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Relevant bibliographies by topics / Supercoiling Sensitive Transcription (SST)

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Academic literature on the topic 'Supercoiling Sensitive Transcription (SST)'

Author: Grafiati

Published: 6 September 2023

Last updated: 31 July 2025

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Journal articles on the topic "Supercoiling Sensitive Transcription (SST)"

1

Ahmed, Wareed, Shruti Menon, Pullela V. D. N. B. Karthik, and Valakunja Nagaraja. "Autoregulation of topoisomerase I expression by supercoiling sensitive transcription." Nucleic Acids Research 44, no. 4 (2015): 1541–52. http://dx.doi.org/10.1093/nar/gkv1088.

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2

Szafran, Marcin Jan, Martyna Gongerowska, Paweł Gutkowski, Jolanta Zakrzewska-Czerwińska, and Dagmara Jakimowicz. "The Coordinated Positive Regulation of Topoisomerase Genes Maintains Topological Homeostasis in Streptomyces coelicolor." Journal of Bacteriology 198, no. 21 (2016): 3016–28. http://dx.doi.org/10.1128/jb.00530-16.

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ABSTRACTMaintaining an optimal level of chromosomal supercoiling is critical for the progression of DNA replication and transcription. Moreover, changes in global supercoiling affect the expression of a large number of genes and play a fundamental role in adapting to stress. Topoisomerase I (TopA) and gyrase are key players in the regulation of bacterial chromosomal topology through their respective abilities to relax and compact DNA. Soil bacteria such asStreptomycesspecies, which grow as branched, multigenomic hyphae, are subject to environmental stresses that are associated with changes in

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3

Dorman, Charles J. "Co-operative roles for DNA supercoiling and nucleoid-associated proteins in the regulation of bacterial transcription." Biochemical Society Transactions 41, no. 2 (2013): 542–47. http://dx.doi.org/10.1042/bst20120222.

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DNA supercoiling and NAPs (nucleoid-associated proteins) contribute to the regulation of transcription of many bacterial genes. The horizontally acquired SPI (Salmonella pathogenicity island) genes respond positively to DNA relaxation, they are activated and repressed by the Fis (factor for inversion stimulation) and H-NS (histone-like nucleoid-structuring) NAPs respectively, and are positively controlled by the OmpR global regulatory protein. The ompR gene is autoregulated and responds positively to DNA relaxation. Binding of the Fis and OmpR proteins to their targets in DNA is differentially

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4

Bateman, E., and M. R. Paule. "Events during eucaryotic rRNA transcription initiation and elongation: conversion from the closed to the open promoter complex requires nucleotide substrates." Molecular and Cellular Biology 8, no. 5 (1988): 1940–46. http://dx.doi.org/10.1128/mcb.8.5.1940-1946.1988.

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Chemical footprinting and topological analysis were carried out on the Acanthamoeba castellanii rRNA transcription initiation factor (TIF) and RNA polymerase I complexes with DNA during transcription initiation and elongation. The results show that the binding of TIF and polymerase to the promoter does not alter the supercoiling of the DNA template and the template does not become sensitive to modification by diethylpyrocarbonate, which can identify melted DNA regions. Thus, in contrast to bacterial RNA polymerase, the eucaryotic RNA polymerase I-promoter complex is in a closed configuration p

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5

Bateman, E., and M. R. Paule. "Events during eucaryotic rRNA transcription initiation and elongation: conversion from the closed to the open promoter complex requires nucleotide substrates." Molecular and Cellular Biology 8, no. 5 (1988): 1940–46. http://dx.doi.org/10.1128/mcb.8.5.1940.

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Chemical footprinting and topological analysis were carried out on the Acanthamoeba castellanii rRNA transcription initiation factor (TIF) and RNA polymerase I complexes with DNA during transcription initiation and elongation. The results show that the binding of TIF and polymerase to the promoter does not alter the supercoiling of the DNA template and the template does not become sensitive to modification by diethylpyrocarbonate, which can identify melted DNA regions. Thus, in contrast to bacterial RNA polymerase, the eucaryotic RNA polymerase I-promoter complex is in a closed configuration p

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6

Spirito, F., and L. Bossi. "Long-distance effect of downstream transcription on activity of the supercoiling-sensitive leu-500 promoter in a topA mutant of Salmonella typhimurium." Journal of bacteriology 178, no. 24 (1996): 7129–37. http://dx.doi.org/10.1128/jb.178.24.7129-7137.1996.

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7

Free, Andrew, and Charles J. Dorman. "Escherichia coli tyrT gene transcription is sensitive to DNA supercoiling in its native chromosomal context: effect of DNA topoisomerase IV overexpression on tyrT promoter function." Molecular Microbiology 14, no. 1 (1994): 151–61. http://dx.doi.org/10.1111/j.1365-2958.1994.tb01275.x.

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8

Dorman, Charles J. "Regulation of transcription by DNA supercoiling in Mycoplasma genitalium: global control in the smallest known self-replicating genome: DNA Supercoiling in Mycoplasma genitalium." June 16, 2011. https://doi.org/10.1111/j.1365-2958.2011.07718.x.

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The mollicute Mycoplasma genitalium causes sexually transmitted disease in humans. It has recently come to widespread public attention through its involvement in pioneering synthetic biology experiments. The 580-kilo-base-pair genome of M. genitalium contains just 470 genes, few of which seem to encode conventional transcription regulators. This raises the important question of how does this simple organism control its gene expression? The finding that the transcription of an osmotically inducible gene encoding a lipoprotein is sensitive to antibiotics that inhibit the activity of DNA gyrase,

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9

Sutormin, Dmitry, Alina Galivondzhyan, Azamat Gafurov, and Konstantin Severinov. "Single-nucleotide resolution detection of Topo IV cleavage activity in the Escherichia coli genome with Topo-Seq." Frontiers in Microbiology 14 (April 6, 2023). http://dx.doi.org/10.3389/fmicb.2023.1160736.

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Topoisomerase IV (Topo IV) is the main decatenation enzyme in Escherichia coli; it removes catenation links that are formed during DNA replication. Topo IV binding and cleavage sites were previously identified in the E. coli genome with ChIP-Seq and NorfIP. Here, we used a more sensitive, single-nucleotide resolution Topo-Seq procedure to identify Topo IV cleavage sites (TCSs) genome-wide. We detected thousands of TCSs scattered in the bacterial genome. The determined cleavage motif of Topo IV contained previously known cleavage determinants (−4G/+8C, −2A/+6 T, −1 T/+5A) and additional, not ob

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10

Portman, James R., M. Zuhaib Qayyum, Katsuhiko S. Murakami, and Terence R. Strick. "On the stability of stalled RNA polymerase and its removal by RapA." Nucleic Acids Research, July 12, 2022. http://dx.doi.org/10.1093/nar/gkac558.

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Abstract Stalling of the transcription elongation complex formed by DNA, RNA polymerase (RNAP) and RNA presents a serious obstacle to concurrent processes due to the extremely high stability of the DNA-bound polymerase. RapA, known to remove RNAP from DNA in an ATP-dependent fashion, was identified over 50 years ago as an abundant binding partner of RNAP; however, its mechanism of action remains unknown. Here, we use single-molecule magnetic trapping assays to characterize RapA activity and begin to specify its mechanism of action. We first show that stalled RNAP resides on DNA for times on th

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Dissertations / Theses on the topic "Supercoiling Sensitive Transcription (SST)"

1

Jha, Rajiv Kumar. "Insights into the Regulation of Transcription Initiation of DNA Gyrase and Role of Transcription Factor Gre from Mycobacterium tuberculosis." Thesis, 2017. https://etd.iisc.ac.in/handle/2005/4681.

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Genus Mycobacterium comprises a large number of species including many pathogens such as Mycobacterium leprae, Mycobacterium abscessus and Mycobacterium tuberculosis (Mtb), the last one is the causative agent of the fatal disease tuberculosis. The unique features of the deadly organism viz, slow growing, tough cell wall, latency and resistance to various drugs demand a systematic understanding of many essential molecular processes including transcription. Studies have been undertaken to understand several aspects of transcription in mycobacteria which revealed its machinery to be conserved wit

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