The regulation of <scp>DNA</scp> supercoiling across evolution

Duprey, Alexandre; Groisman, Eduardo A.

doi:10.1002/pro.4171

Cited by 25 publications

(12 citation statements)

References 153 publications

(274 reference statements)

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“…SSBs induce the relaxation of DNA supercoils, leading to genome instability. 19 However, SSBs are efficiently repaired and inadequate to mediate the cytotoxic response. 20 As a SSB inducing agent, PtL is less toxic than CDDP, which was consistent with the results from the CCK-8 assay and cell cycle analysis.…”

Section: Resultsmentioning

confidence: 99%

A monofunctional Pt(ii) complex combats triple negative breast cancer by triggering lysosome-dependent cell death

Shen,

Peng,

Yang

et al. 2024

Dalton Trans.

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Section: Resultsmentioning

confidence: 99%

A monofunctional Pt(ii) complex combats triple negative breast cancer by triggering lysosome-dependent cell death

Shen,

Peng,

Yang

et al. 2024

Dalton Trans.

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“…DNA reverse gyrase and a high concentration of K + in microbial cells are important factors for maintaining the thermal stability of DNA molecules ( Duprey and Groisman, 2021 ). DNA molecules are easily subjected to double-strand breaks at high temperatures, so cells need some genes for DNA double-strand break repair, including dnaQ , holC , priA and ruvA ( Lenhart et al, 2012 ).…”

Section: Discussionmentioning

confidence: 99%

Growth and genome-based insights of Fe(III) reduction of the high-temperature and NaCl-tolerant Shewanella xiamenensis from Changqing oilfield of China

et al. 2022

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IntroductionA facultative anaerobe bacterium Shewanella xiamenensis CQ-Y1 was isolated from the wastewater of Changqing oilfield in Shaanxi Province of China. Shewanella is the important dissimilatory metal-reducing bacteria. It exhibited a well potential application in biodegradation and bioremediation.MethodsGenome sequencing, assembling and functional annotation were conducted to explore the genome information of CQ-Y1. The effect of temperatures and NaCl concentrations on the CQ-Y1 growth and Fe(III) reduction were investigated by UV visible spectrophotometry, SEM and XRD.ResultsGenomic analysis revealed its complete genome was a circular chromosome of 4,710,887 bp with a GC content of 46.50% and 4,110 CDSs genes, 86 tRNAs and 26 rRNAs. It contains genes encoding for Na+/H+ antiporter, K+/Cl− transporter, heat shock protein associated with NaCl and high-temperature resistance. The presence of genes related to flavin, Cytochrome c, siderophore, and other related proteins supported Fe(III) reduction. In addition, CQ-Y1 could survive at 10% NaCl (w/v) and 45°C, and temperature showed more pronounced effects than NaCl concentration on the bacterial growth. The maximum Fe(III) reduction ratio of CQ-Y1 reached 70.1% at 30°C without NaCl, and the reduction reaction remained active at 40°C with 3% NaCl (w/v). NaCl concentration was more effective than temperature on microbial Fe(III) reduction. And the reduction products under high temperature and high NaCl conditions were characterized as Fe3(PO4)2, FeCl2 and Fe(OH)2.DiscussionAccordingly, a Fe(III) reduction mechanism of CQ-Y1 mediated by Cytochrome c and flavin was hypothesised. These findings could provide information for a better understanding of the origin and evolution of genomic and metabolic diversity of S. xiamenensis.

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“…The type IIB Topo VI present in archaeal species is capable of relaxing both positive and negative supercoils, in addition to possessing decatenase activity [ 29 , 111 ]. The histone variants [ 112 ] and nucleoid-associated proteins (NAP) present can also constrain and modulate DNA supercoiling for regulation of DNA topology in Archaea [ 113 , 114 ] similar to NAPs in Bacteria [ 113 , 115 , 116 ], with mechanisms that may include direct stimulation of topoisomerase activities [ 117 , 118 , 119 , 120 ]. In the hyperthermophilic archaeon S. solfataricus , it was reported that homeostatic control of DNA supercoiling is mainly mediated by the fine-tuning of TopR1, one of the two reverse gyrases [ 121 ].…”

Section: Physiological Functions Of Type Ia Topoisomerasesmentioning

confidence: 99%

Variation of Structure and Cellular Functions of Type IA Topoisomerases across the Tree of Life

Tan,

Tse-Dinh

2024

Cells

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Topoisomerases regulate the topological state of cellular genomes to prevent impediments to vital cellular processes, including replication and transcription from suboptimal supercoiling of double-stranded DNA, and to untangle topological barriers generated as replication or recombination intermediates. The subfamily of type IA topoisomerases are the only topoisomerases that can alter the interlinking of both DNA and RNA. In this article, we provide a review of the mechanisms by which four highly conserved N-terminal protein domains fold into a toroidal structure, enabling cleavage and religation of a single strand of DNA or RNA. We also explore how these conserved domains can be combined with numerous non-conserved protein sequences located in the C-terminal domains to form a diverse range of type IA topoisomerases in Archaea, Bacteria, and Eukarya. There is at least one type IA topoisomerase present in nearly every free-living organism. The variation in C-terminal domain sequences and interacting partners such as helicases enable type IA topoisomerases to conduct important cellular functions that require the passage of nucleic acids through the break of a single-strand DNA or RNA that is held by the conserved N-terminal toroidal domains. In addition, this review will exam a range of human genetic disorders that have been linked to the malfunction of type IA topoisomerase.

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The regulation of DNA supercoiling across evolution

Cited by 25 publications

References 153 publications

A monofunctional Pt(ii) complex combats triple negative breast cancer by triggering lysosome-dependent cell death

A monofunctional Pt(ii) complex combats triple negative breast cancer by triggering lysosome-dependent cell death

Growth and genome-based insights of Fe(III) reduction of the high-temperature and NaCl-tolerant Shewanella xiamenensis from Changqing oilfield of China

Variation of Structure and Cellular Functions of Type IA Topoisomerases across the Tree of Life

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