Gaillard H, et al. (2025) Correction: Histone variant H2A.Z is needed for efficient transcription-coupled NER and genome integrity in UV challenged yeast cells. PLoS Genet 21(4):e1011646 PMID:40168436
Gaillard H, et al. (2024) Histone variant H2A.Z is needed for efficient transcription-coupled NER and genome integrity in UV challenged yeast cells. PLoS Genet 20(9):e1011300 PMID:39255275
Williams JD, et al. (2023) Spontaneous deamination of cytosine to uracil is biased to the non-transcribed DNA strand in yeast. DNA Repair (Amst) 126:103489 PMID:37018983
Cañas JC, et al. (2022) Detection of R-Loops by In Vivo and In Vitro Cytosine Deamination in Saccharomyces cerevisiae. Methods Mol Biol 2528:39-53 PMID:35704184
Cañas JC, et al. (2022) A role for the Saccharomyces cerevisiae Rtt109 histone acetyltransferase in R-loop homeostasis and associated genome instability. Genetics 222(1) PMID:35866610
Han SS, et al. (2022) WASp modulates RPA function on single-stranded DNA in response to replication stress and DNA damage. Nat Commun 13(1):3743 PMID:35768435
Gómez-González B and Aguilera A (2021) Origin matters: spontaneous DNA-RNA hybrids do not form in trans as a source of genome instability. Curr Genet 67(1):93-97 PMID:33095299
Gómez-González B, et al. (2021) Analysis of repair of replication-born double-strand breaks by sister chromatid recombination in yeast. Methods Enzymol 661:121-138 PMID:34776209
Gaillard H, et al. (2019) The Nup84 complex coordinates the DNA damage response to warrant genome integrity. Nucleic Acids Res 47(8):4054-4067 PMID:30715474
Klein HL, et al. (2019) Guidelines for DNA recombination and repair studies: Cellular assays of DNA repair pathways. Microb Cell 6(1):1-64 PMID:30652105
Salas-Armenteros I, et al. (2019) Depletion of the MFAP1/SPP381 Splicing Factor Causes R-Loop-Independent Genome Instability. Cell Rep 28(6):1551-1563.e7 PMID:31390568
Tumini E, et al. (2019) The Antitumor Drugs Trabectedin and Lurbinectedin Induce Transcription-Dependent Replication Stress and Genome Instability. Mol Cancer Res 17(3):773-782 PMID:30552231
Duch A, et al. (2018) Multiple signaling kinases target Mrc1 to prevent genomic instability triggered by transcription-replication conflicts. Nat Commun 9(1):379 PMID:29371596
García-Rubio M, et al. (2018) Yra1-bound RNA-DNA hybrids cause orientation-independent transcription-replication collisions and telomere instability. Genes Dev 32(13-14):965-977 PMID:29954833
García-Benítez F, et al. (2017) Physical proximity of chromatin to nuclear pores prevents harmful R loop accumulation contributing to maintain genome stability. Proc Natl Acad Sci U S A 114(41):10942-10947 PMID:28973905
Jimeno S, et al. (2017) Differential effect of the overexpression of Rad2/XPG family endonucleases on genome integrity in yeast and human cells. DNA Repair (Amst) 57:66-75 PMID:28704715
Lafuente-Barquero J, et al. (2017) The Smc5/6 complex regulates the yeast Mph1 helicase at RNA-DNA hybrid-mediated DNA damage. PLoS Genet 13(12):e1007136 PMID:29281624
Muñoz-Galván S, et al. (2017) A new role for Rrm3 in repair of replication-born DNA breakage by sister chromatid recombination. PLoS Genet 13(5):e1006781 PMID:28475600
Felipe-Abrio I, et al. (2015) RNA polymerase II contributes to preventing transcription-mediated replication fork stalls. EMBO J 34(2):236-50 PMID:25452497
Moriel-Carretero M, et al. (2015) A unified model for the molecular basis of Xeroderma pigmentosum-Cockayne Syndrome. Rare Dis 3(1):e1079362 PMID:26460500
Stuckey R, et al. (2015) Role for RNA:DNA hybrids in origin-independent replication priming in a eukaryotic system. Proc Natl Acad Sci U S A 112(18):5779-84 PMID:25902524
Gaillard H and Aguilera A (2014) Cleavage factor I links transcription termination to DNA damage response and genome integrity maintenance in Saccharomyces cerevisiae. PLoS Genet 10(3):e1004203 PMID:24603480
Herrera-Moyano E, et al. (2014) The yeast and human FACT chromatin-reorganizing complexes solve R-loop-mediated transcription-replication conflicts. Genes Dev 28(7):735-48 PMID:24636987
Herrera-Moyano E, et al. (2014) The rem mutations in the ATP-binding groove of the Rad3/XPD helicase lead to Xeroderma pigmentosum-Cockayne syndrome-like phenotypes. PLoS Genet 10(12):e1004859 PMID:25500814
Santos-Pereira JM, et al. (2014) Npl3, a new link between RNA-binding proteins and the maintenance of genome integrity. Cell Cycle 13(10):1524-9 PMID:24694687
Santos-Pereira JM, et al. (2014) A genome-wide function of THSC/TREX-2 at active genes prevents transcription-replication collisions. Nucleic Acids Res 42(19):12000-14 PMID:25294824
Gavaldá S, et al. (2013) R-loop mediated transcription-associated recombination in trf4Δ mutants reveals new links between RNA surveillance and genome integrity. PLoS One 8(6):e65541 PMID:23762389
Muñoz-Galván S, et al. (2013) Competing roles of DNA end resection and non-homologous end joining functions in the repair of replication-born double-strand breaks by sister-chromatid recombination. Nucleic Acids Res 41(3):1669-83 PMID:23254329
Santos-Pereira JM, et al. (2013) The Npl3 hnRNP prevents R-loop-mediated transcription-replication conflicts and genome instability. Genes Dev 27(22):2445-58 PMID:24240235
García-Rubio ML and Aguilera A (2012) Topological constraints impair RNA polymerase II transcription and causes instability of plasmid-borne convergent genes. Nucleic Acids Res 40(3):1050-64 PMID:21998294
Luna R, et al. (2012) New clues to understand the role of THO and other functionally related factors in mRNP biogenesis. Biochim Biophys Acta 1819(6):514-20 PMID:22207203
Muñoz-Galván S, et al. (2012) Distinct roles of Mus81, Yen1, Slx1-Slx4, and Rad1 nucleases in the repair of replication-born double-strand breaks by sister chromatid exchange. Mol Cell Biol 32(9):1592-603 PMID:22354996
Pardo B and Aguilera A (2012) Complex chromosomal rearrangements mediated by break-induced replication involve structure-selective endonucleases. PLoS Genet 8(9):e1002979 PMID:23071463
Peña A, et al. (2012) Architecture and nucleic acids recognition mechanism of the THO complex, an mRNP assembly factor. EMBO J 31(6):1605-16 PMID:22314234
Díaz de la Loza Mdel C, et al. (2011) Zim17/Tim15 links mitochondrial iron-sulfur cluster biosynthesis to nuclear genome stability. Nucleic Acids Res 39(14):6002-15 PMID:21511814
González-Aguilera C, et al. (2011) Nab2 functions in the metabolism of RNA driven by polymerases II and III. Mol Biol Cell 22(15):2729-40 PMID:21680710
Gómez-González B, et al. (2011) Genetic and molecular analysis of mitotic recombination in Saccharomyces cerevisiae. Methods Mol Biol 745:151-72 PMID:21660694
Gómez-González B, et al. (2011) Genome-wide function of THO/TREX in active genes prevents R-loop-dependent replication obstacles. EMBO J 30(15):3106-19 PMID:21701562
Jimeno S, et al. (2011) New suppressors of THO mutations identify Thp3 (Ypr045c)-Csn12 as a protein complex involved in transcription elongation. Mol Cell Biol 31(4):674-85 PMID:21149575
Moriel-Carretero M, et al. (2011) Control of the function of the transcription and repair factor TFIIH by the action of the cochaperone Ydj1. Proc Natl Acad Sci U S A 108(37):15300-5 PMID:21876155
Ruiz JF, et al. (2011) AID induces double-strand breaks at immunoglobulin switch regions and c-MYC causing chromosomal translocations in yeast THO mutants. PLoS Genet 7(2):e1002009 PMID:21383964
Tous C, et al. (2011) A novel assay identifies transcript elongation roles for the Nup84 complex and RNA processing factors. EMBO J 30(10):1953-64 PMID:21478823
Moriel-Carretero M and Aguilera A (2010) Replication fork breakage and re-start: New insights into Rad3/XPD-associated deficiencies. Cell Cycle 9(15):2958-62 PMID:20740714
Moriel-Carretero M and Aguilera A (2010) A postincision-deficient TFIIH causes replication fork breakage and uncovers alternative Rad51- or Pol32-mediated restart mechanisms. Mol Cell 37(5):690-701 PMID:20227372
Rondón AG, et al. (2010) The interface between transcription and mRNP export: from THO to THSC/TREX-2. Biochim Biophys Acta 1799(8):533-8 PMID:20601280
Conde F, et al. (2009) The Dot1 histone methyltransferase and the Rad9 checkpoint adaptor contribute to cohesin-dependent double-strand break repair by sister chromatid recombination in Saccharomyces cerevisiae. Genetics 182(2):437-46 PMID:19332880
Faza MB, et al. (2009) Sem1 is a functional component of the nuclear pore complex-associated messenger RNA export machinery. J Cell Biol 184(6):833-46 PMID:19289793
Gaillard H, et al. (2009) Genome-wide analysis of factors affecting transcription elongation and DNA repair: a new role for PAF and Ccr4-not in transcription-coupled repair. PLoS Genet 5(2):e1000364 PMID:19197357
Gómez-González B and Aguilera A (2009) R-loops do not accumulate in transcription-defective hpr1-101 mutants: implications for the functional role of THO/TREX. Nucleic Acids Res 37(13):4315-21 PMID:19451165
Gómez-González B, et al. (2009) The S-phase checkpoint is required to respond to R-loops accumulated in THO mutants. Mol Cell Biol 29(19):5203-13 PMID:19651896
Luna R, et al. (2009) Transcription at the proximity of the nuclear pore: a role for the THP1-SAC3-SUS1-CDC31 (THSC) complex. RNA Biol 6(2):145-8 PMID:19229139
Yaakov G, et al. (2009) The stress-activated protein kinase Hog1 mediates S phase delay in response to osmostress. Mol Biol Cell 20(15):3572-82 PMID:19477922
de la Loza MC, et al. (2009) Stimulation of direct-repeat recombination by RNA polymerase III transcription. DNA Repair (Amst) 8(5):620-6 PMID:19168400
Gaillard H and Aguilera A (2008) A novel class of mRNA-containing cytoplasmic granules are produced in response to UV-irradiation. Mol Biol Cell 19(11):4980-92 PMID:18768757
García-Rubio M, et al. (2008) Different physiological relevance of yeast THO/TREX subunits in gene expression and genome integrity. Mol Genet Genomics 279(2):123-32 PMID:17960421
Jimeno S, et al. (2008) A reduction in RNA polymerase II initiation rate suppresses hyper-recombination and transcription-elongation impairment of THO mutants. Mol Genet Genomics 280(4):327-36 PMID:18682986
Cortés-Ledesma F, et al. (2007) Different genetic requirements for repair of replication-born double-strand breaks by sister-chromatid recombination and break-induced replication. Nucleic Acids Res 35(19):6560-70 PMID:17905819
Gaillard H, et al. (2007) A new connection of mRNP biogenesis and export with transcription-coupled repair. Nucleic Acids Res 35(12):3893-906 PMID:17537816
Cortés-Ledesma F and Aguilera A (2006) Double-strand breaks arising by replication through a nick are repaired by cohesin-dependent sister-chromatid exchange. EMBO Rep 7(9):919-26 PMID:16888651
De Piccoli G, et al. (2006) Smc5-Smc6 mediate DNA double-strand-break repair by promoting sister-chromatid recombination. Nat Cell Biol 8(9):1032-4 PMID:16892052
Huertas P, et al. (2006) An hpr1 point mutation that impairs transcription and mRNP biogenesis without increasing recombination. Mol Cell Biol 26(20):7451-65 PMID:16908536
Jimeno S, et al. (2006) Tho1, a novel hnRNP, and Sub2 provide alternative pathways for mRNP biogenesis in yeast THO mutants. Mol Cell Biol 26(12):4387-98 PMID:16738307
Wellinger RE, et al. (2006) Replication fork progression is impaired by transcription in hyperrecombinant yeast cells lacking a functional THO complex. Mol Cell Biol 26(8):3327-34 PMID:16581804
Luna R, et al. (2005) Interdependence between transcription and mRNP processing and export, and its impact on genetic stability. Mol Cell 18(6):711-22 PMID:15949445
Prado F and Aguilera A (2005) Impairment of replication fork progression mediates RNA polII transcription-associated recombination. EMBO J 24(6):1267-76 PMID:15775982
Bourbon HM, et al. (2004) A unified nomenclature for protein subunits of mediator complexes linking transcriptional regulators to RNA polymerase II. Mol Cell 14(5):553-7 PMID:15175151
Cortés-Ledesma F, et al. (2004) A novel yeast mutation, rad52-L89F, causes a specific defect in Rad51-independent recombination that correlates with a reduced ability of Rad52-L89F to interact with Rad59. Genetics 168(1):553-7 PMID:15454565
Prado F, et al. (2004) The absence of the yeast chromatin assembly factor Asf1 increases genomic instability and sister chromatid exchange. EMBO Rep 5(5):497-502 PMID:15071494
Rondón AG, et al. (2004) Molecular evidence indicating that the yeast PAF complex is required for transcription elongation. EMBO Rep 5(1):47-53 PMID:14710186
Gallardo M, et al. (2003) Nab2p and the Thp1p-Sac3p complex functionally interact at the interface between transcription and mRNA metabolism. J Biol Chem 278(26):24225-32 PMID:12702719
García-Rubio M, et al. (2003) Recombinogenic effects of DNA-damaging agents are synergistically increased by transcription in Saccharomyces cerevisiae. New insights into transcription-associated recombination. Genetics 165(2):457-66 PMID:14573461
González-Barrera S, et al. (2003) Equal sister chromatid exchange is a major mechanism of double-strand break repair in yeast. Mol Cell 11(6):1661-71 PMID:12820977
Huertas P and Aguilera A (2003) Cotranscriptionally formed DNA:RNA hybrids mediate transcription elongation impairment and transcription-associated recombination. Mol Cell 12(3):711-21 PMID:14527416
Marín A, et al. (2003) Relationship between G+C content, ORF-length and mRNA concentration in Saccharomyces cerevisiae. Yeast 20(8):703-11 PMID:12794931
Rondón AG, et al. (2003) Molecular evidence that the eukaryotic THO/TREX complex is required for efficient transcription elongation. J Biol Chem 278(40):39037-43 PMID:12871933
González-Barrera S, et al. (2002) Transcription and double-strand breaks induce similar mitotic recombination events in Saccharomyces cerevisiae. Genetics 162(2):603-14 PMID:12399375
Jimeno S, et al. (2002) The yeast THO complex and mRNA export factors link RNA metabolism with transcription and genome instability. EMBO J 21(13):3526-35 PMID:12093753
Chávez S, et al. (2001) Hpr1 is preferentially required for transcription of either long or G+C-rich DNA sequences in Saccharomyces cerevisiae. Mol Cell Biol 21(20):7054-64 PMID:11564888
Gallardo M and Aguilera A (2001) A new hyperrecombination mutation identifies a novel yeast gene, THP1, connecting transcription elongation with mitotic recombination. Genetics 157(1):79-89 PMID:11139493
Malagón F and Aguilera A (2001) Yeast spt6-140 mutation, affecting chromatin and transcription, preferentially increases recombination in which Rad51p-mediated strand exchange is dispensable. Genetics 158(2):597-611 PMID:11404325
Chávez S, et al. (2000) A protein complex containing Tho2, Hpr1, Mft1 and a novel protein, Thp2, connects transcription elongation with mitotic recombination in Saccharomyces cerevisiae. EMBO J 19(21):5824-34 PMID:11060033
Prado F, et al. (2000) RAD52-dependent and -independent homologous recombination initiated by Flp recombinase at a single FRT site flanked by direct repeats. Mol Gen Genet 263(1):73-80 PMID:10732675
Malagón F and Aguilera A (1999) Construction and genetic analysis of S. cerevisiae deletants of six novel ORFs from chromosome II. Yeast 15(10B):955-61 PMID:10407275
Piruat JI and Aguilera A (1998) A novel yeast gene, THO2, is involved in RNA pol II transcription and provides new evidence for transcriptional elongation-associated recombination. EMBO J 17(16):4859-72 PMID:9707445
Chávez S and Aguilera A (1997) The yeast HPR1 gene has a functional role in transcriptional elongation that uncovers a novel source of genome instability. Genes Dev 11(24):3459-70 PMID:9407037
Piruat JI, et al. (1997) The yeast HRS1 gene is involved in positive and negative regulation of transcription and shows genetic characteristics similar to SIN4 and GAL11. Genetics 147(4):1585-94 PMID:9409823
Prado F, et al. (1997) Recombination between DNA repeats in yeast hpr1delta cells is linked to transcription elongation. EMBO J 16(10):2826-35 PMID:9184227
Malagón F and Aguilera A (1996) Differential intrachromosomal hyper-recombination phenotype of spt4 and spt6 mutants of S. cerevisiae. Curr Genet 30(2):101-6 PMID:8660457
Piruat JI and Aguilera A (1996) Mutations in the yeast SRB2 general transcription factor suppress hpr1-induced recombination and show defects in DNA repair. Genetics 143(4):1533-42 PMID:8844143
Santos-Rosa H, et al. (1996) The yeast HRS1 gene encodes a polyglutamine-rich nuclear protein required for spontaneous and hpr1-induced deletions between direct repeats. Genetics 142(3):705-16 PMID:8849881
Aguilera A (1995) Genetic evidence for different RAD52-dependent intrachromosomal recombination pathways in Saccharomyces cerevisiae. Curr Genet 27(4):298-305 PMID:7614550
Prado F and Aguilera A (1995) Role of reciprocal exchange, one-ended invasion crossover and single-strand annealing on inverted and direct repeat recombination in yeast: different requirements for the RAD1, RAD10, and RAD52 genes. Genetics 139(1):109-23 PMID:7705617
Santos-Rosa H and Aguilera A (1995) Isolation and genetic analysis of extragenic suppressors of the hyper-deletion phenotype of the Saccharomyces cerevisiae hpr1 delta mutation. Genetics 139(1):57-66 PMID:7705651
Santos-Rosa H and Aguilera A (1994) Increase in incidence of chromosome instability and non-conservative recombination between repeats in Saccharomyces cerevisiae hpr1 delta strains. Mol Gen Genet 245(2):224-36 PMID:7816031
Rong L, et al. (1991) The hyper-gene conversion hpr5-1 mutation of Saccharomyces cerevisiae is an allele of the SRS2/RADH gene. Genetics 127(1):75-85 PMID:1849857
Aguilera A and Klein HL (1990) HPR1, a novel yeast gene that prevents intrachromosomal excision recombination, shows carboxy-terminal homology to the Saccharomyces cerevisiae TOP1 gene. Mol Cell Biol 10(4):1439-51 PMID:2181275
Lucchini G, et al. (1990) Nucleotide sequence and characterization of temperature-sensitive pol1 mutants of Saccharomyces cerevisiae. Gene 90(1):99-104 PMID:2199334
Aguilera A and Klein HL (1989) Genetic and molecular analysis of recombination events in Saccharomyces cerevisiae occurring in the presence of the hyper-recombination mutation hpr1. Genetics 122(3):503-17 PMID:2668113
Aguilera A and Klein HL (1989) Yeast intrachromosomal recombination: long gene conversion tracts are preferentially associated with reciprocal exchange and require the RAD1 and RAD3 gene products. Genetics 123(4):683-94 PMID:2558957
Aguilera A and Klein HL (1988) Genetic control of intrachromosomal recombination in Saccharomyces cerevisiae. I. Isolation and genetic characterization of hyper-recombination mutations. Genetics 119(4):779-90 PMID:3044923
Aguilera A (1987) Mutations suppressing the effects of a deletion of the phosphoglucose isomerase gene PGI1 in Saccharomyces cerevisiae. Curr Genet 11(6-7):429-34 PMID:3329972
Aguilera A (1986) Deletion of the phosphoglucose isomerase structural gene makes growth and sporulation glucose dependent in Saccharomyces cerevisiae. Mol Gen Genet 204(2):310-6 PMID:3020369
Aguilera A and Zimmermann FK (1986) Isolation and molecular analysis of the phosphoglucose isomerase structural gene of Saccharomyces cerevisiae. Mol Gen Genet 202(1):83-9 PMID:3007940