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19982020

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2020

Improved bacterial recombineering by parallelized protein discovery

Wannier, T. M., Nyerges, A., Kuchwara, H. M., Czikkely, M., Balogh, D., Filsinger, G. T., Borders, N. C., Gregg, C. J., Lajoie, M. J., Rios, X., Pál, C. & Church, G. M., Jun 16 2020, In : Proceedings of the National Academy of Sciences of the United States of America. 117, 24, p. 13689-13698 10 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Second-generation 4,5,6,7-tetrahydrobenzo[d]thiazoles as novel DNA gyrase inhibitors

Lamut, A., Skok, Ž., Barančoková, M., Gutierrez, L. J., Cruz, C. D., Tammela, P., Draskovits, G., Szili, P. É., Nyerges, Á., Pál, C., Molek, P., Bratkovič, T., Ilaš, J., Zidar, N., Zega, A., Enriz, R. D., Kikelj, D. & Tomašič, T., Feb 2020, In : Future Medicinal Chemistry. 12, 4, p. 277-297 21 p.

Research output: Contribution to journalArticle

2019

An optimised series of substituted N-phenylpyrrolamides as DNA gyrase B inhibitors

Tiz, D. B., Skok, Ž., Durcik, M., Tomašič, T., Mašič, L. P., Ilaš, J., Zega, A., Draskovits, G., Révész, T., Nyerges, Á., Pál, C., Cruz, C. D., Tammela, P., Žigon, D., Kikelj, D. & Zidar, N., Apr 1 2019, In : European Journal of Medicinal Chemistry. 167, p. 269-290 22 p.

Research output: Contribution to journalArticle

14 Citations (Scopus)

Chemical-genetic profiling reveals limited cross-resistance between antimicrobial peptides with different modes of action

Kintses, B., Jangir, P. K., Fekete, G., Számel, M., Méhi, O., Spohn, R., Daruka, L., Martins, A., Hosseinnia, A., Gagarinova, A., Kim, S., Phanse, S., Csörgő, B., Györkei, Á., Ari, E., Lázár, V., Nagy, I., Babu, M., Pál, C. & Papp, B., Dec 1 2019, In : Nature communications. 10, 1, 5731.

Research output: Contribution to journalArticle

Open Access
2 Citations (Scopus)

CRISPR-interference-based modulation of mobile genetic elements in bacteria

Nyerges, Á., Bálint, B., Cseklye, J., Nagy, I., Pál, C. & Feher, T., May 21 2019, In : Synthetic Biology. 4, 1, ysz008.

Research output: Contribution to journalArticle

Open Access
3 Citations (Scopus)
Open Access
9 Citations (Scopus)

Dual Escherichia coli DNA Gyrase A and B Inhibitors with Antibacterial Activity

Fois, B., Skok, Ž., Tomašič, T., Ilaš, J., Zidar, N., Zega, A., Peterlin Mašič, L., Szili, P., Draskovits, G., Nyerges, Á., Pál, C. & Kikelj, D., Jan 1 2019, (Accepted/In press) In : ChemMedChem.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Enzyme promiscuity shapes adaptation to novel growth substrates

Guzmán, G. I., Sandberg, T. E., LaCroix, R. A., Nyerges, Á., Papp, H., de Raad, M., King, Z. A., Hefner, Y., Northen, T. R., Notebaart, R. A., Pál, C., Palsson, B. O., Papp, B. & Feist, A. M., Apr 2019, In : Molecular systems biology. 15, 4, e8462.

Research output: Contribution to journalArticle

Open Access
12 Citations (Scopus)

Integrated evolutionary analysis reveals antimicrobial peptides with limited resistance

Spohn, R., Daruka, L., Lázár, V., Martins, A., Vidovics, F., Grézal, G., Méhi, O., Kintses, B., Számel, M., Jangir, P. K., Csörgő, B., Györkei, Á., Bódi, Z., Faragó, A., Bodai, L., Földesi, I., Kata, D., Maróti, G., Pap, B., Wirth, R. & 2 others, Papp, B. & Pál, C., Dec 1 2019, In : Nature communications. 10, 1, 4538.

Research output: Contribution to journalArticle

Open Access
23 Citations (Scopus)

Limited Evolutionary Conservation of the Phenotypic Effects of Antibiotic Resistance Mutations

Apjok, G., Boross, G., Nyerges, Á., Fekete, G., Lázár, V., Papp, B., Pál, C., Csörgo, B. & Barlow, M., Aug 1 2019, In : Molecular biology and evolution. 36, 8, p. 1601-1611 11 p.

Research output: Contribution to journalArticle

Open Access
5 Citations (Scopus)

Mismatch repair hierarchy of Pseudomonas putida revealed by mutagenic ssDNA recombineering of the pyrF gene

Aparicio, T., Nyerges, A., Nagy, I., Pal, C., Martínez-García, E. & de Lorenzo, V., Jan 1 2019, (Accepted/In press) In : Environmental Microbiology.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Multiple-Site Diversification of Regulatory Sequences Enables Interspecies Operability of Genetic Devices

Hueso-Gil, A., Nyerges, Á., Pál, C., Calles, B. & De Lorenzo, V., Jan 1 2019, (Accepted/In press) In : ACS Synthetic Biology.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Pathogen diversity drives the evolution of generalist MHC-II alleles in human populations

Manczinger, M., Boross, G., Kemény, L., Müller, V., Lenz, T. L., Papp, B. & Pál, C., 2019, In : PLoS biology. 17, 1, e3000131.

Research output: Contribution to journalArticle

Open Access
11 Citations (Scopus)

Phylogenetic barriers to horizontal transfer of antimicrobial peptide resistance genes in the human gut microbiota

Kintses, B., Méhi, O., Ari, E., Számel, M., Györkei, Á., Jangir, P. K., Nagy, I., Pál, F., Fekete, G., Tengölics, R., Nyerges, Á., Likó, I., Bálint, A., Molnár, T., Bálint, B., Vásárhelyi, B. M., Bustamante, M., Papp, B. & Pál, C., Mar 1 2019, In : Nature Microbiology. 4, 3, p. 447-458 12 p.

Research output: Contribution to journalArticle

11 Citations (Scopus)

Rapid decline of bacterial drug-resistance in an antibiotic-free environment through phenotypic reversion

Dunai, A., Spohn, R., Farkas, Z., Lázár, V., Györkei, Apjok, G., Boross, G., Szappanos, B., Grézal, G., Faragó, A., Bodai, L., Papp, B. & Pál, C., Aug 2019, In : eLife. 8, e47088.

Research output: Contribution to journalArticle

Open Access
2 Citations (Scopus)

Rapid evolution of reduced susceptibility against a balanced dual-targeting antibiotic through stepping-stone mutations

Szili, P., Draskovits, G., Révész, T., Bogár, F., Balogh, D., Martinek, T., Daruka, L., Spohn, R., Vásárhelyi, B. M., Czikkely, M., Kintses, B., Grézal, G., Ferenc, G., Pál, C. & Nyerges, Á., 2019, In : Antimicrobial agents and chemotherapy. 63, 9, e00207-19.

Research output: Contribution to journalArticle

2 Citations (Scopus)
2018

Antibiotic-resistant bacteria show widespread collateral sensitivity to antimicrobial peptides

Lázár, V., Martins, A., Spohn, R., Daruka, L., Grézal, G., Fekete, G., Számel, M., Jangir, P. K., Kintses, B., Csörgo, B., Nyerges, Á., Györkei, Á., Kincses, A., Dér, A., Walter, F. R., Deli, M. A., Urbán, E., Hegedus, Z., Olajos, G., Méhi, O. & 5 others, Bálint, B., Nagy, I., Martinek, T. A., Papp, B. & Pál, C., Jun 1 2018, In : Nature Microbiology. 3, 6, p. 718-731 14 p.

Research output: Contribution to journalArticle

84 Citations (Scopus)

A standardized workflow for surveying recombinases expands bacterial genome-editing capabilities

Ricaurte, D. E., Martínez-García, E., Nyerges, Á., Pál, C., de Lorenzo, V. & Aparicio, T., Jan 2018, In : Microbial Biotechnology. 11, 1, p. 176-188 13 p.

Research output: Contribution to journalArticle

16 Citations (Scopus)

Cotranslational protein assembly imposes evolutionary constraints on homomeric proteins

Natan, E., Endoh, T., Haim-Vilmovsky, L., Flock, T., Chalancon, G., Hopper, J. T. S., Kintses, B., Horvath, P., Daruka, L., Fekete, G., Pál, C., Papp, B., Oszi, E., Magyar, Z., Marsh, J. A., Elcock, A. H., Babu, M. M., Robinson, C. V., Sugimoto, N. & Teichmann, S. A., Mar 1 2018, In : Nature Structural and Molecular Biology. 25, 3, p. 279-288 10 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Directed evolution of multiple genomic loci allows the prediction of antibiotic resistance

Nyerges, Á., Csörgo, B., Draskovits, G., Kintses, B., Szili, P., Ferenc, G., Révész, T., Ari, E., Nagy, I., Bálint, B., Vásárhelyi, B. M., Bihari, P., Számel, M., Balogh, D., Papp, H., Kalapis, D., Papp, B. & Pál, C., Jun 19 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 25, p. E5726-E5735

Research output: Contribution to journalArticle

17 Citations (Scopus)

Hsp70-associated chaperones have a critical role in buffering protein production costs

Farkas, Z., Kalapis, D., Bódi, Z., Szamecz, B., Daraba, A., Almási, K., Kovács, K., Boross, G., Pál, F., Horváth, P. T., Balassa, T., Molnár, C., Pettkó-Szandtner, A., Klement, É., Rutkai, E., Szvetnik, A., Papp, B. & Pál, C., Jan 29 2018, In : eLife. 7, e29845.

Research output: Contribution to journalArticle

9 Citations (Scopus)

New N-phenylpyrrolamide DNA gyrase B inhibitors: Optimization of efficacy and antibacterial activity

Durcik, M., Lovison, D., Skok, Ž., Durante Cruz, C., Tammela, P., Tomašič, T., Benedetto Tiz, D., Draskovits, G., Nyerges, Á., Pál, C., Ilaš, J., Peterlin Mašič, L., Kikelj, D. & Zidar, N., Jun 25 2018, In : European Journal of Medicinal Chemistry. 154, p. 117-132 16 p.

Research output: Contribution to journalArticle

12 Citations (Scopus)
2017

Genome-Wide Abolishment of Mobile Genetic Elements Using Genome Shuffling and CRISPR/Cas-Assisted MAGE Allows the Efficient Stabilization of a Bacterial Chassis

Umenhoffer, K., Draskovits, G., Nyerges, Á., Karcagi, I., Bogos, B., Tímár, E., Csörgö, B., Herczeg, R., Nagy, I., Fehér, T., Pál, C. & Pósfai, G., Aug 18 2017, In : ACS Synthetic Biology. 6, 8, p. 1471-1483 13 p.

Research output: Contribution to journalArticle

22 Citations (Scopus)

Phenotypic heterogeneity promotes adaptive evolution

Bódi, Z., Farkas, Z., Nevozhay, D., Kalapis, D., Lázár, V., Csörgő, B., Nyerges, Á., Szamecz, B., Fekete, G., Papp, B., Araújo, H., Oliveira, J. L., Moura, G., Santos, M. A. S., Székely, T., Balázsi, G. & Pál, C., May 9 2017, In : PLoS biology. 15, 5, e2000644.

Research output: Contribution to journalArticle

51 Citations (Scopus)
2016

Adaptive evolution of complex innovations through stepwise metabolic niche expansion

Szappanos, B., Fritzemeier, J., Csörga, B., Lázár, V., Lu, X., Fekete, G., Bálint, B., Herczeg, R., Nagy, I., Notebaart, R. A., Lercher, M. J., Pál, C. & Papp, B., May 20 2016, In : Nature communications. 7, 11607.

Research output: Contribution to journalArticle

23 Citations (Scopus)

A highly precise and portable genome engineering method allows comparison of mutational effects across bacterial species

Nyerges, Á., Csörgo, B., Nagy, I., Bálint, B., Bihari, P., Lázár, V., Apjok, G., Umenhoffer, K., Bogos, B., Pósfai, G. & Pál, C., Mar 1 2016, In : Proceedings of the National Academy of Sciences of the United States of America. 113, 9, p. 2502-2507 6 p.

Research output: Contribution to journalArticle

66 Citations (Scopus)

Efflux Pump Control Alters Synthetic Gene Circuit Function

Diao, J., Charlebois, D. A., Nevozhay, D., Bódi, Z., Pál, C. & Balázsi, G., Jul 15 2016, In : ACS Synthetic Biology. 5, 7, p. 619-631 13 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)

Indispensability of Horizontally Transferred Genes and Its Impact on Bacterial Genome Streamlining

Karcagi, I., Draskovits, G., Umenhoffer, K., Fekete, G., Kovács, K., Méhi, O., Balikó, G., Szappanos, B., Györfy, Z., Fehér, T., Bogos, B., Blattner, F. R., Pál, C., Pósfai, G. & Papp, B., May 1 2016, In : Molecular biology and evolution. 33, 5, p. 1257-1269 13 p.

Research output: Contribution to journalArticle

32 Citations (Scopus)
2015

Evolution of Robustness to Protein Mistranslation by Accelerated Protein Turnover

Kalapis, D., Bezerra, A. R., Farkas, Z., Horvath, P., Bódi, Z., Daraba, A., Szamecz, B., Gut, I., Bayes, M., Santos, M. A. S. & Pál, C., Nov 6 2015, In : PLoS biology. 13, 11, e1002291.

Research output: Contribution to journalArticle

18 Citations (Scopus)
2014

Antagonism between bacteriostatic and bactericidal antibiotics is prevalent

Ocampo, P. S., Lázár, V., Papp, B., Arnoldini, M., Zur Wiesch, P. A., Busa-Fekete, R., Fekete, G., Pál, C., Ackermann, M. & Bonhoeffer, S., Aug 2014, In : Antimicrobial agents and chemotherapy. 58, 8, p. 4573-4582 10 p.

Research output: Contribution to journalArticle

99 Citations (Scopus)

Conditional DNA repair mutants enable highly precise genome engineering

Nyerges, Á., Csörgo, B., Nagy, I., Latinovics, D., Szamecz, B., Pósfai, G. & Pál, C., Apr 2014, In : Nucleic acids research. 42, 8, p. e62

Research output: Contribution to journalArticle

31 Citations (Scopus)

Genome-wide analysis captures the determinants of the antibiotic cross-resistance interaction network

Lázár, V., Nagy, I., Spohn, R., Csörgo ', B., Györkei, Á., Nyerges, Á., Horváth, B., Vörös, A., Busa-Fekete, R., Hrtyan, M., Bogos, B., Méhi, O., Fekete, G., Szappanos, B., Kégl, B., Papp, B. & Pál, C., Jul 8 2014, In : Nature communications. 5, 4352.

Research output: Contribution to journalArticle

96 Citations (Scopus)

Network-level architecture and the evolutionary potential of underground metabolism

Notebaart, R. A., Szappanos, B., Kintses, B., Pál, F., Györkei, Á., Bogos, B., Lázár, V., Spohn, R., Csörgö, B., Wagner, A., Ruppin, E., Pál, C. & Papp, B., Aug 12 2014, In : Proceedings of the National Academy of Sciences of the United States of America. 111, 32, p. 11762-11767 6 p.

Research output: Contribution to journalArticle

66 Citations (Scopus)

Perturbation of iron homeostasis promotes the evolution of antibiotic resistance

Méhi, O., Bogos, B., Csörgo, B., Pál, F., Nyerges, Á., Papp, B. & Pál, C., Oct 1 2014, In : Molecular biology and evolution. 31, 10, p. 2793-2804 12 p.

Research output: Contribution to journalArticle

21 Citations (Scopus)

The Genomic Landscape of Compensatory Evolution

Szamecz, B., Boross, G., Kalapis, D., Kovács, K., Fekete, G., Farkas, Z., Lázár, V., Hrtyan, M., Kemmeren, P., Groot Koerkamp, M. J. A., Rutkai, E., Holstege, F. C. P., Papp, B. & Pál, C., 2014, In : PLoS biology. 12, 8, e1001935.

Research output: Contribution to journalArticle

66 Citations (Scopus)
2013

Bacterial evolution of antibiotic hypersensitivity

Lázár, V., Pal Singh, G., Spohn, R., Nagy, I., Horváth, B., Hrtyan, M., Busa-Fekete, R., Bogos, B., Méhi, O., Csörgo, B., Pósfai, G., Fekete, G., Szappanos, B., Kégl, B., Papp, B. & Pál, C., Oct 29 2013, In : Molecular systems biology. 9, 700.

Research output: Contribution to journalArticle

147 Citations (Scopus)

Genomewide screen for modulators of evolvability under toxic antibiotic exposure

Méhi, O., Bogos, B., Csörgo, B. & Pál, C., Jul 2013, In : Antimicrobial agents and chemotherapy. 57, 7, p. 3453-3456 4 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)
2012

Competition between transposable elements and mutator genes in bacteria

Fehér, T., Bogos, B., Méhi, O., Fekete, G., Csörg, B., Kovács, K., Pósfai, G., Papp, B., Hurst, L. D. & Pál, C., Oct 2012, In : Molecular biology and evolution. 29, 10, p. 3153-3159 7 p.

Research output: Contribution to journalArticle

21 Citations (Scopus)
2011

An integrated approach to characterize genetic interaction networks in yeast metabolism

Szappanos, B., Kovács, K., Szamecz, B., Honti, F., Costanzo, M., Baryshnikova, A., Gelius-Dietrich, G., Lercher, M. J., Jelasity, M., Myers, C. L., Andrews, B. J., Boone, C., Oliver, S. G., Pál, C. & Papp, B., Jul 2011, In : Nature genetics. 43, 7, p. 656-662 7 p.

Research output: Contribution to journalArticle

135 Citations (Scopus)
2010

The genetic landscape of a cell

Costanzo, M., Baryshnikova, A., Bellay, J., Kim, Y., Spear, E. D., Sevier, C. S., Ding, H., Koh, J. L. Y., Toufighi, K., Mostafavi, S., Prinz, J., St. Onge, R. P., Vandersluis, B., Makhnevych, T., Vizeacoumar, F. J., Alizadeh, S., Bahr, S., Brost, R. L., Chen, Y., Cokol, M. & 33 others, Deshpande, R., Li, Z., Lin, Z. Y., Liang, W., Marback, M., Paw, J., Luis, B. J. S., Shuteriqi, E., Tong, A. H. Y., Van Dyk, N., Wallace, I. M., Whitney, J. A., Weirauch, M. T., Zhong, G., Zhu, H., Houry, W. A., Brudno, M., Ragibizadeh, S., Papp, B., Pál, C., Roth, F. P., Giaever, G., Nislow, C., Troyanskaya, O. G., Bussey, H., Bader, G. D., Gingras, A. C., Morris, Q. D., Kim, P. M., Kaiser, C. A., Myers, C. L., Andrews, B. J. & Boone, C., Jan 22 2010, In : Science. 327, 5964, p. 425-431 7 p.

Research output: Contribution to journalArticle

1456 Citations (Scopus)
2009

Cell cycle regulation by feed-forward loops coupling transcription and phosphorylation

Csikász-Nagy, A., Kapuy, O., Tóth, A., Pál, C., Jensen, L. J., Uhlmann, F., Tyson, J. J. & Novák, B., Jan 20 2009, In : Molecular systems biology. 5, 236.

Research output: Contribution to journalArticle

33 Citations (Scopus)
2008

Integration of horizontally transferred genes into regulatory interaction networks takes many million years

Lercher, M. J. & Pál, C., Mar 1 2008, In : Molecular biology and evolution. 25, 3, p. 559-567 9 p.

Research output: Contribution to journalArticle

106 Citations (Scopus)
2007

Coevolution with viruses drives the evolution of bacterial mutation rates

Pal, C., Maciá, M. D., Oliver, A., Schachar, I. & Buckling, A., Dec 13 2007, In : Nature. 450, 7172, p. 1079-1081 3 p.

Research output: Contribution to journalArticle

188 Citations (Scopus)

Differential impact of simultaneous migration on coevolving hosts and parasites

Morgan, A. D., Brockhurst, M. A., Lopez-Pascua, L. D. C., Pal, C. & Buckling, A., 2007, In : BMC evolutionary biology. 7, 1.

Research output: Contribution to journalArticle

32 Citations (Scopus)

Plasticity of genetic interactions in metabolic networks of yeast

Harrison, R., Papp, B., Pál, C., Oliver, S. G. & Delneri, D., Feb 13 2007, In : Proceedings of the National Academy of Sciences of the United States of America. 104, 7, p. 2307-2312 6 p.

Research output: Contribution to journalArticle

143 Citations (Scopus)
2006

Chance and necessity in the evolution of minimal metabolic networks

Pál, C., Papp, B., Lercher, M. J., Csermely, P., Oliver, S. G. & Hurst, L. D., Mar 30 2006, In : Nature. 440, 7084, p. 667-670 4 p.

Research output: Contribution to journalArticle

181 Citations (Scopus)
2005

Adaptive evolution of bacterial metabolic networks by horizontal gene transfer

Pál, C., Papp, B. & Lercher, M. J., Dec 1 2005, In : Nature genetics. 37, 12, p. 1372-1375 4 p.

Research output: Contribution to journalArticle

326 Citations (Scopus)

Horizontal gene transfer depends on gene content of the host

Pál, C., Papp, B. & Lercher, M. J., Sep 1 2005, In : Bioinformatics. 21, SUPPL. 2, p. ii222-ii223

Research output: Contribution to journalArticle

36 Citations (Scopus)
2004

Metabolic network analysis of the causes and evolution of enzyme dispensability in yeast

Papp, B., Pál, C. & Hurst, L. D., Jun 10 2004, In : Nature. 429, 6992, p. 661-664 4 p.

Research output: Contribution to journalArticle

265 Citations (Scopus)
2003

Dosage sensitivity and the evolution of gene families in yeast

Papp, B., Pál, C. & Hurst, L. D., Jul 10 2003, In : Nature. 424, 6945, p. 194-197 4 p.

Research output: Contribution to journalArticle

575 Citations (Scopus)