Yeast Genome Maintenance by the Multifunctional PIF1 DNA Helicase Family

scientific article published on 20 February 2020

Yeast Genome Maintenance by the Multifunctional PIF1 DNA Helicase Family is …
instance of (P31):
review articleQ7318358
scholarly articleQ13442814

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P356DOI10.3390/GENES11020224
P932PMC publication ID7073672
P698PubMed publication ID32093266

P2093author name stringKristina H Schmidt
Julius Muellner
P2860cites workThe characterization of a mammalian DNA structure-specific endonucleaseQ24336672
Components of the secondary pathway stimulate the primary pathway of eukaryotic Okazaki fragment processingQ24611034
An alternative pathway for Okazaki fragment processing: resolution of fold-back flaps by Pif1 helicaseQ24621929
DNA damage signalling prevents deleterious telomere addition at DNA breaksQ24646336
Integrative analysis of the mitochondrial proteome in yeastQ24793149
A yeast gene product, Fob1 protein, required for both replication fork blocking and recombinational hotspot activitiesQ27929498
Sae2, Exo1 and Sgs1 collaborate in DNA double-strand break processingQ27929897
Yeast Mph1 helicase dissociates Rad51-made D-loops: implications for crossover control in mitotic recombination.Q27929966
The yeast Pif1p helicase removes telomerase from telomeric DNA.Q27930167
Ubc9- and mms21-mediated sumoylation counteracts recombinogenic events at damaged replication forksQ27930441
Telomerase-null survivor screening identifies novel telomere recombination regulators.Q27930545
Rad53-Mediated Regulation of Rrm3 and Pif1 DNA Helicases Contributes to Prevention of Aberrant Fork Transitions under Replication StressQ27930928
Molecular anatomy and regulation of a stable replisome at a paused eukaryotic DNA replication fork.Q27931822
The Saccharomyces Pif1p DNA helicase and the highly related Rrm3p have opposite effects on replication fork progression in ribosomal DNA.Q27932217
Pif1 family helicases suppress genome instability at G-quadruplex motifsQ27932667
Migrating bubble during break-induced replication drives conservative DNA synthesisQ27932674
The saccharomyces PIF1 DNA helicase inhibits telomere elongation and de novo telomere formationQ27933419
A phosphatase complex that dephosphorylates gammaH2AX regulates DNA damage checkpoint recoveryQ27933727
The S. cerevisiae Rrm3p DNA helicase moves with the replication fork and affects replication of all yeast chromosomesQ27934054
Multiple regulators of Ty1 transposition in Saccharomyces cerevisiae have conserved roles in genome maintenanceQ27935789
Sua5p a single-stranded telomeric DNA-binding protein facilitates telomere replicationQ27936111
The genetic interactome of prohibitins: coordinated control of cardiolipin and phosphatidylethanolamine by conserved regulators in mitochondriaQ27936543
Yeast two-hybrid analysis of the origin recognition complex of Saccharomyces cerevisiae: interaction between subunits and identification of binding proteinsQ27936544
Def1p is involved in telomere maintenance in budding yeastQ27937231
Differential involvement of the related DNA helicases Pif1p and Rrm3p in mtDNA point mutagenesis and stabilityQ27937429
Association of the yeast DNA helicase Pif1p with mitochondrial membranes and mitochondrial DNA.Q27937683
A dynamic interface between vacuoles and mitochondria in yeastQ27938276
A SUMO-like domain protein, Esc2, is required for genome integrity and sister chromatid cohesion in Saccharomyces cerevisiae.Q27938418
Reconstituted Okazaki fragment processing indicates two pathways of primer removalQ27938925
Saccharomyces Rrm3p, a 5' to 3' DNA helicase that promotes replication fork progression through telomeric and subtelomeric DNA.Q27938991
RMI1/NCE4, a suppressor of genome instability, encodes a member of the RecQ helicase/Topo III complexQ27939442
Dna2p helicase/nuclease is a tracking protein, like FEN1, for flap cleavage during Okazaki fragment maturationQ27939444
Pif1p helicase, a catalytic inhibitor of telomerase in yeastQ27940134
The Tof1p-Csm3p protein complex counteracts the Rrm3p helicase to control replication termination of Saccharomyces cerevisiaeQ27940201
Identification of Saccharomyces cerevisiae Genes Whose Deletion Causes Synthetic Effects in Cells with Reduced Levels of the Nuclear Pif1 DNA HelicaseQ36383222
Translesion Polymerases Drive Microhomology-Mediated Break-Induced Replication Leading to Complex Chromosomal RearrangementsQ36395769
Protein-RNA networks revealed through covalent RNA marksQ36450070
Yeast Est2p affects telomere length by influencing association of Rap1p with telomeric chromatinQ36498028
Mitochondrial retrograde signalingQ36505532
Physical and functional interaction between yeast Pif1 helicase and Rim1 single-stranded DNA binding proteinQ36559279
Roles of Pif1-like helicases in the maintenance of genomic stability.Q36578934
Yeast Helicase Pif1 Unwinds RNA:DNA Hybrids with Higher Processivity than DNA:DNA Duplexes.Q36674709
Mrc1 is required for sister chromatid cohesion to aid in recombination repair of spontaneous damageQ36701199
Global analysis of SUMO chain function reveals multiple roles in chromatin regulationQ36732737
Proteomic and Genomic Analyses of the Rvb1 and Rvb2 Interaction Network upon Deletion of R2TP Complex ComponentsQ36745171
Translocation of Saccharomyces cerevisiae Pif1 helicase monomers on single-stranded DNA.Q36783587
Pif1 is a force-regulated helicaseQ36914672
Flexibility of eukaryotic Okazaki fragment maturation through regulated strand displacement synthesisQ36990200
Quantitative Analysis of Dynamic Protein Interactions during Transcription Reveals a Role for Casein Kinase II in Polymerase-associated Factor (PAF) Complex Phosphorylation and Regulation of Histone H2B MonoubiquitylationQ37034347
Local chromatin structure at the ribosomal DNA causes replication fork pausing and genome instability in the absence of the S. cerevisiae DNA helicase Rrm3pQ37092166
On helicases and other motor proteinsQ37105913
Break-induced replication: what is it and what is it for?Q37138963
The yeast Pif1 helicase prevents genomic instability caused by G-quadruplex-forming CEB1 sequences in vivoQ37168915
Rrm3 protects the Saccharomyces cerevisiae genome from instability at nascent sites of retrotranspositionQ37260580
Requirement of Rrm3 helicase for repair of spontaneous DNA lesions in cells lacking Srs2 or Sgs1 helicaseQ37275472
G-quadruplex and G-rich sequence stimulate Pif1p-catalyzed downstream duplex DNA unwinding through reducing waiting time at ss/dsDNA junction.Q37294862
pif mutation blocks recombination between mitochondrial rho+ and rho- genomes having tandemly arrayed repeat units in Saccharomyces cerevisiaeQ37347751
Telomerase is essential to alleviate pif1-induced replication stress at telomeresQ37425005
Genetic and biochemical analyses of Pfh1 DNA helicase function in fission yeastQ37483099
Pif1 helicase and Polδ promote recombination-coupled DNA synthesis via bubble migration.Q37558760
Hrq1, a homolog of the human RecQ4 helicase, acts catalytically and structurally to promote genome integrityQ37600384
Mitotic checkpoint function in the formation of gross chromosomal rearrangements in Saccharomyces cerevisiaeQ37619395
Diminished S-phase cyclin-dependent kinase function elicits vital Rad53-dependent checkpoint responses in Saccharomyces cerevisiaeQ37622853
A 3'-5' exonuclease activity embedded in the helicase core domain of Candida albicans Pif1 helicaseQ37652203
Periodic DNA patrolling underlies diverse functions of Pif1 on R-loops and G-rich DNA.Q37723592
To peep into Pif1 helicase: multifaceted all the way from genome stability to repair-associated DNA synthesisQ38185572
Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstaclesQ38254699
Control of translocations between highly diverged genes by Sgs1, the Saccharomyces cerevisiae homolog of the Bloom's syndrome proteinQ38406137
The intra-S phase checkpoint protein Tof1 collaborates with the helicase Rrm3 and the F-box protein Dia2 to maintain genome stability in Saccharomyces cerevisiaeQ34509237
Evidence suggesting that Pif1 helicase functions in DNA replication with the Dna2 helicase/nuclease and DNA polymerase deltaQ34520066
The amino terminus of the Saccharomyces cerevisiae DNA helicase Rrm3p modulates protein function altering replication and checkpoint activityQ34569656
The Rad1-Rad10 complex promotes the production of gross chromosomal rearrangements from spontaneous DNA damage in Saccharomyces cerevisiaeQ34572779
RAD50 and RAD51 define two pathways that collaborate to maintain telomeres in the absence of telomeraseQ34606774
The Pif1 family helicase Pfh1 facilitates telomere replication and has an RPA-dependent role during telomere lengtheningQ34614708
Sgs1 truncations induce genome rearrangements but suppress detrimental effects of BLM overexpression in Saccharomyces cerevisiaeQ34726553
Non-hexameric DNA helicases and translocases: mechanisms and regulationQ34770065
A comprehensive synthetic genetic interaction network governing yeast histone acetylation and deacetylationQ34803778
The Pif1 family in prokaryotes: what are our helicases doing in your bacteria?Q35041581
The absence of Top3 reveals an interaction between the Sgs1 and Pif1 DNA helicases in Saccharomyces cerevisiaeQ35083010
A parallel quadruplex DNA is bound tightly but unfolded slowly by pif1 helicaseQ35173001
Ultrafine anaphase bridges, broken DNA and illegitimate recombination induced by a replication fork barrierQ35174775
G-quadruplexes significantly stimulate Pif1 helicase-catalyzed duplex DNA unwindingQ35199422
Replisome function during replicative stress is modulated by histone h3 lysine 56 acetylation through Ctf4.Q35342649
Break-induced replication requires DNA damage-induced phosphorylation of Pif1 and leads to telomere lengthening.Q35347521
The essential Schizosaccharomyces pombe Pfh1 DNA helicase promotes fork movement past G-quadruplex motifs to prevent DNA damageQ35486616
Suppression of spontaneous genome rearrangements in yeast DNA helicase mutantsQ35722229
Tight coevolution of proliferating cell nuclear antigen (PCNA)-partner interaction networks in fungi leads to interspecies network incompatibilityQ35787288
DNA replication through hard-to-replicate sites, including both highly transcribed RNA Pol II and Pol III genes, requires the S. pombe Pfh1 helicase.Q35860068
Characterization of a highly conserved histone related protein, Ydl156w, and its functional associations using quantitative proteomic analysesQ35878757
The Replisome-Coupled E3 Ubiquitin Ligase Rtt101Mms22 Counteracts Mrc1 Function to Tolerate Genotoxic StressQ35916165
Mrc1 is a replication fork component whose phosphorylation in response to DNA replication stress activates Rad53.Q35966662
Integrated multi-omics analyses reveal the pleiotropic nature of the control of gene expression by Puf3pQ36192515
A Novel Rrm3 Function in Restricting DNA Replication via an Orc5-Binding Domain Is Genetically Separable from Rrm3 Function as an ATPase/Helicase in Facilitating Fork ProgressionQ36214221
A new role for Rrm3 in repair of replication-born DNA breakage by sister chromatid recombinationQ36364209
Systematic genetic analysis with ordered arrays of yeast deletion mutantsQ28131618
Okazaki fragment maturation in yeast. II. Cooperation between the polymerase and 3'-5'-exonuclease activities of Pol delta in the creation of a ligatable nickQ28214427
Break-induced replication and recombinational telomere elongation in yeastQ28244552
Alternative translation initiation augments the human mitochondrial proteomeQ28513778
Pfh1 Is an Accessory Replicative Helicase that Interacts with the Replisome to Facilitate Fork Progression and Preserve Genome IntegrityQ28553990
Wss1 metalloprotease partners with Cdc48/Doa1 in processing genotoxic SUMO conjugatesQ28563890
Enzymes and reactions at the eukaryotic DNA replication forkQ28610363
Saccharomyces cerevisiae Rrm3p DNA helicase promotes genome integrity by preventing replication fork stalling: viability of rrm3 cells requires the intra-S-phase checkpoint and fork restart activitiesQ28776095
RPA prevents G-rich structure formation at lagging-strand telomeres to allow maintenance of chromosome endsQ29147430
Global analysis of protein phosphorylation in yeastQ29615057
DNA helicase Srs2 disrupts the Rad51 presynaptic filamentQ29618305
A DNA integrity network in the yeast Saccharomyces cerevisiaeQ29618912
Structure and mechanism of helicases and nucleic acid translocasesQ29620151
Tension directly stabilizes reconstituted kinetochore-microtubule attachments.Q30500849
RPA governs endonuclease switching during processing of Okazaki fragments in eukaryotesQ30704734
On the roles of Saccharomyces cerevisiae Dna2p and Flap endonuclease 1 in Okazaki fragment processingQ31038690
DNA repair pathway selection caused by defects in TEL1, SAE2, and de novo telomere addition generates specific chromosomal rearrangement signatures.Q31155502
Control of Rad52 recombination activity by double-strand break-induced SUMO modificationQ33259026
The cotranslational function of ribosome-associated Hsp70 in eukaryotic protein homeostasisQ33285637
Sensitivity of yeast strains with long G-tails to levels of telomere-bound telomeraseQ33288733
Mph1p promotes gross chromosomal rearrangement through partial inhibition of homologous recombinationQ33347993
Post-replication repair suppresses duplication-mediated genome instabilityQ33576739
PIF1 family DNA helicases suppress R-loop mediated genome instability at tRNA genes.Q33628938
G-Quadruplex DNA Sequences Are Evolutionarily Conserved and Associated with Distinct Genomic Features in Saccharomyces cerevisiaeQ33646754
Yeast Sub1 and human PC4 are G-quadruplex binding proteins that suppress genome instability at co-transcriptionally formed G4 DNAQ33741063
Selective ploidy ablation, a high-throughput plasmid transfer protocol, identifies new genes affecting topoisomerase I-induced DNA damage.Q33776558
Quantitative fitness analysis shows that NMD proteins and many other protein complexes suppress or enhance distinct telomere cap defects.Q33872233
Repair of chromosome ends after telomere loss in SaccharomycesQ33948830
A gene with specific and global effects on recombination of sequences from tandemly repeated genes in Saccharomyces cerevisiaeQ33961850
The Pif1p subfamily of helicases: region-specific DNA helicases?Q34134473
A genomewide screen for suppressors of Alu-mediated rearrangements reveals a role for PIF1Q34162595
Mitochondrial dysfunction due to oxidative mitochondrial DNA damage is reduced through cooperative actions of diverse proteinsQ34282032
Cell cycle-regulated oscillator coordinates core histone gene transcription through histone acetylationQ34314464
Regulation of fragile sites expression in budding yeast by MEC1, RRM3 and hydroxyureaQ34440200
Suppression of gross chromosomal rearrangements by yKu70-yKu80 heterodimer through DNA damage checkpointsQ34478480
Pif1- and Exo1-dependent nucleases coordinate checkpoint activation following telomere uncapping.Q34488378
Mms1 binds to G-rich regions in Saccharomyces cerevisiae and influences replication and genome stabilityQ38768936
G-quadruplex-induced instability during leading-strand replicationQ38967736
De novo telomere formation is suppressed by the Mec1-dependent inhibition of Cdc13 accumulation at DNA breaksQ39247578
The yeast and human FACT chromatin-reorganizing complexes solve R-loop-mediated transcription-replication conflictsQ39422413
Gene function prediction from congruent synthetic lethal interactions in yeastQ40510088
The interaction network of the chaperonin CCTQ40987014
Intermediates of recombination during mating type switching in Saccharomyces cerevisiaeQ41203841
Impairment of replication fork progression mediates RNA polII transcription-associated recombinationQ41512551
A hybrid G-quadruplex structure formed between RNA and DNA explains the extraordinary stability of the mitochondrial R-loopQ41517167
Yeast Hrq1 shares structural and functional homology with the disease-linked human RecQ4 helicase.Q41693967
DNA replication through G-quadruplex motifs is promoted by the Saccharomyces cerevisiae Pif1 DNA helicaseQ41769196
The DNA helicase Pfh1 promotes fork merging at replication termination sites to ensure genome stabilityQ41779826
Purification of nuclear poly(A)-binding protein Nab2 reveals association with the yeast transcriptome and a messenger ribonucleoprotein core structureQ41810780
The conserved Mec1/Rad53 nuclear checkpoint pathway regulates mitochondrial DNA copy number in Saccharomyces cerevisiaeQ41835998
Highly transcribed RNA polymerase II genes are impediments to replication fork progression in Saccharomyces cerevisiaeQ41843323
Comprehensive and quantitative mapping of RNA-protein interactions across a transcribed eukaryotic genomeQ41900685
Essential Roles of the Smc5/6 Complex in Replication through Natural Pausing Sites and Endogenous DNA Damage ToleranceQ42016964
Human Pif1 helicase unwinds synthetic DNA structures resembling stalled DNA replication forksQ42129978
Pif1-family helicases cooperatively suppress widespread replication-fork arrest at tRNA genesQ42323366
G-rich telomeric and ribosomal DNA sequences from the fission yeast genome form stable G-quadruplex DNA structures in vitro and are unwound by the Pfh1 DNA helicaseQ42324173
Oxidative DNA damage causes mitochondrial genomic instability in Saccharomyces cerevisiaeQ42839708
DNA Binding Induces Dimerization of Saccharomyces cerevisiae Pif1Q42925190
Escape of Sgs1 from Rad9 inhibition reduces the requirement for Sae2 and functional MRX in DNA end resection.Q43192636
Histone H3 lysine 56 acetylation by Rtt109 is crucial for chromosome positioningQ43243209
The Schizosaccharomyces pombe Pfh1p DNA helicase is essential for the maintenance of nuclear and mitochondrial DNA.Q43251036
DNA helicase gene interaction network defined using synthetic lethality analyzed by microarrayQ43446083
ATR homolog Mec1 promotes fork progression, thus averting breaks in replication slow zones.Q44079733
Saccharomyces cerevisiae RRM3, a 5' to 3' DNA helicase, physically interacts with proliferating cell nuclear antigenQ44142880
Genetic separation of Sae2 nuclease activity from Mre11 nuclease functions in budding yeastQ44205166
Mrc1 is required for normal progression of replication forks throughout chromatin in S. cerevisiae.Q46025989
Multiple pathways cooperate in the suppression of genome instability in Saccharomyces cerevisiaeQ46062549
Loss of mitochondrial DNA under genotoxic stress conditions in the absence of the yeast DNA helicase Pif1p occurs independently of the DNA helicase Rrm3p.Q46092453
Dna2 helicase/nuclease causes replicative fork stalling and double-strand breaks in the ribosomal DNA of Saccharomyces cerevisiaeQ46123466
The Saccharomyces cerevisiae helicase Rrm3p facilitates replication past nonhistone protein-DNA complexesQ47303220
Replication Fork Reversal: Players and Guardians.Q47315185
Genome-Wide Mapping of Decay Factor-mRNA Interactions in Yeast Identifies Nutrient-Responsive Transcripts as Targets of the Deadenylase Ccr4.Q47381434
Cell cycle-dependent spatial segregation of telomerase from sites of DNA damage.Q48241810
Cdc73 suppresses genome instability by mediating telomere homeostasisQ48270215
Role of the Pif1-PCNA Complex in Pol δ-Dependent Strand Displacement DNA Synthesis and Break-Induced ReplicationQ49994646
Missed cleavage opportunities by FEN1 lead to Okazaki fragment maturation via the long-flap pathway.Q50113616
Evidence that DNA polymerase δ contributes to initiating leading strand DNA replication in Saccharomyces cerevisiaeQ50351110
The Chromatin Remodeler ISW1 Is a Quality Control Factor that Surveys Nuclear mRNP Biogenesis.Q50860853
Molecular mechanism of G-quadruplex unwinding helicase: sequential and repetitive unfolding of G-quadruplex by Pif1 helicase.Q52655666
The role of Pif1p, a DNA helicase in Saccharomyces cerevisiae, in maintaining mitochondrial DNA.Q54559833
SUMO E3 ligase Mms21 prevents spontaneous DNA damage induced genome rearrangements.Q55068820
DNA-unwinding activity of Saccharomyces cerevisiae Pif1 is modulated by thermal stability, folding conformation, and loop lengths of G-quadruplex DNAQ57284419
Proteomic profiling and functional characterization of post-translational modifications of the fission yeast RNA exosomeQ57469420
Pif1 helicase unfolding of G-quadruplex DNA is highly dependent on sequence and reaction conditionsQ57752886
The helicase Pif1 functions in the template switching pathway of DNA damage bypassQ57752921
The Hrq1 and Pif1 DNA helicases synergistically modulate telomerase activityQ57752983
Multiple Pif1 helicases are required to sequentially disrupt G-quadruplex structure and unwind duplex DNAQ57754429
Pif1 is essential for efficient replisome progression through lagging strand G-quadruplex DNA secondary structuresQ58611626
A role for Mog1 in H2Bub1 and H3K4me3 regulation affecting RNAPII transcription and mRNA exportQ62019752
A Postincision-Deficient TFIIH Causes Replication Fork Breakage and Uncovers Alternative Rad51- or Pol32-Mediated Restart MechanismsQ63383451
The Helicase PIF1 Facilitates Resection over Sequences Prone to Forming G4 StructuresQ63383598
Pif1-Family Helicases Support Fork Convergence during DNA Replication Termination in EukaryotesQ64103307
The RecQ helicase Sgs1 drives ATP-dependent disruption of Rad51 filamentsQ64114343
Structural and functional analysis of the nucleotide and DNA binding activities of the human PIF1 helicaseQ64226601
Dynamic Processing of Displacement Loops during Recombinational DNA RepairQ64387930
The finger subdomain of yeast telomerase cooperates with Pif1p to limit telomere elongationQ80027637
Suppression of gross chromosomal rearrangements by the multiple functions of the Mre11-Rad50-Xrs2 complex in Saccharomyces cerevisiaeQ81615827
The amino-terminal TPR domain of Dia2 tethers SCF(Dia2) to the replisome progression complexQ84901617
ATP Binding to Rad5 Initiates Replication Fork Reversal by Inducing the Unwinding of the Leading Arm and the Formation of the Holliday JunctionQ88615753
A Genome-Wide Screen Reveals a Role for the HIR Histone Chaperone Complex in Preventing Mislocalization of Budding Yeast CENP-AQ90252034
Two Pif1 Family DNA Helicases Cooperate in Centromere Replication and Segregation in Saccharomyces cerevisiaeQ93159980
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue2
P577publication date2020-02-20
P1433published inGenesQ5532699
P1476titleYeast Genome Maintenance by the Multifunctional PIF1 DNA Helicase Family
P478volume11