Academic literature on the topic 'Coli Genome'
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Journal articles on the topic "Coli Genome"
KRÖGER, MANFRED. "E. coli genome." Nature 339, no. 6223 (June 1989): 330. http://dx.doi.org/10.1038/339330b0.
Full textDixit, Purushottam D., Tin Yau Pang, F. William Studier, and Sergei Maslov. "Recombinant transfer in the basic genome ofEscherichia coli." Proceedings of the National Academy of Sciences 112, no. 29 (July 7, 2015): 9070–75. http://dx.doi.org/10.1073/pnas.1510839112.
Full textCochrane, Ryan R., Stephanie L. Brumwell, Arina Shrestha, Daniel J. Giguere, Samir Hamadache, Gregory B. Gloor, David R. Edgell, and Bogumil J. Karas. "Cloning of Thalassiosira pseudonana’s Mitochondrial Genome in Saccharomyces cerevisiae and Escherichia coli." Biology 9, no. 11 (October 26, 2020): 358. http://dx.doi.org/10.3390/biology9110358.
Full textZhang, Hui, Yao Xiong, Wenhai Xiao, and Yi Wu. "Investigation of Genome Biology by Synthetic Genome Engineering." Bioengineering 10, no. 2 (February 20, 2023): 271. http://dx.doi.org/10.3390/bioengineering10020271.
Full textDobrindt, Ulrich, Franziska Agerer, Kai Michaelis, Andreas Janka, Carmen Buchrieser, Martin Samuelson, Catharina Svanborg, Gerhard Gottschalk, Helge Karch, and Jörg Hacker. "Analysis of Genome Plasticity in Pathogenic and Commensal Escherichia coli Isolates by Use of DNA Arrays." Journal of Bacteriology 185, no. 6 (March 15, 2003): 1831–40. http://dx.doi.org/10.1128/jb.185.6.1831-1840.2003.
Full textMori, Hideo, Hiroshi Mizoguchi, and Tatsuro Fujio. "Escherichia coli minimum genome factory." Biotechnology and Applied Biochemistry 46, no. 3 (March 1, 2007): 157. http://dx.doi.org/10.1042/ba20060107.
Full textHayashi, Tetsuya. "Genome plasticity of Escherichia coli; insights from genome analysis." Environmental Mutagen Research 27, no. 2 (2005): 117–18. http://dx.doi.org/10.3123/jems.27.117.
Full textCui, Tailin, Naoki Moro‐oka, Katsufumi Ohsumi, Kenichi Kodama, Taku Ohshima, Naotake Ogasawara, Hirotada Mori, Barry Wanner, Hironori Niki, and Takashi Horiuchi. "Escherichia coli with a linear genome." EMBO reports 8, no. 2 (January 12, 2007): 181–87. http://dx.doi.org/10.1038/sj.embor.7400880.
Full textKolisnychenko, V. "Engineering a Reduced Escherichia coli Genome." Genome Research 12, no. 4 (April 1, 2002): 640–47. http://dx.doi.org/10.1101/gr.217202.
Full textKOOB, MICHAEL D., ANITA J. SHAW, and DOUGLAS C. CAMERON. "Minimizing the Genome of Escherichia coli." Annals of the New York Academy of Sciences 745, no. 1 (December 17, 2006): 1–3. http://dx.doi.org/10.1111/j.1749-6632.1994.tb44359.x.
Full textDissertations / Theses on the topic "Coli Genome"
Patel, Muneeza S. "Algorithms for E. coli genome engineering." Thesis, Massachusetts Institute of Technology, 2016. http://hdl.handle.net/1721.1/106461.
Full textThis electronic version was submitted by the student author. The certified thesis is available in the Institute Archives and Special Collections.
"June 2016." Page 90 blank. Cataloged from student-submitted PDF version of thesis.
Includes bibliographical references (pages 70-72).
Author summary: Lamba red recombineering is one of methods of performing genome engineering. However, this method of genome editing is not very specific and efficient and is highly dependent on the genomic regions that are targeted (integration sites). In this project we explored ways of identifying what makes a site well suited for lambda red genome engineering. We wanted to explore whether we can eventually predict the "goodness" of an integration site using an algorithm. Our initial approach to the problem was to write an algorithm based on some characteristics that we felt would be key to determining the goodness of a site. Choosing to initially focus on specificity of the integrations, we used experimental approaches to evaluate whether our algorithm had any predictive powers for specificity. Upon failing, we revised our plan to generate a dataset of ~150 sites and their integration data (whether integration was successful, specific and efficient at that site). We used this dataset to explore correlations between the specificity data and characteristics we thought might affect the specificity of sites. The most promising characteristics appeared to be the uniqueness of the genomic site (as determined by BLAST) and the existence of Repetitive Extragenic Palindrome (REP) sites at the site of integration. Section I of this thesis sets up the problem, section II talks about the initial approach we took to the problem and section III discusses our modified approach -- which formed the bulk of this thesis project. Section I and III are the most relevant to understand the project, while Section II gives more content to the project in addition to detailed insight to what approaches did not work.
by Muneeza S. Patel.
M. Eng. in Computer Science & Molecular Biology
Neelakanta, Girish. "Genome variations in commensal and pathogenic E.coli." [S.l. : s.n.], 2005. http://deposit.ddb.de/cgi-bin/dokserv?idn=974330329.
Full textSchlegel, Susan. "From protein production to genome evolution in Escherichia coli." Doctoral thesis, Stockholms universitet, Institutionen för biokemi och biofysik, 2013. http://urn.kb.se/resolve?urn=urn:nbn:se:su:diva-94993.
Full textAt the time of the doctoral defense, the following paper was unpublished and had a status as follows: Paper 3: Manuscript.
Wlodarski, Michal. "Dynamics of E. coli genome and cytosol under antibiotics." Thesis, University of Cambridge, 2018. https://www.repository.cam.ac.uk/handle/1810/275205.
Full textRomero, Alvarez David. "Genome wide analyses of the Escherichia coli primary and secondary transcriptomes." Thesis, University of Leeds, 2014. http://etheses.whiterose.ac.uk/6917/.
Full textCoss, Dennis. "Insertion of genes and operons into the Escherichia coli genome through targeted recombination." Morgantown, W. Va. : [West Virginia University Libraries], 2005. https://eidr.wvu.edu/etd/documentdata.eTD?documentid=3804.
Full textTitle from document title page. Document formatted into pages; contains v, 125 p. : ill. (some col.). Includes abstract. Includes bibliographical references (p. 71-87).
Mosberg, Joshua Adam Weintrob. "Studying and Improving Lambda Red Recombination for Genome Engineering in Escherichia coli." Thesis, Harvard University, 2013. http://dissertations.umi.com/gsas.harvard:10777.
Full textEl, Sayyed Hafez. "Mapping Topoisomerase IV Binding and Activity Sites on the E. coli genome." Thesis, Université Paris-Saclay (ComUE), 2016. http://www.theses.fr/2016SACLS362/document.
Full textCatenation links between sister chromatids are formed progressively during DNA replication and are involved in the establishment of sister chromatid cohesion. Topo IV is a bacterial type II topoisomerase involved in the removal of catenation links both behind replication forks and after replication during the final separation of sister chromosomes. We have investigated the global DNA-binding and catalytic activity of Topo IV in E. coli using genomic and molecular biology approaches. ChIP-seq revealed that Topo IV interaction with the E. coli chromosome is controlled by DNA replication. During replication, Topo IV has access to most of the genome but only selects a few hundred specific sites for its activity. Local chromatin and gene expression context influence site selection. Moreover strong DNA-binding and catalytic activities are found at the chromosome dimer resolution site, dif, located opposite the origin of replication. We reveal a physical and functional interaction between Topo IV and the XerCD recombinases acting at the dif site. This interaction is modulated by MatP, a protein involved in the organization of the Ter macrodomain. These results show that Topo IV, XerCD/dif and MatP are part of a network dedicated to the final step of chromosome management during the cell cycle
Johnson, Matthew David. "Understanding the regulation of acid resistance in E. coli using whole genome techniques." Thesis, University of Birmingham, 2011. http://etheses.bham.ac.uk//id/eprint/3006/.
Full textSchmidt, Dorothea. "Molekulare Analyse des probiotischen Stamms Escherichia coli Nissle 1917." Doctoral thesis, Saechsische Landesbibliothek- Staats- und Universitaetsbibliothek Dresden, 2009. http://nbn-resolving.de/urn:nbn:de:bsz:14-ds-1243973355362-88295.
Full textThe probiotic E. coli Nissle 1917 is a fecal isolate which is traditionally used for treatment of various gastrointestinal disorders. In clinical trials where EcN was used as therapeutic alternative for remission maintenance of ulcerative colitis compared to standard medication, promising results led to an increased interest in probiotics. Today, EcN is one of the best studied probiotics. Therefore, several mechanisms of action could be enlightened. Structural components and strain-specific products are responsible for its probiotic effects. But conclusive concepts about genes, gene products and molecular mechanisms that really contribute to the probiotic character of EcN have not been offered so far. In order to create new possibilities to elucidate the probiotic traits of EcN the genome is analysed by taking this as a basis for comparison to other E. coli genomes and identification of intestinal in vivo regulated genes using a promoter-trap-library. The sequenced EcN genome is annotated and compared to 13 other so far annotated E. coli genomes. Concerning these analyses EcN encodes 121 strain-specific genes. The genome structure including the genomic islands and prophages is highly homolog to the uropathogenic E. coli CFT073. EcN encodes most of the virulence and fitness factors that are present in E. coli CFT073. Therefore, the close relationship of these two strains is confirmed at nucleotide level. Furthermore, it is shown that in artificial systems like cell culture assays and gnotobiotic mice EcN reveals a pathogenic potential although EcN is able to decrease colonization efficiency of pathogenic bacteria. The alternative sigma factor RpoS that is responsible for global regulation and activity of several genes seems to play an important role during colonization of EcN in the intestine and its immunostimulatory effects on intestinal epithelial cells. Investigation of EcN-deletion mutants lacking genomic islands and prophages lead to the conclusion that some genomic islands may play a role for specific probiotic traits. This is the first time where a promoter-trap-library was used in conventional and gnotobiotic mice for collection of intestinal in vivo active promoters. Constructing and establishing a promoter-reporter gene assay with the bioluminescent luxCDABE operon made the investigation of selected promoters in vitro possible as well as establishing a bioluminescence assay using an In Vivo Imaging System (IVIS) for investigation of promoter activity in living mice. In this research project was shown that EcN is not a completely harmless probiotic. The genome structure and regulatory mechanisms of gene expression are the strain’s molecular traits that lead to probiotic activity and immunostimulatory effects. Therefore, the molecular analyses presented here, together with the complete genome sequence, are a basis for further investigations of mechanisms that are responsible for the probiotic effects of EcN
Books on the topic "Coli Genome"
Richardson, Deborah Y. Plant genome: Breeding for cold tolerance in plants : January 1987 - April 1992. Beltsville, Md: National Agricultural Library, 1992.
Find full textVaillancourt, Peter E. E. coli gene expression protocols. Totowa, N.J: Humana, 2011.
Find full textDe-Coll', Pier Tancredi. Pier Tancredi De-Coll'. Pistoia: Gli ori, 2018.
Find full textDe-Coll', Pier Tancredi. Pier Tancredi De-Coll': Lessico quotidiano. Pistoia: Gli Ori, 2019.
Find full textHeterologous gene expression in E. coli: Methods and protocols. New York, NY: Humana Press, 2011.
Find full textMagnusson, Lisa. Global regulation of gene expression in Escherichia coli: The role of ppGpp, DksA, and the levels of RNA polymerase. Göteborg: Göteborgs universitet, 2007.
Find full textMagnusson, Lisa. Global regulation of gene expression in Escherichia coli: The role of ppGpp, DksA, and the levels of RNA polymerase. Göteborg: Göteborgs universitet, 2007.
Find full textLife on Ice: A History of New Uses for Cold Blood. Chicago: University of Chicago Press, 2017.
Find full textP, Smith C., Rench Jonny, and Brosseau Pat, eds. The programme. La Jolla, CA: Wildstorm, 2008.
Find full textCold Spring Harbor Meeting on Cancer Cells (3rd 1985). Abstracts of papers presented at the third Cold Spring Harbor Meeting on Cancer Cells: DNA tumor viruses : control of gene expression and replication, September 4-September 8, 1985. Cold Spring Harbor, N.Y: Cold Spring Harbor Laboratory, 1985.
Find full textBook chapters on the topic "Coli Genome"
Milkman, Roger. "Gene Transfer in Escherichia coli." In Organization of the Prokaryotic Genome, 291–309. Washington, DC, USA: ASM Press, 2014. http://dx.doi.org/10.1128/9781555818180.ch16.
Full textBergthorsson, Ulfar, and Howard Ochman. "Evolution of the E. coli Genome." In Bacterial Genomes, 177–86. Boston, MA: Springer US, 1998. http://dx.doi.org/10.1007/978-1-4615-6369-3_17.
Full textJensen, Sheila Ingemann, and Alex Toftgaard Nielsen. "Multiplex Genome Editing in Escherichia coli." In Methods in Molecular Biology, 119–29. New York, NY: Springer New York, 2018. http://dx.doi.org/10.1007/978-1-4939-7295-1_8.
Full textWeinstock, George M. "Resources for the Escherichia coli Genome Project." In Bacterial Genomes, 489–97. Boston, MA: Springer US, 1998. http://dx.doi.org/10.1007/978-1-4615-6369-3_38.
Full textFehér, Tamás, Ildikó Karcagi, Zsuzsa Győrfy, Kinga Umenhoffer, Bálint Csörgő, and György Pósfai. "Scarless Engineering of the Escherichia coli Genome." In Microbial Gene Essentiality: Protocols and Bioinformatics, 251–59. Totowa, NJ: Humana Press, 2008. http://dx.doi.org/10.1007/978-1-59745-321-9_16.
Full textMellmann, Alexander, Martina Bielaszewska, and Helge Karch. "Genotypic Changes in Enterohemorrhagic Escherichia coli During Human Infection." In Genome Plasticity and Infectious Diseases, 16–26. Washington, DC, USA: ASM Press, 2014. http://dx.doi.org/10.1128/9781555817213.ch2.
Full textHall, Barry G. "Transposable elements as activators of cryptic genes in E. coli." In Transposable Elements and Genome Evolution, 181–87. Dordrecht: Springer Netherlands, 2000. http://dx.doi.org/10.1007/978-94-011-4156-7_20.
Full textLabedan, Bernard, and Monica Riley. "Genetic Inventory: Escherichia coli as a Window on Ancestral Proteins." In Organization of the Prokaryotic Genome, 311–29. Washington, DC, USA: ASM Press, 2014. http://dx.doi.org/10.1128/9781555818180.ch17.
Full textNouwens, Amanda S., Femia G. Hopwood, Mathew Traini, Keith L. Williams, and Bradley J. Walsh. "Proteome Approach to the Identification of Cellular Escherichia coli Proteins." In Organization of the Prokaryotic Genome, 331–46. Washington, DC, USA: ASM Press, 2014. http://dx.doi.org/10.1128/9781555818180.ch18.
Full textAnazawa, Hideharu. "The Concept of the Escherichia coli Minimum Genome Factory." In Microbial Production, 25–32. Tokyo: Springer Japan, 2014. http://dx.doi.org/10.1007/978-4-431-54607-8_3.
Full textConference papers on the topic "Coli Genome"
Huang, Yi. "Codon Effect on the Entire Genome Based upon Genome-Wide Recoded Escherichia coli." In 2021 IEEE 9th International Conference on Bioinformatics and Computational Biology (ICBCB). IEEE, 2021. http://dx.doi.org/10.1109/icbcb52223.2021.9459235.
Full textKurmi, Annushree, Debashis Das, Piyali Sen, Suvendra Kumar Ray, and Siddhartha Sankar Satapathy. "Gene Essentiality Mediated Base Substitution in Escherichia coli genome: Machine Learning Analysis." In 2022 International Interdisciplinary Conference on Mathematics, Engineering and Science (MESIICON). IEEE, 2022. http://dx.doi.org/10.1109/mesiicon55227.2022.10093501.
Full text"Impact of negative feedbacks on de novo pyrimidines biosynthesis in E. coli." In Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2022) :. Institute of Cytology and Genetics, the Siberian Branch of the Russian Academy of Sciences, 2022. http://dx.doi.org/10.18699/sbb-2022-115.
Full textMeizhen Ji, Jun Lu, Ying Zhang, Changjiang Ding, Dandan Qin, and Haiyan Bai. "Operon prediction based on quadratic discriminant analysis in Escherichia coli genome." In 2010 2nd International Conference on Information Science and Engineering (ICISE). IEEE, 2010. http://dx.doi.org/10.1109/icise.2010.5689023.
Full textJia, Mengwen, and Yong Zhan. "Relationship of ORF length and mRNA degradation in Escherichia coli genome." In NUMERICAL ANALYSIS AND APPLIED MATHEMATICS ICNAAM 2012: International Conference of Numerical Analysis and Applied Mathematics. AIP, 2012. http://dx.doi.org/10.1063/1.4756461.
Full textVilkhovoy, M., N. Horvath, and J. D. Varner. "Toward genome scale modeling of Escherichia coli cell-free protein synthesis." In IET/SynbiCITE Engineering Biology Conference. Institution of Engineering and Technology, 2016. http://dx.doi.org/10.1049/cp.2016.1253.
Full text"Impact of terahertz irradiation on the antimicrobial resistance of Escherichia coli JM 103." In Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2022) :. Institute of Cytology and Genetics, the Siberian Branch of the Russian Academy of Sciences, 2022. http://dx.doi.org/10.18699/sbb-2022-316.
Full textWijeratne, Shalini. "A Comparative Analysis of Nanoluc Luciferase and Alkaline Phosphatase as Reporter Proteins for Phage-based Pathogen Detection." In 2022 AOCS Annual Meeting & Expo. American Oil Chemists' Society (AOCS), 2022. http://dx.doi.org/10.21748/iibu6123.
Full text"On the question of activity of oxidative branch of pentose phosphate shunt in pgl mutant of Escherichia coli." In Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2022) :. Institute of Cytology and Genetics, the Siberian Branch of the Russian Academy of Sciences, 2022. http://dx.doi.org/10.18699/sbb-2022-311.
Full textTeramoto, Jun, Kayoko Yamada, Naoki Kobayashi, Ayako Kori, Shige H. Yoshimura, Kunio Takeyasu, and Akira Ishihama. "Anaerobiosis-induced novel nucleoid protein of Escherichia coli: Architectural role in genome DNA compaction." In 2009 International Symposium on Micro-NanoMechatronics and Human Science (MHS). IEEE, 2009. http://dx.doi.org/10.1109/mhs.2009.5351819.
Full textReports on the topic "Coli Genome"
Shpigel, Nahum Y., Ynte Schukken, and Ilan Rosenshine. Identification of genes involved in virulence of Escherichia coli mastitis by signature tagged mutagenesis. United States Department of Agriculture, January 2014. http://dx.doi.org/10.32747/2014.7699853.bard.
Full textMcCarthy, Noel, Eileen Taylor, Martin Maiden, Alison Cody, Melissa Jansen van Rensburg, Margaret Varga, Sophie Hedges, et al. Enhanced molecular-based (MLST/whole genome) surveillance and source attribution of Campylobacter infections in the UK. Food Standards Agency, July 2021. http://dx.doi.org/10.46756/sci.fsa.ksj135.
Full textWillis, C., F. Jorgensen, S. A. Cawthraw, H. Aird, S. Lai, M. Chattaway, I. Lock, E. Quill, and G. Raykova. A survey of Salmonella, Escherichia coli (E. coli) and antimicrobial resistance in frozen, part-cooked, breaded or battered poultry products on retail sale in the United Kingdom. Food Standards Agency, May 2022. http://dx.doi.org/10.46756/sci.fsa.xvu389.
Full textJorgensen, Frieda, John Rodgers, Daisy Duncan, Joanna Lawes, Charles Byrne, and Craig Swift. Levels and trends of antimicrobial resistance in Campylobacter spp. from chicken in the UK. Food Standards Agency, September 2022. http://dx.doi.org/10.46756/sci.fsa.dud728.
Full textWeil, Clifford F., Anne B. Britt, and Avraham Levy. Nonhomologous DNA End-Joining in Plants: Genes and Mechanisms. United States Department of Agriculture, July 2001. http://dx.doi.org/10.32747/2001.7585194.bard.
Full textJorgensen, Frieda, Andre Charlett, Craig Swift, Anais Painset, and Nicolae Corcionivoschi. A survey of the levels of Campylobacter spp. contamination and prevalence of selected antimicrobial resistance determinants in fresh whole UK-produced chilled chickens at retail sale (non-major retailers). Food Standards Agency, June 2021. http://dx.doi.org/10.46756/sci.fsa.xls618.
Full textFridman, Eyal, and Eran Pichersky. Tomato Natural Insecticides: Elucidation of the Complex Pathway of Methylketone Biosynthesis. United States Department of Agriculture, December 2009. http://dx.doi.org/10.32747/2009.7696543.bard.
Full textGafny, Ron, A. L. N. Rao, and Edna Tanne. Etiology of the Rugose Wood Disease of Grapevine and Molecular Study of the Associated Trichoviruses. United States Department of Agriculture, September 2000. http://dx.doi.org/10.32747/2000.7575269.bard.
Full textBalfanz, Emma, Erin Sandford, Michael G. Kaiser, and Susan J. Lamont. Differential Immunological Gene Expression after Escherichia coli Infection in Chickens. Ames (Iowa): Iowa State University, January 2011. http://dx.doi.org/10.31274/ans_air-180814-668.
Full textGoodman, E. M., and B. Greenebaum. Weak Electromagnetic Field Effects on Gene Expression in E. coli. Fort Belvoir, VA: Defense Technical Information Center, March 1996. http://dx.doi.org/10.21236/ada306447.
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