 geen met EcoRI het ook AWRI Fusion en Zymaflore X5 as hibriede geïdentifiseer. Die CHEF kariotipes en interdelta elektroforetiese profiele is gebruik om ‘n databasis van die kommersiële Saccharomyces wyngiste op te stel. Die databasis is funksioneel en het die toets rasse akkuraat geïdentifiseer en korrek gegroepeer. Die databasis moet egter nog verdere optimisering en verfyning ondergaan.
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Ng, Yi-ting, and 吳依婷. "Multilocus sequence typing for streptococcus agalactiae." Thesis, The University of Hong Kong (Pokfulam, Hong Kong), 2011. http://hub.hku.hk/bib/B46699569.

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Ngan, Chi-shing. "Rapid typing of mycobacterium tuberculosis in respiratory specimens using PCR-based mycobacterial interspersed repetitive units (MIRU) typing." Click to view the E-thesis via HKUTO, 2009. http://sunzi.lib.hku.hk/hkuto/record/B4378334X.

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Hielm, Sebastian. "Molecular detection, typing and epidemiology og Clostridium botulinum." Helsinki : University of Helsinki, 1999. http://ethesis.helsinki.fi/julkaisut/ela/elint/vk/hielm/.

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Hu, Honghua. "Molecular typing and evolution of Salmonella enterica serovar Typhimurium." Thesis, The University of Sydney, 2005. http://hdl.handle.net/2123/704.

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Salmonella enterica serovar Typhimurium is a common cause of salmonellosis among humans and animals worldwide. In Australia, Typhimurium is responsible for over half of the salmonellosis cases. The Anderson phage-typing scheme is the primary means of long-term surveillance of Typhimurium outbreak isolates, and has played an important role in epidemiology. However, there exist quite a number of strains of Typhimurium that cannot be defined by the phage-typing scheme. Furthermore, the knowledge of evolutionary relationships among isolates of different phage types is still very limited and the genetic basis of phage type variation remains largely unknown. To address these issues, this study focused on molecular typing and evolution of Typhimurium. Fluorescent amplified-fragment length polymorphism (AFLP) was applied to 46 Typhimurium isolates comprising nine phage types in Australia using the restriction enzymes MseI and EcoRI and MseI +1 / EcoRI +1 primer pair combinations. The selected phage types, DT9, DT135, DT64, DT44, DT126, DT12a, DT1, DT141 and DT108, have been dominant or frequent phage types in animal and human infections in Australia in recent years. AFLP in the present study showed a very good discrimination power with Simpson index of diversity of 0.98, 35 different AFLP patterns were observed in the 46 isolates studied. The tree based on AFLP patterns showed good correlation with phage type, grouped most Typhimurium isolates by phage type, and differentiated all nine phage types. Furthermore, 84 phage-type specific polymorphic AFLP fragments, for which presence or absence correlated with phage type (including 25 with one exception to phage-type specificity) were observed in the 46 strains studied. Eighteen phage-type specific AFLP fragments were cloned and sequenced. Sixteen are of known genes or have a homologue in the databases. It was found a predominance of phage and plasmid genes rather than mutational changes in the AFLP fragments studied. Of the 18 cloned and sequenced AFLP fragments, only four relate to mutational changes in the S. enterica chromosome, the other 14 comprise DNA of mobile elements: nine are phage related, three are plasmid related and two are gain of DNA from unknown origin. Twelve of the 18 sequenced phage-type specific AFLP markers are polymorphic because the DNA is present or absent as indicated by Southern hybridization. Two of these markers were successfully used in preliminary PCR-based typing of 30 DT9 and 29 DT135 isolates from worldwide collections. 27 of the 30 DT9 isolates and all DT135 isolates tested were correctly categorized. The results implied a good potential to use the sequence of these fragments as the basis for a multiplex PCR or a microarray based molecular 'phage' typing method for Typhimurium. This thesis also studied the molecular evolutionary relationships among the same set of 46 Typhimurium isolates using mutational changes detected by AFLP, or analysis of intergenic regions and their flanking genes in genome sequences. The complete genome sequence of Typhimurium LT2 was analysed by computer modelled AFLP. The polymorphic AFLP fragments, which matched with the modelled LT2 AFLP fragments, were amplified and sequenced by LT2 genome based primers to determine the changes. Forty-nine intergenic regions with higher pairwise differences between LT2 and Typhi CT18 were amplified and sequenced using LT2 genome based primers for one isolate of each phage type. 51 polymorphic sites were detected consisting of 18 in AFLP fragments and 33 in intergenic regions or their flanking genes. PCR-RFLP (restriction fragment length polymorphism) and SNaPshot were used to further investigate the distribution of the single nucleotide polymorphisms (SNPs) detected in intergenic regions in all isolates studied. Of the 18 mutational changes detected in AFLP fragments, eight were indels (insertions / deletions) and ten single base substitutions. Of the eight indels, four were in genes, three in intergenic regions, and one covered adjacent intergenic and coding regions. The four indels in genes all caused frameshift mutations, including three single base indels and one 19 bp deletion. Of the ten substitutions, one was in an intergenic region and nine in genes comprising three synonymous and six non-synonymous substitutions. Of the 33 polymorphic sites detected from sequences of 23 intergenic regions and their flanking genes, one was IS200 insertion and 32 single nucleotide polymorphisms (SNPs), of which 30 were single base substitutions and two were single base indels. Nine of the 33 variations were found in the flanking genes, which were all single base substitutions comprising four synonymous, four non-synonymous substitutions and one non-sense mutation. More non-synonymous than synonymous substitutions were found for those in coding regions within Typhimurium, indicating that slightly deleterious intraspecies mutations can be fixed within clones, such as various lineages of Typhimurium. The 51 polymorphic sites, which were inferred from sequences of both mutation related AFLP fragments, and intergenic regions and their flanking genes, gave a single phylogenetic tree of the 46 Typhimurium isolates studied. All sequences involved were compared with the homologous sequences in the available S. enterica genome sequences for serovars Typhi, Paratyphi A, Gallinarum, Enteritidis and Pullorum and this enabled the determination of the direction of the mutational changes in the isolates studied and the root of the phylogenetic tree. There were only two events inferred to have occurred twice, the remaining 49 polymorphisms can be explained by a single event. The data indicated that Typhimurium has a very strong clonal structure with a very low level of recombination over the time for diversification of Typhimurium as majority of clonal variations are from point mutations rather than recombination. The phylogenetic tree based on mutational changes showed that most Typhimurium isolates of a given phage type are in the same evolutionary group, but that some phage types appear to have arisen more than once. Comparison of the phylogenetic tree with AFLP data gave examples of unrelated isolates of a given phage type having common AFLP fragments comprising plasmid or phage genes, supporting the view that phage type can be determined by presence of specific phages or plasmids. The mutation-based tree showed that six of the nine phage types studied appeared to have a single origin, at least for the isolates studied. It also found that DT1 and DT44 had two independent origins even for the limited set of strains used. The distribution of DT12a isolates into two groups could be explained that the group of three DT12a isolates were derived from the other group of four DT12a isolates, where the root of the tree might be. The data also confirmed that DT64 arose from DT9. The phylogenetic tree that was generated based on essentially mutational changes provides clear relationships of the closely related Typhimurium isolates with high level of consistency and reasonable confidence. This study provided one of the few analyses of relationships of isolates within a clone. Matching actual AFLP with computer modeled AFLP and sequencing intergenic regions provide very good new strategies to identify mutational polymorphisms and to study the molecular evolutionary relationships in the closely related isolates.
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Books on the topic "Molecular typing"

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de Filippis, Ivano, and Marian L. McKee, eds. Molecular Typing in Bacterial Infections. Totowa, NJ: Humana Press, 2013. http://dx.doi.org/10.1007/978-1-62703-185-1.

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Birch, Michael. Molecular typing of Aspergillus species. Manchester: University of Manchester, 1994.

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Bugert, Peter, ed. Molecular Typing of Blood Cell Antigens. New York, NY: Springer New York, 2015. http://dx.doi.org/10.1007/978-1-4939-2690-9.

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de Filippis, Ivano, ed. Molecular Typing in Bacterial Infections, Volume II. Cham: Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-030-83217-9.

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de Filippis, Ivano, ed. Molecular Typing in Bacterial Infections, Volume I. Cham: Springer International Publishing, 2022. http://dx.doi.org/10.1007/978-3-030-74018-4.

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Towner, K. J., and A. Cockayne. Molecular Methods for Microbial Identification and Typing. Dordrecht: Springer Netherlands, 1993. http://dx.doi.org/10.1007/978-94-011-1506-3.

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A, Cockayne, ed. Molecular methods for microbial identification and typing. London: Chapman & Hall, 1993.

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Foley, Steven L. Molecular typing methods for tracking foodborne micoorganisms. Hauppauge, N.Y: Nova Science Publishers, 2011.

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Lenie, Dijkshoorn, Towner K. J, and Struelens Marc, eds. New approaches for the generation and analysis of microbial typing data. Amsterdam: Elsevier, 2001.

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Dostal, Stefan. Concise guide to mycobacteria and their molecular differentiation. Würzburg, Germany: Ridom Press, 2003.

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Book chapters on the topic "Molecular typing"

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Kamoun, Malek, and Thomas M. Williams. "Molecular HLA Typing." In Molecular Pathology in Clinical Practice, 541–50. New York, NY: Springer New York, 2007. http://dx.doi.org/10.1007/978-0-387-33227-7_48.

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Kamoun, Malek, Jill A. Hollenbach, Steven J. Mack, and Thomas M. Williams. "Molecular HLA Typing." In Molecular Pathology in Clinical Practice, 867–85. Cham: Springer International Publishing, 2016. http://dx.doi.org/10.1007/978-3-319-19674-9_58.

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Chirakadze, Irina, Ann Perets, and Rafiq Ahmed. "Phage Typing." In Methods in Molecular Biology, 293–305. Totowa, NJ: Humana Press, 2009. http://dx.doi.org/10.1007/978-1-60327-565-1_17.

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Moulds, JoAnn M., and Steven R. Sloan. "Introduction to Molecular Typing." In BeadChip Molecular Immunohematology, 9–16. New York, NY: Springer New York, 2010. http://dx.doi.org/10.1007/978-1-4419-7512-6_2.

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Ibarz Pavón, Ana Belén, and Martin C. J. Maiden. "Multilocus Sequence Typing." In Methods in Molecular Biology, 129–40. Totowa, NJ: Humana Press, 2009. http://dx.doi.org/10.1007/978-1-60327-999-4_11.

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Johnson, Timothy J., and Lisa K. Nolan. "Plasmid Replicon Typing." In Methods in Molecular Biology, 27–35. Totowa, NJ: Humana Press, 2009. http://dx.doi.org/10.1007/978-1-60327-999-4_3.

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Carrillo, Catherine D., and Omar A. Oyarzabal. "Molecular Typing ofCampylobacter jejuni." In DNA Methods in Food Safety, 185–204. Chichester, UK: John Wiley & Sons, Ltd, 2014. http://dx.doi.org/10.1002/9781118278666.ch9.

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Seitz, Amy E., and D. Rebecca Prevots. "Molecular Epidemiology." In Molecular Typing in Bacterial Infections, 3–13. Totowa, NJ: Humana Press, 2012. http://dx.doi.org/10.1007/978-1-62703-185-1_1.

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Weedn, Victor W. "Forensic DNA Typing." In Molecular Pathology in Clinical Practice, 491–506. New York, NY: Springer New York, 2007. http://dx.doi.org/10.1007/978-0-387-33227-7_44.

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Ginevra, Christophe. "Legionella pneumophila Typing." In Molecular Typing in Bacterial Infections, 221–27. Totowa, NJ: Humana Press, 2012. http://dx.doi.org/10.1007/978-1-62703-185-1_15.

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Conference papers on the topic "Molecular typing"

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Salehian, Sormeh, and Donna Mcshane. "Characterising pseudomonas carriage patterns using molecular typing." In ERS International Congress 2019 abstracts. European Respiratory Society, 2019. http://dx.doi.org/10.1183/13993003.congress-2019.pa977.

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Lança, A., I. Almeida, H. M. Martins, F. Bernardo, M. Guerra, J. Inácio, and M. L. Martins. "An efficient molecular typing assay for Alternaria spp. isolates." In Proceedings of the III International Conference on Environmental, Industrial and Applied Microbiology (BioMicroWorld2009). WORLD SCIENTIFIC, 2010. http://dx.doi.org/10.1142/9789814322119_0098.

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Champion, Elizabeth A., Elena Popowitch, Melissa Miller, Lisa Saiman, and Marianne Muhlebach. "MRSA: Epidemiology, Molecular Typing And Antimicrobial Susceptibilities: Multicenter STAR-CF Study." In American Thoracic Society 2011 International Conference, May 13-18, 2011 • Denver Colorado. American Thoracic Society, 2011. http://dx.doi.org/10.1164/ajrccm-conference.2011.183.1_meetingabstracts.a6120.

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Kudryavtseva, L. G., and V. I. Sergevnin. "APPLICATION OF PATHOGEN GENETIC TYPING IN THE EPIDEMIOLOGICAL DIAGNOSIS GROUP MORBIDITY CAUSES PURULENT-SEPTIC INFECTIONS IN CARDIAC SURGERY HOSPITAL PATIENTS." In Molecular Diagnostics and Biosafety. Federal Budget Institute of Science 'Central Research Institute for Epidemiology', 2020. http://dx.doi.org/10.36233/978-5-9900432-9-9-96.

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van Bost, S., Y. Ghafir, G. Daube, and B. China. "Development of a new molecular typing method of Salmonella spp. based on SNPs detection." In Second International Symposium on Epidemiology and Control of Salmonella in Pork. Iowa State University, Digital Press, 2003. http://dx.doi.org/10.31274/safepork-180809-464.

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Bochkov, Yury A., Kristine Grindle, Fue Vang, Wai-Ming Lee, and James Gern. "Improved Molecular Typing Assay For Detection Of Human Rhinovirus Species A, B And C." In American Thoracic Society 2012 International Conference, May 18-23, 2012 • San Francisco, California. American Thoracic Society, 2012. http://dx.doi.org/10.1164/ajrccm-conference.2012.185.1_meetingabstracts.a5488.

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Laumen, Jolein, Lieke Van Alphen, Liteboho Maduna, Andrew Medina-Marino, James Mcintyre, Jeffrey Klausner, Marleen Kock, and Remco Peters. "P617 Molecular typing ofmycoplasma genitaliumshows a diverse epidemic with limited azithromycin resistance in south africa." In Abstracts for the STI & HIV World Congress (Joint Meeting of the 23rd ISSTDR and 20th IUSTI), July 14–17, 2019, Vancouver, Canada. BMJ Publishing Group Ltd, 2019. http://dx.doi.org/10.1136/sextrans-2019-sti.685.

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Banhart, Sebastian, Tanja Pilz, Thalea Tamminga, Sandra Dudareva, Eva Guhl, Ingeborg Graeber, Viviane Bremer, et al. "P636 High diversity ofneisseria gonorrhoeaein germany revealed by molecular typing using NG-MAST (2014–17)." In Abstracts for the STI & HIV World Congress (Joint Meeting of the 23rd ISSTDR and 20th IUSTI), July 14–17, 2019, Vancouver, Canada. BMJ Publishing Group Ltd, 2019. http://dx.doi.org/10.1136/sextrans-2019-sti.704.

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Xu, Zhi, Zhibin Hu, Xinying Huo, Chuanning Tang, Si-Yi Chen, and Jinfei Chen. "Abstract 1523: Molecular typing of Chinese gastrointestinal stromal tumors using a multigene next generation sequencing panel." In Proceedings: AACR Annual Meeting 2014; April 5-9, 2014; San Diego, CA. American Association for Cancer Research, 2014. http://dx.doi.org/10.1158/1538-7445.am2014-1523.

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Zoolkifli, Nurliyana Wan, and Sahilah Abd Mutalib. "Molecular typing among beef isolates of Escherichia coli using consensus repetitive intergenic enterobacteria-polymerase chain reaction (ERIC-PCR)." In THE 2013 UKM FST POSTGRADUATE COLLOQUIUM: Proceedings of the Universiti Kebangsaan Malaysia, Faculty of Science and Technology 2013 Postgraduate Colloquium. AIP Publishing LLC, 2013. http://dx.doi.org/10.1063/1.4858729.

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Reports on the topic "Molecular typing"

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Levisohn, Sharon, Maricarmen Garcia, David Yogev, and Stanley Kleven. Targeted Molecular Typing of Pathogenic Avian Mycoplasmas. United States Department of Agriculture, January 2006. http://dx.doi.org/10.32747/2006.7695853.bard.

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Intraspecies identification (DNA "fingerprinting") of pathogenic avian mycoplasmas is a powerful tool for epidemiological studies and monitoring strain identity. However the only widely method available for Mycoplasma gallisepticum (MG) and M. synoviae (MS)wasrandom amplified polymorphic DNA (RAPD). This project aimed to develop alternative and supplementary typing methods that will overcome the major constraints of RAPD, such as the need for isolation of the organism in pure culture and the lack of reproducibility intrinsic in the method. Our strategy focussed on recognition of molecular markers enabling identification of MG and MS vaccine strains and, by extension, pathogenic potential of field isolates. Our first aim was to develop PCR-based systems which will allow amplification of specific targeted genes directly from clinical material. For this purpose we evaluated the degree of intraspecies heterogeneity in genes encoding variable surface antigens uniquely found in MG all of which are putative pathogenicity factors. Phylogenic analysis of targeted sequences of selected genes (pvpA, gapA, mgc2, and lp) was employed to determine the relationship among MG strains.. This method, designated gene targeted sequencing (GTS), was successfully employed to identify strains and to establish epidemiologically-linked strain clusters. Diagnostic PCR tests were designed and validated for each of the target genes, allowing amplification of specific nucleotide sequences from clinical samples. An mgc2-PCR-RFLP test was designed for rapid differential diagnosis of MG vaccine strains in Israel. Addressing other project goals, we used transposon mutagenesis and in vivo and in vitro models for pathogenicity to correlated specific changes in target genes with biological properties that may impact the course of infection. An innovative method for specific detection and typing of MS strains was based on the hemagglutinin-encoding gene vlhA, uniquely found in this species. In parallel, we evaluated the application of amplified fragment length polymorphism (AFLP) in avian mycoplasmas. AFLP is a highly discriminatory method that scans the entire genome using infrequent restriction site PCR. As a first step the method was found to be highly correlated with other DNA typing methods for MG species and strain differentiation. The method is highly reproducible and relatively rapid, although it is necessary to isolate the strain to be tested. Both AFLP and GTS are readily to amenable to computer-assisted analysis of similarity and construction of a data-base resource. The availability of improved and diverse tools will help realize the full potential of molecular typing of avian mycoplasmas as an integral and essential part of mycoplasma control programs.
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Yogev, David, Ricardo Rosenbusch, Sharon Levisohn, and Eitan Rapoport. Molecular Pathogenesis of Mycoplasma bovis and Mycoplasma agalactiae and its Application in Diagnosis and Control. United States Department of Agriculture, April 2000. http://dx.doi.org/10.32747/2000.7573073.bard.

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Mycoplasma bovis and M. agalactiae are two phylogenetically related mycoplasmas which cause economically significant diseases in their respective bovine or small ruminant hosts. These organisms cause persistent asymptomatic infections that can result in severe outbreaks upon introduction of carrier animals into susceptible herds. Little is known about the mechanisms underlying mycoplasma-host interaction, variation in virulence, or of the factors enabling avoidance of the host immune system. In recent years it has become apparent that the ability of pathogenic microorganisms to rapidly alter surface antigenic structures and to fine tune their antigenicity, a phenomena called antigenic variation, is one of the most effective strategies used to escape immune destruction and to establish chronic infections. Our discovery of a novel genetic system, mediating antigenic variation in M. bovis (vsp) as well as in M. agalactiae (avg) served as a starting point for our proposal which included the following objectives: (i) Molecular and functional characterization of the variable surface lipoproteins (Vsp) system of M. bovis and comparison with the Vsp-counterpart in M. agalactiae (ii) Determination of the role of Vsp proteins in the survival of M. bovis when confronted by host defense factors, (iii) Assessment of Vsp-based genetic and antigenic typing of M. bovis and M. agalactiae for epidemiology of infection and (iv) Improvement of diagnostic tests for M. bovis and M. agalactiae based on the vsp-and vsp-analogous systems. We have carried out an extensive molecular characterization of the vsp system and unravelled the precise molecular mechanism responsible for the generation of surface antigenic variation in M. bovis. Our data clearly demonstrated that the two pathogenic mycoplasma species possess large gene families encoding variable lipoprotein antigens that apparently play an important role in immune evasion and in pathogen-host interaction during infection. Phase variable production of these antigens was found to be mediated by a novel molecular mechanism utilizing double site-specific DNA inversions via an intermediate vsp configuration. Studies in model systems indicate that phase variation of VspA is relevant in interaction between M. bovis and macrophages or monocytes, a crucial stage in pathogenesis. Using an ELISA test with captured VspA as an antigen, phase variation was shown to occur in vivo and under field conditions. Genomic rearrangements in the avg gene family of M. agalactiae were shown to occur in vivo and may well have a role in evasion of host defences and establishment of chronic infection. An epidemiological study indicated that patterns of vsp-related antigenic variation diverge rapidly in an M. bovis infected herd. Marked divergence was also found with avg-based genomic typing of M. agalactiae in chronically infected sheep. However, avg-genomic fingerprints were found to be relatively homogeneous in different animals during acute stages of an outbreak of Contagious Agalactiae, and differ between unrelated outbreaks. These data support the concept of vsp-based genomic typing but indicate the necessity for further refinement of the methodology. The molecular knowledge on these surface antigens and their encoding genes provides the basis for generating specific recombinant tools and serological methods for serodiagnosis and epidemiological purposes. Utilization of these methods in the field may allow differentiating acutely infected herds from chronic herds and disease-free herds. In addition the highly immunogenic nature of these lipoproteins may facilitate the design of protective vaccine against mycoplasma infections.
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Trucco, Massimo. Children's Hospital of Pittsburgh Histocompatibility Center Microfabricated CE Chips to Make More Cost- Effective HLA Class I and Class II Molecular Typing. Fort Belvoir, VA: Defense Technical Information Center, May 2000. http://dx.doi.org/10.21236/ada377722.

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Trucco, Massimo. Children's Hospital of Pittsburgh Histocotripatibility Center Molecular Typing of Alleles at HLA Class I and Class II Loci on Blood Spotted Filter Paper. Fort Belvoir, VA: Defense Technical Information Center, January 1999. http://dx.doi.org/10.21236/ada359083.

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Levisohn, Sharon, Mark Jackwood, and Stanley Kleven. New Approaches for Detection of Mycoplasma iowae Infection in Turkeys. United States Department of Agriculture, February 1995. http://dx.doi.org/10.32747/1995.7612834.bard.

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Mycoplasma iowae (Mi) is a pathogenic avian mycoplasma which causes mortality in turkey embryos and as such has clinical and economic significance for the turkey breeder industry. Control of Mi infection is severely hampered by lack of adequate diagnostic tests, together with resistance to most antibiotics and resilience to environment. A markedly high degree of intra-species antigenic variation also contributes to difficulties in detection and control of infection. In this project we have designed an innovative gene-based diagnostic test based on specific amplification of the 16S rRNA gene of Mi. This reaction, designed Multi-species PCR-RFLP test, also amplifies the DNA of the pathogenic avian mycoplasmas M. gallisepticum (Mg) and M. synoviae (Ms). This test detects DNA equivalent to about 300 cfu Mi or either of the other two target mycoplasmas, individually or in mixed infection. It is a quick test, applicable to a wide variety of clinical samples, such as allantoic fluid or tracheal or cloacal swab suspensions. Differential diagnosis is carried out by gel electro-phoresis of the PCR amplicon digested with selected restriction enzymes (Restriction Fragment Length Polymorphism). This can also be readily accomplished by using a simple Dot-Blot hybridization assay with digoxigenin-labeled oligonucleotide probes reacting specifically with unique Mi, Mg or Ms sequences in the PCR amplicon. The PCR/OLIGO test increased sensitivity by at least 10-fold with a capacity for rapid testing of large numbers of samples. Experimental infection trials were carried out to evaluate the diagnostic tools and to study pathogenesis of Mi infection. Field studies and experimental infection of embryonated eggs indicated both synergistic and competitive interaction of mycoplasma pathogens in mixed infection. The value of the PCR diagnostic tests for following the time course of egg transmission was shown. A workable serological test (Dot Immunobinding Assay) was also developed but there was no clear-cut evidence that infected turkeys develop an immune response. Typing of a wide spectrum of Mi field isolates by a variety of gene-based molecular techniques indicated a higher degree of genetic homogeneity than predicted on the basis of the phenotypic variability. All known strains of Mi were detected by the method developed. Together with an M. meleagridis-PCR test based on the same gene, the Multi-species PCR test is a highly valuable tool for diagnosis of pathogenic mycoplasmas in single or mixed infection. The further application of this rapid and specific test as a part of Mi and overall mycoplasma control programs will be dependent on developments in the turkey industry.
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