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Relevant bibliographies by topics / Genomic subtraction hybridization

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Academic literature on the topic 'Genomic subtraction hybridization'

Author: Grafiati

Published: 4 June 2025

Last updated: 1 August 2025

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Journal articles on the topic "Genomic subtraction hybridization"

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Pradel, Nathalie, Sabine Leroy-Setrin, Bernard Joly, and Valérie Livrelli. "Genomic Subtraction To Identify and Characterize Sequences of Shiga Toxin-Producing Escherichia coli O91:H21." Applied and Environmental Microbiology 68, no. 5 (2002): 2316–25. http://dx.doi.org/10.1128/aem.68.5.2316-2325.2002.

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ABSTRACT To identify Shiga toxin-producing Escherichia coli genes associated with severe human disease, a genomic subtraction technique was used with hemolytic-uremic syndrome-associated O91:H21 strain CH014 and O6:H10 bovine strains. The method was adapted to the Shiga toxin-producing E. coli genome: three rounds of subtraction were used to isolate DNA fragments specific to strain CH014. The fragments were characterized by genetic support analysis, sequencing, and hybridization to the genome of a collection of Shiga toxin-producing E. coli strains. A total of 42 fragments were found, 19 of wh

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Emmerth, Melanie, Werner Goebel, Samuel I. Miller, and Christoph J. Hueck. "Genomic Subtraction Identifies Salmonella typhimurium Prophages, F-Related Plasmid Sequences, and a Novel Fimbrial Operon, stf, Which Are Absent inSalmonella typhi." Journal of Bacteriology 181, no. 18 (1999): 5652–61. http://dx.doi.org/10.1128/jb.181.18.5652-5661.1999.

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ABSTRACT Salmonella typhimurium causes systemic and fatal infection in inbred mice, while the related serotype Salmonella typhi is avirulent for mammals other than humans. In order to identify genes from the virulent strain S. typhimurium ATCC 14028 that are absent in S. typhi Ty2, and therefore might be involved in S. typhimurium mouse virulence, a PCR-supported genomic subtractive hybridization procedure was employed. We have identified a novel putative fimbrial operon,stfACDEFG, located at centisome 5 of the S. typhimurium chromosome, which is absent in S. typhi,Salmonella arizonae, and Sal

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Barr, Frederic G., and Beverly S. Emanuel. "Application of a subtraction hybridization technique involving photoactivatable biotin and organic extraction to solution hybridization analysis of genomic DNA." Analytical Biochemistry 186, no. 2 (1990): 369–73. http://dx.doi.org/10.1016/0003-2697(90)90096-r.

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Hermans, Armand P. H. M., Tjakko Abee, Marcel H. Zwietering, and Henk J. M. Aarts. "Identification of Novel Salmonella enterica Serovar Typhimurium DT104-Specific Prophage and Nonprophage Chromosomal Sequences among Serovar Typhimurium Isolates by Genomic Subtractive Hybridization." Applied and Environmental Microbiology 71, no. 9 (2005): 4979–85. http://dx.doi.org/10.1128/aem.71.9.4979-4985.2005.

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ABSTRACT Genomic subtractive hybridization was performed between Salmonella enterica serovar Typhimurium LT2 and DT104 to search for novel Salmonella serovar Typhimurium DT104-specific sequences. The subtraction resulted mainly in the isolation of DNA fragments with sequence similarity to phages. Two fragments identified were associated with possible virulence factors. One fragment was identical to irsA of Salmonella serovar Typhimurium ATCC 14028, which is suggested to be involved in macrophage survival. The other fragment was homologous to HldD, an Escherichia coli O157:H7 lipopolysaccharide

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Reynaud, Yann, Denis Saulnier, Didier Mazel, Cyrille Goarant, and Frédérique Le Roux. "Correlation between Detection of a Plasmid and High-Level Virulence of Vibrio nigripulchritudo, a Pathogen of the Shrimp Litopenaeus stylirostris." Applied and Environmental Microbiology 74, no. 10 (2008): 3038–47. http://dx.doi.org/10.1128/aem.02680-07.

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ABSTRACT Vibrio nigripulchritudo, the etiological agent of Litopenaeus stylirostris summer syndrome, is responsible for mass mortalities of shrimp in New Caledonia. Epidemiological studies led to the suggestion that this disease is caused by an emergent group of pathogenic strains. Genomic subtractive hybridization was carried out between two isolates exhibiting low and high virulence. Our subtraction library was constituted of 521 specific fragments; 55 of these were detected in all virulent isolates from our collection (n = 32), and 13 were detected only in the isolates demonstrating the hig

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ZOU, GANG, XILING DU, TONY DUAN, and TE LIU. "Application of a NotI subtraction and methylation-specific genome subtractive hybridization technique in the detection of genomic DNA methylation differences between hydatidiform moles and villi." Molecular Medicine Reports 7, no. 1 (2012): 77–82. http://dx.doi.org/10.3892/mmr.2012.1169.

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Zhou, Jian, Shaojing Wang, Li'ang Yu, et al. "Cloning and physical localization of male-biased repetitive DNA sequences in Spinacia oleracea (Amaranthaceae)." Comparative Cytogenetics 15, no. (2) (2021): 101–18. https://doi.org/10.3897/CompCytogen.v15i2.63061.

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Spinach (Spinacia oleracea Linnaeus, 1753) is an ideal material for studying molecular mechanisms of early-stage sex chromosome evolution in dioecious plants. Degenerate oligonucleotide-primed polymerase chain reaction (DOP-PCR) technique facilitates the retrotransposon-relevant studies by enriching specific repetitive DNA sequences from a micro-dissected single chromosome. We conducted genomic subtractive hybridization to screen sex-biased DNA sequences by using the DOP-PCR amplification products of micro-dissected spinach Y chromosome. The screening yielded 55 male-biased DNA sequences with

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Charlesworth, Brian, Philippe Jarne, and Stavroula Assimacopoulos. "The distribution of transposable elements within and between chromosomes in a population of Drosophila melanogaster. III. Element abundances in heterochromatin." Genetical Research 64, no. 3 (1994): 183–97. http://dx.doi.org/10.1017/s0016672300032845.

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SummaryThe total genomic copy numbers of ten families of transposable elements of Drosophila melanogaster in a set of ten isogenic lines derived from a natural population were estimated by slot-blotting. The numbers of euchromatic copies of members of each family were determined for each line by in situ hybridization of element probes to polytene chromosomes. Heterochromatic numbers were estimated by subtraction of the euchromatic counts from the total numbers. There was considerable variation between element families and lines in heterochromatic abundances, and the variance between lines for

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Mills, Dallice, Brian W. Russell, and Janet Williams Hanus. "Specific Detection of Clavibacter michiganensis subsp. sepedonicus by Amplification of Three Unique DNA Sequences Isolated by Subtraction Hybridization." Phytopathology® 87, no. 8 (1997): 853–61. http://dx.doi.org/10.1094/phyto.1997.87.8.853.

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Three single-copy, unique DNA fragments, designated Cms50, Cms72, and Cms85, were isolated from strain CS3 of Clavibacter michiganensis subsp. sepedonicus by subtraction hybridization using driver DNA from C. michiganensis subsp. insidiosus, C. michiganensis subsp. michiganensis, and Rhodococcus facians. Radio-labeled probes made of these fragments and used in Southern blot analysis revealed each to be absolutely specific to all North American C. michiganensis subsp. sepedonicus strains tested, including plasmidless and nonmucoid strains. The probes have no homology with genomic DNA from relat

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Zhang, Lin, Nuo Yang, Jia Huang, et al. "Transcriptional Coactivator Drosophila Eyes Absent Homologue 2 Is Up-Regulated in Epithelial Ovarian Cancer and Promotes Tumor Growth." Cancer Research 65, no. 3 (2005): 925–32. http://dx.doi.org/10.1158/0008-5472.925.65.3.

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Abstract Epithelial ovarian cancer is the most frequent cause of gynecologic malignancy-related mortality in women. To identify genes up-regulated in ovarian cancer, PCR-select cDNA subtraction was done and Drosophila Eyes Absent Homologue 2 (EYA2) was isolated as a promising candidate. The transcriptional coactivator eya controls essential cellular functions during organogenesis of Drosophila. EYA2 mRNA was found to be up-regulated in ovarian cancer by real-time reverse transcription–PCR, whereas its protein product was detected in 93.6% of ovarian cancer specimens by immunohistochemistry (n

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Dissertations / Theses on the topic "Genomic subtraction hybridization"

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Glen, McGillivary. "Comparative Genomic Analysis Between the Haemophilus influenzae biogroup aegyptius Brazilian Purpuric Fever Invasive Strain F3031 and the Haemophilus influenzae biogroup aegyptius Non-invasive Strain F1947." Miami University / OhioLINK, 2004. http://rave.ohiolink.edu/etdc/view?acc_num=miami1088607238.

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Karki, Puja. "Differential Expression of Genes During Diapause in the Flesh Fly, Sarcophaga crassipalpis." Digital Commons @ East Tennessee State University, 2009. https://dc.etsu.edu/etd/1818.

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The objective of this study was to identify genes that are differentially regulated during diapause when compared with nondiapausing pupae in Sarcophaga crassipalpis. The results of a Suppression Subtractive Hybridization procedure was used to indentify genes that are differentially regulated in both diapause and nondiapausing states while suppressing genes that are common to both states. Randomly picked colonies from both subtractive libraries were isolated and the inserts sequenced. The sequences were analyzed using the bioinformatics tools NCBI, BlastX, Clustal W, etc. Out of 384 clones, 59

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Mukhtar, Lenah. "Evaluation of the Genetic Differences Between Two Subtypes of Campylobacter fetus (Fetus and Venerealis) in Canada." Thèse, Université d'Ottawa / University of Ottawa, 2013. http://hdl.handle.net/10393/24402.

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The pathogen Campylobacter fetus (CF) is classified into two subspecies, Campylobacter fetus subspecies fetus (CFF) and Campylobacter fetus subspecies venerealis (CFV). Even though CFF and CFV are genetically closely related, they exhibit differences in their host adaptation; CFF inhabits the gastrointestinal tract of both humans and several animal species, while classical CFV is specific to the bovine genital tract and is of particular concern with respect to international bovine trade regulation. Traditionally, differentiation between the two subspecies has been achieved using a limited numb

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Adhikari, Bishwo. "Genomic Analysis of Nematode-Environment Interaction." BYU ScholarsArchive, 2010. https://scholarsarchive.byu.edu/etd/2578.

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The natural environments of organisms present a multitude of biotic and abiotic challenges that require both short-term ecological and long-term evolutionary responses. Though most environmental response studies have focused on effects at the ecosystem, community and organismal levels, the ultimate controls of these responses are located in the genome of the organism. Soil nematodes are highly responsive to, and display a wide variety of responses to changing environmental conditions, making them ideal models for the study of organismal interactions with their environment. In an attempt to exa

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Lee, Kun Hung, and 李坤鴻. "Study of penetration and cytotoxcity of Serratia marcescens by PCR-select genome hybridization subtraction and protein analysis." Thesis, 2008. http://ndltd.ncl.edu.tw/handle/m5jv6e.

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碩士<br>長庚大學<br>醫學生物技術研究所<br>96<br>Serratia marcescens is an opportunistic pathogen, involving nosocomial infections of various severity. Previously, we found that the ability of penetration and cytotoxicity is important for the bacterium to cause invasive infections. S. marcescens, NB36, a penetrative/cytotoxic strain, and NU100, a non-penetrative/non-cytotoxic strain, were studied. A PCR-based genomic subtractive hybridization method was used to detect NB36- or NU100-specific genomic sequences. Protein profiles were compared between the two strains. Proteins of interest were extracted and anal

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Hsieh, Wang-Ju, and 謝旺儒. "Analysis of pathogenic leptospires-specific genes by genomic suppression subtractive hybridization and cloning, expression and characterization of the outer membrane protein gene “omp52” from one Taiwanese leptospiral isolate." Thesis, 2005. http://ndltd.ncl.edu.tw/handle/05022847410103340035.

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博士<br>國立臺灣大學<br>獸醫學研究所<br>93<br>Abstract In Taiwan, leptospirosis is caused mainly by Leptospira santarosai serovar shermani. Suppression subtractive hybridization was employed to isolate DNA fragments present in pathogenic Leptopsira santarosai serovar shermani but absent in non-pathogenic Leptospira biflexa serovar patoc. Analysis of 23 subtracted DNA clones revealed 25 gene fragments by BLAST program. Eight clones showed similarity to transposase genes and three clones displayed homology with either translation or metabolism related genes. Four clones were similar to outer membrane protein,

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Books on the topic "Genomic subtraction hybridization"

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Li, Jane Jie. Gynogenesis and genomic subtraction hybridization in rainbow trout: By Jane Jie Li. 1991.

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Book chapters on the topic "Genomic subtraction hybridization"

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Ishino, Fumitoshi, Yoshimi Kuroiwa, Naoki Miyoshi, Shin Kobayashi, Takashi Kohda, and Tomoko Kaneko-Ishino. "Subtraction-Hybridization Method for the Identification of Imprinted Genes." In Genomic Imprinting. Humana Press, 2002. http://dx.doi.org/10.1385/1-59259-211-2:101.

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Depre, Christophe. "Functional Genomics by cDNA Subtractive Hybridization." In Methods in Molecular Biology. Humana Press, 2007. http://dx.doi.org/10.1007/978-1-59745-030-0_4.

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Boukerche, Habib, Zao-zhong Su, Dong-chul Kang, and Paul B. Fisher. "Cloning Differentially Expressed Genes Using Rapid Subtraction Hybridization (RaSH)." In Cancer Genomics and Proteomics. Humana Press, 2007. http://dx.doi.org/10.1007/978-1-59745-335-6_2.

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Galbraith, Elizabeth A., Dionysios A. Antonopoulos, and Bryan A. White. "Application of Suppressive Subtractive Hybridization to Uncover the Metagenomic Diversity of Environmental Samples." In Environmental Genomics. Humana Press, 2008. http://dx.doi.org/10.1007/978-1-59745-548-0_16.

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Desai, Sejal, Jason Hill, Stephanie Trelogan, Luda Diatchenko, and Paul D. Siebert. "Identification of differentially expressed genes by suppression subtractive hybridization." In Functional Genomics. Oxford University PressOxford, 2000. http://dx.doi.org/10.1093/oso/9780199637751.003.0005.

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Abstract SSH features several improvements over other cDNA subtraction methods that have been described in the literature (1-5). SSH eliminates any intermediate steps for physical separation of single-stranded (ss) and double-stranded (ds) cDNAs, requires only one round of subtractive hybridization, and can achieve greater than a 1000-fold enrichment for differentially expressed cDNAs (6-8). To overcome the problem of differences in mRNA abundance, SSH incorporates a hybridization step that normalizes (equalizes) sequence abundance by standard hybridization kinetics during the course of subtra

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"Subtractive Hybridization." In Encyclopedia of Genetics, Genomics, Proteomics and Informatics. Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6754-9_16320.

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"Subtractive Suppression Hybridization (SSH)." In Encyclopedia of Genetics, Genomics, Proteomics and Informatics. Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6754-9_16321.

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"Subtractive Cloning (driver excess hybridization)." In Encyclopedia of Genetics, Genomics, Proteomics and Informatics. Springer Netherlands, 2008. http://dx.doi.org/10.1007/978-1-4020-6754-9_16319.

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Hubank, M., and D. G. Schatz. "Representational difference analysis of cDNA." In Functional Genomics. Oxford University PressOxford, 2000. http://dx.doi.org/10.1093/oso/9780199637751.003.0004.

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Abstract Accurate analysis of gene expression has become achievable in recent years thanks to the development of a variety of sophisticated techniques (1). In this chapter we describe the polymerase chain reaction (PCR)-based subtractive hybridization technique of cDNA representational difference analysis (cDNA RDA). cDNA RDA can be used to identify genes whose expression differs between two or more populations, and unlike gene array approaches. requires only basic laboratory equipment. cDNA RDA is a flexible, relatively inexpensive, and highly effective technique in which target cDNA fragment

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Bashkirova, Elena V., Michael W. Rey, and Randy M. Berka. "Combination of Suppression Subtractive Hybridization and Microarray Technologies to Enumerate Biomass-Induced Genes in the Cellulolytic Fungus Trichoderma reesei." In Genes and Genomics. Elsevier, 2005. http://dx.doi.org/10.1016/s1874-5334(05)80014-0.

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Reports on the topic "Genomic subtraction hybridization"

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Porat, Ron, Gregory T. McCollum, Amnon Lers, and Charles L. Guy. Identification and characterization of genes involved in the acquisition of chilling tolerance in citrus fruit. United States Department of Agriculture, 2007. http://dx.doi.org/10.32747/2007.7587727.bard.

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Citrus, like many other tropical and subtropical fruit are sensitive to chilling temperatures. However, application of a pre-storage temperature conditioning (CD) treatment at 16°C for 7 d or of a hot water brushing (HWB) treatment at 60°C for 20 sec remarkably enhances chilling tolerance and reduces the development of chilling injuries (CI) upon storage at 5°C. In the current research, we proposed to identify and characterize grapefruit genes that are induced by CD, and may contribute to the acquisition of fruit chilling tolerance, by two different molecular approaches: cDNA array analysis an

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Sessa, Guido, and Gregory Martin. A functional genomics approach to dissect resistance of tomato to bacterial spot disease. United States Department of Agriculture, 2004. http://dx.doi.org/10.32747/2004.7695876.bard.

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The research problem. Bacterial spot disease in tomato is of great economic importance worldwide and it is particularly severe in warm and moist areas affecting yield and quality of tomato fruits. Causal agent of spot disease is the Gram-negative bacterium Xanthomonas campestris pv. vesicatoria (Xcv), which can be a contaminant on tomato seeds, or survive in plant debris and in association with certain weeds. Despite the economic significance of spot disease, plant protection against Xcvby cultural practices and chemical control have so far proven unsuccessful. In addition, breeding for resist

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Xu, Jin-Rong, and Amir Sharon. Comparative studies of fungal pathogeneses in two hemibiotrophs: Magnaporthe grisea and Colletotrichum gloeosporioides. United States Department of Agriculture, 2008. http://dx.doi.org/10.32747/2008.7695585.bard.

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Plant pathogenic fungi have various life styles and different plant infection strategies. Hemibiotrophs like Magnaporthe grisea and Colletotrichum species develop specialized structures during plant infection. The goal of this study was to identify, characterize, and compare genes required for plant infection in M. grisea and C. gloeosporioides. Specific objectives are to: 1) further characterize genes identified in the preliminary studies of C. gloeosporioides and M. grisea;2) identify and characterize additional fungal genes tagged by GFP; and 3) identify in planta growth and appressorium-sp

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