@article{MTMT:34489854,
	title = {Exploring RAD18-dependent replication of damaged DNA and discontinuities: A collection of advanced tools},
	url = {https://m2.mtmt.hu/api/publication/34489854},
	author = {Mórocz, Mónika and Qorri, Erda and Pekker, Emese and Tick, Gabriella and Haracska, Lajos},
	doi = {10.1016/j.jbiotec.2023.12.001},
	journal-iso = {J BIOTECHNOL},
	journal = {JOURNAL OF BIOTECHNOLOGY},
	volume = {380},
	unique-id = {34489854},
	issn = {0168-1656},
	abstract = {DNA damage tolerance (DDT) pathways mitigate the effects of DNA damage during replication by rescuing the replication fork stalled at a DNA lesion or other barriers and also repair discontinuities left in the newly replicated DNA. From yeast to mammalian cells, RAD18-regulated translesion synthesis (TLS) and template switching (TS) represent the dominant pathways of DDT. Monoubiquitylation of the polymerase sliding clamp PCNA by HRAD6A-B/RAD18, an E2/E3 protein pair, enables the recruitment of specialized TLS polymerases that can insert nucleotides opposite damaged template bases. Alternatively, the subsequent polyubiquitylation of monoubiquitin-PCNA by Ubc13-Mms2 (E2) and HLTF or SHPRH (E3) can lead to the switching of the synthesis from the damaged template to the undamaged newly synthesized sister strand to facilitate synthesis past the lesion. When immediate TLS or TS cannot occur, gaps may remain in the newly synthesized strand, partly due to the repriming activity of the PRIMPOL primase, which can be filled during the later phases of the cell cycle. The first part of this review will summarize the current knowledge about RAD18-dependent DDT pathways, while the second part will offer a molecular toolkit for the identification and characterization of the cellular functions of a DDT protein. In particular, we will focus on advanced techniques that can reveal single-stranded and doublestranded DNA gaps and their repair at the single-cell level as well as monitor the progression of single replication forks, such as the specific versions of the DNA fiber and comet assays. This collection of methods may serve as a powerful molecular toolkit to monitor the metabolism of gaps, detect the contribution of relevant pathways and molecular players, as well as characterize the effectiveness of potential inhibitors.},
	year = {2024},
	eissn = {1873-4863},
	pages = {1-19}
}

@article{MTMT:34473962,
	title = {Development of a Large-Scale Pathogen Screening Test for the Biosafety Evaluation of Canine Mesenchymal Stem Cells},
	url = {https://m2.mtmt.hu/api/publication/34473962},
	author = {Pekker, Emese and Priskin, Katalin and Szabo-Kriston, Eva and Csanyi, Bernadett and Buzas-Bereczki, Orsolya and Adorjan, Lili and Szukacsov, Valéria and Pinter, Lajos and Rusvai, Miklos and Cooper, Paul and Kiss-Toth, Endre and Haracska, Lajos},
	doi = {10.1186/s12575-023-00226-x},
	journal-iso = {BIOL PROCED ONLINE},
	journal = {BIOLOGICAL PROCEDURES ONLINE},
	volume = {25},
	unique-id = {34473962},
	issn = {1480-9222},
	abstract = {BackgroundThe action of mesenchymal stem cells (MSCs) is the subject of intense research in the field of regenerative medicine, including their potential use in companion animals, such as dogs. To ensure the safety of canine MSC batches for their application in regenerative medicine, a quality control test must be conducted in accordance with Good Manufacturing Practices (GMP). Based on guidance provided by the European Medicines Agency, this study aimed to develop and validate a highly sensitive and robust, nucleic acid-based test panel for the detection of various canine pathogens. Analytical sensitivity, specificity, amplification efficiency, and linearity were evaluated to ensure robust assessment. Additionally, viable spike-in controls were used to control for optimal nucleic acid extraction. The conventional PCR-based and real-time PCR-based pathogen assays were evaluated in a real-life setting, by direct testing MSC batches.ResultsThe established nucleic acid-based assays displayed remarkable sensitivity, detecting 100-1 copies/reaction of template DNA. They also exhibited high specificity and efficiency. Moreover, highly effective nucleic acid isolation was confirmed by the sensitive detection of spike-in controls. The detection capacity of our optimized and validated methods was determined by direct pathogen testing of nine MSC batches that displayed unusual phenotypes, such as reduced cell division or other deviating characteristics. Among these MCS batches of uncertain purity, only one tested negative for all pathogens. The direct testing of these samples yielded positive results for important canine pathogens, including tick-borne disease-associated species and viral members of the canine infectious respiratory disease complex (CIRDC). Notably, samples positive for the etiological agents responsible for enteritis (CPV), leptospirosis (Leptospira interrogans), and neosporosis (Neospora caninum) were also identified. Furthermore, we conducted biosafety evaluation of 12 MSC batches intended for therapeutic application. Eleven MSC batches were found to be free of extraneous agents, and only one tested positive for a specific pathogen, namely, canine parvovirus.ConclusionIn this study, we established and validated reliable, highly sensitive, and accurate nucleic acid-based testing methods for a broad spectrum of canine pathogens.},
	keywords = {ASSAY; Canine; Mesenchymal Stem Cells; cell therapy; Pathogen testing; EMA guidelines},
	year = {2023},
	eissn = {1480-9222}
}

@misc{MTMT:34169536,
	title = {The loss of DNA polymerase epsilon accessory subunits POLE3-POLE4 leads to BRCA1-independent PARP inhibitor sensitivity},
	url = {https://m2.mtmt.hu/api/publication/34169536},
	author = {Mamar, Hasan and Fajka-Boja, Roberta and Mórocz, Mónika and Pinto, Eva and Siham, Zentout and Mihut, Alexandra and Kopasz, Anna Georgina and Mérey, Mihály and Rebecca, Smith and Haracska, Lajos and Sébastien, Huet and Timinszky, Gyula},
	unique-id = {34169536},
	year = {2023},
	orcid-numbers = {Fajka-Boja, Roberta/0000-0001-5331-8280}
}

@article{MTMT:33708483,
	title = {Prolonged activity of the transposase helper may raise safety concerns during DNA transposon-based gene therapy},
	url = {https://m2.mtmt.hu/api/publication/33708483},
	author = {Imre, Gergely and Takács, Bertalan Vilmos and Czipa, Erik and Drubi, Andrea and Jaksa, Gábor and Latinovics, Dóra and Nagy, Andrea and Karkas, Réka and Hudoba, Liza and Vásárhelyi, Bálint Márk and Pankotai-Bodó, Gabriella and Blastyák, András and Hegedűs, Zoltán and Germán, Péter and Bálint, Balázs and Ahmed Abdullah, Khaldoon Sadiq and Kopasz, Anna Georgina and Kovács, Anita Kármen and Nagy, László and Sükösd, Farkas and Pintér, Lajos and Rülicke, Thomas and Barta, Endre and Nagy, István and Haracska, Lajos and Mátés, Lajos},
	doi = {10.1016/j.omtm.2023.03.003},
	journal-iso = {MOL THER-METH CLIN D},
	journal = {MOLECULAR THERAPY-METHODS AND CLINICAL DEVELOPMENT},
	volume = {29},
	unique-id = {33708483},
	year = {2023},
	eissn = {2329-0501},
	pages = {145-159},
	orcid-numbers = {Vásárhelyi, Bálint Márk/0000-0003-1782-8691; Kovács, Anita Kármen/0000-0001-9805-1647}
}

@article{MTMT:33253071,
	title = {Az újgenerációs szekvenáláson innen és túl: a tumorpanelek elemzéséből leszűrhető információk},
	url = {https://m2.mtmt.hu/api/publication/33253071},
	author = {Sükösd, Farkas and Priskin, Katalin and Giricz, Zsófia and Mező, Béla and Pintér, Lajos and Pankotai, Tibor and Haracska, Lajos},
	journal-iso = {KLINIKAI ONKOLÓGIA},
	journal = {KLINIKAI ONKOLÓGIA},
	volume = {9},
	unique-id = {33253071},
	issn = {2064-5058},
	year = {2022},
	pages = {16-16},
	orcid-numbers = {Pankotai, Tibor/0000-0001-9810-5465}
}

@{MTMT:33089595,
	title = {UNDERSTANDING THE EFFECTS OF COVID-19 ON THE MICROBIOME USING BIOINFORMATICS AND MACHINE LEARNING},
	url = {https://m2.mtmt.hu/api/publication/33089595},
	author = {Takács, Bertalan Vilmos and Gyuris, Zoltán and Pintér, Lajos and Visnyovszki, Ádám and Enyedi, Márton Zsolt and Hajdú, Edit and Haracska, Lajos},
	booktitle = {„FIBOK 2022” : Fiatal Biotechnológusok V. Országos Konferenciája},
	unique-id = {33089595},
	year = {2022}
}

@article{MTMT:33029933,
	title = {A Comprehensive Evaluation of the Performance of Prediction Algorithms on Clinically Relevant Missense Variants},
	url = {https://m2.mtmt.hu/api/publication/33029933},
	author = {Qorri, Erda and Takács, Bertalan Vilmos and Gráf, Alexandra and Enyedi, Márton Zsolt and Pintér, Lajos and Kiss, Ernő and Haracska, Lajos},
	doi = {10.3390/ijms23147946},
	journal-iso = {INT J MOL SCI},
	journal = {INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES},
	volume = {23},
	unique-id = {33029933},
	issn = {1661-6596},
	year = {2022},
	eissn = {1422-0067},
	orcid-numbers = {Kiss, Ernő/0000-0002-7344-1750}
}

@article{MTMT:32746161,
	title = {A series of xanthenes inhibiting Rad6 function and Rad6–Rad18 interaction in the PCNA ubiquitination cascade},
	url = {https://m2.mtmt.hu/api/publication/32746161},
	author = {Fenteany, Gabriel and Sharma, Gaurav and Gaur, Paras and Borics, Attila and Wéber, Edit and Kiss, Ernő and Haracska, Lajos},
	doi = {10.1016/j.isci.2022.104053},
	journal-iso = {ISCIENCE},
	journal = {ISCIENCE},
	volume = {25},
	unique-id = {32746161},
	abstract = {Ubiquitination of proliferating cell nuclear antigen (PCNA) triggers pathways of DNA damage tolerance, including mutagenic translesion DNA synthesis, and comprises a cascade of reactions involving the E1 ubiquitin-activating enzyme Uba1, the E2 ubiquitin-conjugating enzyme Rad6, and the E3 ubiquitin ligase Rad18. We report here the discovery of a series of xanthenes that inhibit PCNA ubiquitination, Rad6-ubiquitin thioester formation, and the Rad6-Rad18 interaction. Structure-activity relationship experiments across multiple assays reveal chemical and structural features important for different activities along the pathway to PCNA ubiquitination. The compounds that inhibit these processes are all a subset of the xanthen-3-ones we tested. These small molecules thus represent first-in-class probes of Rad6 function and the association of Rad6 and Rad18, the latter being a new inhibitory activity discovered for a small molecule, in the PCNA ubiquitination cascade and potential therapeutic agents to contain cancer progression.},
	year = {2022},
	eissn = {2589-0042},
	orcid-numbers = {Fenteany, Gabriel/0000-0001-7407-2195; Wéber, Edit/0000-0002-5904-0619; Kiss, Ernő/0000-0002-7344-1750}
}

@article{MTMT:32606165,
	title = {The Rad5 Helicase and RING Domains Contribute to Genome Stability through their Independent Catalytic Activities},
	url = {https://m2.mtmt.hu/api/publication/32606165},
	author = {Tóth, Róbert and Balogh, Dávid and Pintér, Lajos and Jaksa, G. and Szeplaki, B. and Gráf, Alexandra and Győrfy, Zsuzsanna and Enyedi, Márton Zsolt and Kiss, Ernő and Haracska, Lajos and Unk, Ildikó},
	doi = {10.1016/j.jmb.2021.167437},
	journal-iso = {J MOL BIOL},
	journal = {JOURNAL OF MOLECULAR BIOLOGY},
	volume = {434},
	unique-id = {32606165},
	issn = {0022-2836},
	abstract = {Genomic stability is compromised by DNA damage that obstructs replication. Rad5 plays a prominent role in DNA damage bypass processes that evolved to ensure the continuation of stalled replication. Like its human orthologs, the HLTF and SHPRH tumor suppressors, yeast Rad5 has a RING domain that supports ubiquitin ligase activity promoting PCNA polyubiquitylation and a helicase domain that in the case of HLTF and Rad5 was shown to exhibit an ATPase-linked replication fork reversal activity. The RING domain is embedded in the helicase domain, confusing their separate investigation and the understanding of the exact role of Rad5 in DNA damage bypass. Particularly, it is still debated whether the helicase domain plays a catalytic or a non-enzymatic role during error-free damage bypass and whether it facilitates a function separately from the RING domain. In this study, through in vivo and in vitro characterization of domain-specific mutants, we delineate the contributions of the two domains to Rad5 function. Yeast genetic experiments and whole-genome sequencing complemented with biochemical assays demonstrate that the ubiquitin ligase and the ATPase-linked activities of Rad5 exhibit independent catalytic activities in facilitating separate pathways during error-free lesion bypass. Our results also provide important insights into the mutagenic role of Rad5 and indicate its tripartite contribution to DNA damage tolerance. © 2021 The Author(s)},
	keywords = {MUTAGENESIS; enzyme assay; DNA damage tolerance; Rad5; yeast genetics},
	year = {2022},
	eissn = {1089-8638},
	orcid-numbers = {Kiss, Ernő/0000-0002-7344-1750}
}

@article{MTMT:32164980,
	title = {SerpinB10, a Serine Protease Inhibitor, Is Implicated in UV-Induced Cellular Response},
	url = {https://m2.mtmt.hu/api/publication/32164980},
	author = {Majoros, Hajnalka and Borsos, Barbara Nikolett and Újfaludi, Zsuzsanna and Páhi, Zoltán Gábor and Mórocz, Mónika and Haracska, Lajos and Boros, Imre Miklós and Pankotai, Tibor},
	doi = {10.3390/ijms22168500},
	journal-iso = {INT J MOL SCI},
	journal = {INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES},
	volume = {22},
	unique-id = {32164980},
	issn = {1661-6596},
	year = {2021},
	eissn = {1422-0067},
	orcid-numbers = {Majoros, Hajnalka/0000-0003-2020-971X; Újfaludi, Zsuzsanna/0000-0003-4738-0963; Páhi, Zoltán Gábor/0000-0002-3428-553X; Boros, Imre Miklós/0000-0001-8504-9687; Pankotai, Tibor/0000-0001-9810-5465}
}