Novel DNA mismatch-repair activity involving YB-1 in human mitochondria.

Abstract:

:Maintenance of the mitochondrial genome (mtDNA) is essential for proper cellular function. The accumulation of damage and mutations in the mtDNA leads to diseases, cancer, and aging. Mammalian mitochondria have proficient base excision repair, but the existence of other DNA repair pathways is still unclear. Deficiencies in DNA mismatch repair (MMR), which corrects base mismatches and small loops, are associated with DNA microsatellite instability, accumulation of mutations, and cancer. MMR proteins have been identified in yeast and coral mitochondria; however, MMR proteins and function have not yet been detected in human mitochondria. Here we show that human mitochondria have a robust mismatch-repair activity, which is distinct from nuclear MMR. Key nuclear MMR factors were not detected in mitochondria, and similar mismatch-binding activity was observed in mitochondrial extracts from cells lacking MSH2, suggesting distinctive pathways for nuclear and mitochondrial MMR. We identified the repair factor YB-1 as a key candidate for a mitochondrial mismatch-binding protein. This protein localizes to mitochondria in human cells, and contributes significantly to the mismatch-binding and mismatch-repair activity detected in HeLa mitochondrial extracts, which are significantly decreased when the intracellular levels of YB-1 are diminished. Moreover, YB-1 depletion in cells increases mitochondrial DNA mutagenesis. Our results show that human mitochondria contain a functional MMR repair pathway in which YB-1 participates, likely in the mismatch-binding and recognition steps.

journal_name

DNA Repair (Amst)

journal_title

DNA repair

authors

de Souza-Pinto NC,Mason PA,Hashiguchi K,Weissman L,Tian J,Guay D,Lebel M,Stevnsner TV,Rasmussen LJ,Bohr VA

doi

10.1016/j.dnarep.2009.01.021

subject

Has Abstract

pub_date

2009-06-04 00:00:00

pages

704-19

issue

6

eissn

1568-7864

issn

1568-7856

pii

S1568-7864(09)00043-3

journal_volume

8

pub_type

杂志文章
  • The Rad52-Rad59 complex interacts with Rad51 and replication protein A.

    abstract::The RAD52 gene is essential for homology-dependent repair of double-strand breaks in Saccharomyces cerevisiae. Rad52 forms complexes with Rad51, replication protein A (RPA) or Rad59 and its presence is essential for the formation of Rad51-Rad52-Rad59 and RPA-Rad52-Rad59 complexes. The N-terminal region of Rad52, which...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/s1568-7864(03)00121-6

    authors: Davis AP,Symington LS

    更新日期:2003-10-07 00:00:00

  • The mechanism of human tyrosyl-DNA phosphodiesterase 1 in the cleavage of AP site and its synthetic analogs.

    abstract::The mechanism of hydrolysis of the apurinic/apyrimidinic (AP) site and its synthetic analogs by using tyrosyl-DNA phosphodiesterase 1 (Tdp1) was analyzed. Tdp1 catalyzes the cleavage of AP site and the synthetic analog of the AP site, 3-hydroxy-2(hydroxymethyl)-tetrahydrofuran (THF), in DNA by hydrolysis of the phosph...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2013.09.008

    authors: Lebedeva NA,Rechkunova NI,Ishchenko AA,Saparbaev M,Lavrik OI

    更新日期:2013-12-01 00:00:00

  • Protein ADP-ribosylation and the cellular response to DNA strand breaks.

    abstract::DNA strand breaks arise continuously in cells and can lead to chromosome rearrangements and genome instability or cell death. The commonest DNA breaks are DNA single-strand breaks, which arise at a frequency of tens-of-thousands per cell each day and which can block the progression of RNA/DNA polymerases and disrupt g...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2014.03.021

    authors: Caldecott KW

    更新日期:2014-07-01 00:00:00

  • Promoter methylation of O(6)-methylguanine-DNA-methyltransferase in lung cancer is regulated by p53.

    abstract::Methylation of the O(6)-methylguanine-DNA-methyltransferase (MGMT) promoter is associated with G:C to A:T transitions in the p53 gene in various human cancers, including lung cancer. In tumors with p53 mutation, MGMT promoter methylation is more common in advanced tumors than in early tumors. However, in tumors with w...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2008.04.016

    authors: Lai JC,Cheng YW,Goan YG,Chang JT,Wu TC,Chen CY,Lee H

    更新日期:2008-08-02 00:00:00

  • Identification of a unique insertion in plant organellar DNA polymerases responsible for 5'-dRP lyase and strand-displacement activities: Implications for Base Excision Repair.

    abstract::Plant mitochondrial and chloroplast genomes encode essential proteins for oxidative phosphorylation and photosynthesis. For proper cellular function, plant organelles must ensure genome integrity. Although plant organelles repair damaged DNA using the multi-enzyme Base Excision Repair (BER) pathway, the details of thi...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2018.02.010

    authors: Trasviña-Arenas CH,Baruch-Torres N,Cordoba-Andrade FJ,Ayala-García VM,García-Medel PL,Díaz-Quezada C,Peralta-Castro A,Ordaz-Ortiz JJ,Brieba LG

    更新日期:2018-05-01 00:00:00

  • xni-deficient Escherichia coli are proficient for recombination and multiple pathways of repair.

    abstract::Single-strand-dependent DNA exonucleases play important roles in DNA repair and recombination in all organisms. In Escherichia coli the redundant functions provided by the RecJ, ExoI, ExoVII and ExoX exonucleases are required for mismatch repair, UV resistance and homologous recombination. We have examined whether the...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/s1568-7864(03)00135-6

    authors: Lombardo MJ,Aponyi I,Ray MP,Sandigursky M,Franklin WA,Rosenberg SM

    更新日期:2003-11-21 00:00:00

  • Deciphering phenotypic variance in different models of DNA-PKcs deficiency.

    abstract::DNA-PKcs deficiency has been studied in numerous animal models and cell culture systems. In previous studies of kinase inactivating mutations in cell culture systems, ablation of DNA-PK's catalytic activity results in a cell phenotype that is virtually indistinguishable from that ascribed to complete loss of the enzym...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2018.10.004

    authors: Neal JA,Meek K

    更新日期:2019-01-01 00:00:00

  • Frameshifts and deletions during in vitro translesion synthesis past Pt-DNA adducts by DNA polymerases beta and eta.

    abstract::DNA polymerases beta (pol beta ) and eta (pol eta ) are the only two eukaryotic polymerases known to efficiently bypass cisplatin and oxaliplatin adducts in vitro. Frameshift errors are an important aspect of mutagenesis. We have compared the types of frameshifts that occur during translesion synthesis past cisplatin ...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/s1568-7864(02)00150-7

    authors: Bassett E,Vaisman A,Tropea KA,McCall CM,Masutani C,Hanaoka F,Chaney SG

    更新日期:2002-12-05 00:00:00

  • Characterization in vitro and in vivo of the DNA helicase encoded by Deinococcus radiodurans locus DR1572.

    abstract::Deinococcus radiodurans survives extremely high doses of ionizing and ultraviolet radiation and treatment with various DNA-damaging chemicals. As an effort to identify and characterize proteins that function in DNA repair in this organism, we have studied the protein encoded by locus DR1572. This gene is predicted to ...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2008.12.011

    authors: Cao Z,Julin DA

    更新日期:2009-05-01 00:00:00

  • Transcriptional responses to DNA damage.

    abstract::In response to the threat of DNA damage, cells exhibit a dramatic and multi-factorial response spanning from transcriptional changes to protein modifications, collectively known as the DNA damage response (DDR). Here, we review the literature surrounding the transcriptional response to DNA damage. We review difference...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2019.05.002

    authors: Silva E,Ideker T

    更新日期:2019-07-01 00:00:00

  • Analysis of mutational signatures in C. elegans: Implications for cancer genome analysis.

    abstract::Genome integrity is constantly challenged by exogenous and endogenous insults, and mutations are associated with inherited disease and cancer. Here we summarize recent studies that utilized C. elegans whole genome next generation sequencing to experimentally determine mutational signatures associated with mutagen expo...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2020.102957

    authors: Meier B,Volkova NV,Gerstung M,Gartner A

    更新日期:2020-11-01 00:00:00

  • Detection of the small oligonucleotide products of nucleotide excision repair in UVB-irradiated human skin.

    abstract::UVB radiation results in the formation of potentially mutagenic photoproducts in the DNA of epidermal skin cells. In vitro approaches have demonstrated that the nucleotide excision repair (NER) machinery removes UV photoproducts from DNA in the form of small (∼30-nt-long), excised, damage-containing DNA oligonucleotid...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2019.102766

    authors: Choi JH,Han S,Kemp MG

    更新日期:2020-02-01 00:00:00

  • DNA decay and limited Rad53 activation after liquid holding of UV-treated nucleotide excision repair deficient S. cerevisiae cells.

    abstract::The DNA damage checkpoint is a surveillance mechanism activated by DNA lesions and devoted to the maintenance of genome stability. It is considered as a signal transduction cascade, involving a sensing step, the activation of a set of protein kinases and the transmission and amplification of the damage signal through ...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2004.06.019

    authors: Giannattasio M,Lazzaro F,Siede W,Nunes E,Plevani P,Muzi-Falconi M

    更新日期:2004-12-02 00:00:00

  • The oxidized pyrimidine ribonucleotide, 5-hydroxy-CTP, is hydrolyzed efficiently by the Escherichia coli recombinant Orf135 protein.

    abstract::The Escherichia coli orf135 gene encodes a 15.4kDa protein with homology to the MutT family of nucleotide hydrolases. The orf135 gene was cloned within a glutathione S-transferase (GST) fusion protein expression vector, which was used to overproduce the GST-Orf135 fusion protein in E. coli. The fusion protein thus obt...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/s1568-7864(02)00057-5

    authors: Fujikawa K,Kasai H

    更新日期:2002-07-17 00:00:00

  • Repair of radiation induced DNA double strand breaks by backup NHEJ is enhanced in G2.

    abstract::In higher eukaryotes DNA double strand breaks (DSBs) are repaired by homologous recombination (HRR) or non-homologous end joining (NHEJ). In addition to the DNA-PK dependent pathway of NHEJ (D-NHEJ), cells employ a backup pathway (B-NHEJ) utilizing Ligase III and PARP-1. The cell cycle dependence and coordination of t...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2007.11.008

    authors: Wu W,Wang M,Wu W,Singh SK,Mussfeldt T,Iliakis G

    更新日期:2008-02-01 00:00:00

  • PCNA-dependent accumulation of CDKN1A into nuclear foci after ionizing irradiation.

    abstract::The cyclin-dependent kinase inhibitor CDKN1A/p21 confers cell-cycle arrest in response to DNA damage and inhibits DNA replication through its direct interaction with the proliferating cell nuclear antigen (PCNA) and cyclin/cyclin-dependent kinase complexes. Previously, we reported that in response to densely ionizing ...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2012.02.006

    authors: Wiese C,Rudolph JH,Jakob B,Fink D,Tobias F,Blattner C,Taucher-Scholz G

    更新日期:2012-05-01 00:00:00

  • A proposal: Evolution of PCNA's role as a marker of newly replicated DNA.

    abstract::Processivity clamps that hold DNA polymerases to DNA for processivity were the first proteins known to encircle the DNA duplex. At the time, polymerase processivity was thought to be the only function of ring shaped processivity clamps. But studies from many laboratories have identified numerous proteins that bind and...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2015.01.015

    authors: Georgescu R,Langston L,O'Donnell M

    更新日期:2015-05-01 00:00:00

  • MGMT inhibitors--The Trinity College-Paterson Institute experience, a chemist's perception.

    abstract::The DNA repair protein, O(6)-alkylguanine-DNA alkyltransferase (MGMT) can confer resistance to the cancer chemotherapeutic effects of the class of DNA damaging drugs generally referred to as the O(6)-alkylating agents. Inactivation of MGMT is thus a practical approach to improving the efficacy of such agents. An accou...

    journal_title:DNA repair

    pub_type: 历史文章,杂志文章

    doi:10.1016/j.dnarep.2007.03.015

    authors: McMurry TB

    更新日期:2007-08-01 00:00:00

  • Telomeres and chromosome instability.

    abstract::Genomic instability has been proposed to play an important role in cancer by accelerating the accumulation of genetic changes responsible for cancer cell evolution. One mechanism for chromosome instability is through the loss of telomeres, which are DNA-protein complexes that protect the ends of chromosomes and preven...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2006.05.030

    authors: Murnane JP

    更新日期:2006-09-08 00:00:00

  • Differences in DNA double strand breaks repair in male germ cell types: lessons learned from a differential expression of Mdc1 and 53BP1.

    abstract::In male germ cells the repair of DNA double strand breaks (DSBs) differs from that described for somatic cell lines. Irradiation induced immunofluorescent foci (IRIF's) signifying a double strand DNA breaks, were followed in spermatogenic cells up to 16 h after the insult. Foci were characterised for Mdc1, 53BP1 and R...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2007.02.011

    authors: Ahmed EA,van der Vaart A,Barten A,Kal HB,Chen J,Lou Z,Minter-Dykhouse K,Bartkova J,Bartek J,de Boer P,de Rooij DG

    更新日期:2007-09-01 00:00:00

  • Interaction of apurinic/apyrimidinic endonuclease 2 (Apn2) with Myh1 DNA glycosylase in fission yeast.

    abstract::Oxidative DNA damage is repaired primarily by the base excision repair (BER) pathway in a process initiated by removal of base lesions or mismatched bases by DNA glycosylases. MutY homolog (MYH, MUTYH, or Myh1) is a DNA glycosylase which excises adenine paired with the oxidative lesion 8-oxo-7,8-dihydroguanine (8-oxoG...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2014.01.001

    authors: Jin J,Hwang BJ,Chang PW,Toth EA,Lu AL

    更新日期:2014-03-01 00:00:00

  • The splicing component ISY1 regulates APE1 in base excision repair.

    abstract::The integrity of cellular genome is continuously challenged by endogenous and exogenous DNA damaging agents. If DNA damage is not removed in a timely fashion the replisome may stall at DNA lesions, causing fork collapse and genetic instability. Base excision DNA repair (BER) is the most important pathway for the remov...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2019.102769

    authors: Jaiswal AS,Williamson EA,Srinivasan G,Kong K,Lomelino CL,McKenna R,Walter C,Sung P,Narayan S,Hromas R

    更新日期:2020-02-01 00:00:00

  • The roles of Rad16 and Rad26 in repairing repressed and actively transcribed genes in yeast.

    abstract::Nucleotide excision repair (NER) is a conserved DNA repair mechanism capable of removing a variety of helix-distorting DNA lesions. Rad26, a member of the Swi2/Snf2 superfamily of proteins, has been shown to be involved in a specialized NER process called transcription coupled NER. Rad16, another member of the same pr...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2007.05.005

    authors: Li S,Ding B,LeJeune D,Ruggiero C,Chen X,Smerdon MJ

    更新日期:2007-11-01 00:00:00

  • RecBC enzyme overproduction affects UV and gamma radiation survival of Deinococcus radiodurans.

    abstract::Deinococcus radiodurans recovering from the effect of acute dose of gamma (gamma) radiation shows a biphasic mechanism of DNA double strands breaks repair that involves an efficient homologous recombination. However, it shows higher sensitivity to near-UV (NUV) than Escherichia coli and lacks RecBC, a DNA strand break...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2007.07.007

    authors: Khairnar NP,Kamble VA,Misra HS

    更新日期:2008-01-01 00:00:00

  • UBE2V2 (MMS2) is not required for effective immunoglobulin gene conversion or DNA damage tolerance in DT40.

    abstract::The RAD6/RAD18 heterodimer promotes translesion synthesis via the monoubiquitination of the DNA sliding clamp, PCNA. In S. cerevisiae, a second complex, UBC13/MMS2/RAD5, can extend this single ubiquitin with a non-canonical lysine 63-linked chain. This polyubiquitination step is required for an error-free mode of bypa...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2004.12.002

    authors: Simpson LJ,Sale JE

    更新日期:2005-04-04 00:00:00

  • Unraveling secrets of telomeres: one molecule at a time.

    abstract::Telomeres play important roles in maintaining the stability of linear chromosomes. Telomere maintenance involves dynamic actions of multiple proteins interacting with long repetitive sequences and complex dynamic DNA structures, such as G-quadruplexes, T-loops and t-circles. Given the heterogeneity and complexity of t...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2014.01.012

    authors: Lin J,Kaur P,Countryman P,Opresko PL,Wang H

    更新日期:2014-08-01 00:00:00

  • A PIAS-ed view of DNA double strand break repair focuses on SUMO.

    abstract::Through the action of multiple sensors, mediators, and effectors, the DNA damage response (DDR) orchestrates the repair of DNA damage to ensure maintenance of genomic integrity. Recently, in addition to phosphorylation, other post-translational modifications such as ubiquitylation and SUMOylation have emerged as impor...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2010.02.003

    authors: Zlatanou A,Stewart GS

    更新日期:2010-05-04 00:00:00

  • The enigmatic role of Mfd in replication-transcription conflicts in bacteria.

    abstract::Conflicts between replication and transcription can have life-threatening consequences. RNA polymerase (RNAP) is the major impediment to replication progression, and its efficient removal from DNA should mitigate the consequences of collisions with replication. Cells have various proteins that can resolve conflicts by...

    journal_title:DNA repair

    pub_type: 杂志文章,评审

    doi:10.1016/j.dnarep.2019.102659

    authors: Ragheb M,Merrikh H

    更新日期:2019-09-01 00:00:00

  • Mechanism of cell killing after ionizing radiation by a dominant negative DNA polymerase beta.

    abstract::Several types of DNA lesion are induced after ionizing irradiation (IR) of which double strand breaks (DSBs) are expected to be the most lethal, although single strand breaks (SSBs) and DNA base damages are quantitatively in the majority. Proteins of the base excision repair (BER) pathway repair these numerous lesions...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2008.11.008

    authors: Neijenhuis S,Verwijs-Janssen M,Kasten-Pisula U,Rumping G,Borgmann K,Dikomey E,Begg AC,Vens C

    更新日期:2009-03-01 00:00:00

  • Sensitivity of human cells expressing low-fidelity or weak-catalytic-activity variants of DNA polymerase ζ to genotoxic stresses.

    abstract::Translesion DNA polymerases (TLS pols) play critical roles in defense mechanisms against genotoxic agents. The defects or mutations of TLS pols are predicted to result in hypersensitivity of cells to environmental mutagens. In this study, human cells expressing DNA polymerase ζ (Pol ζ) variants with low fidelity or we...

    journal_title:DNA repair

    pub_type: 杂志文章

    doi:10.1016/j.dnarep.2016.06.002

    authors: Suzuki T,Grúz P,Honma M,Adachi N,Nohmi T

    更新日期:2016-09-01 00:00:00