• 6393 Citations
  • 33 h-Index
20002020

Research output per year

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Research Output

2020

Exploring the fitness benefits of genome reduction in Escherichia coli by a selection-driven approach

Vernyik, V., Karcagi, I., Tímár, E., Nagy, I., Györkei, Á., Papp, B., Györfy, Z. & Pósfai, G., dec. 1 2020, In : Scientific reports. 10, 1, 7345.

Research output: Article

Open Access
2019

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: Article

Open Access
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., ápr. 2019, In : Molecular systems biology. 15, 4, e8462.

Research output: Article

Open Access
11 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: Article

Open Access
19 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: Article

Open Access
4 Citations (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: Article

Open Access
10 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., márc. 1 2019, In : Nature Microbiology. 4, 3, p. 447-458 12 p.

Research output: Article

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: Article

Open Access
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., jún. 1 2018, In : Nature Microbiology. 3, 6, p. 718-731 14 p.

Research output: Article

78 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., márc. 1 2018, In : Nature Structural and Molecular Biology. 25, 3, p. 279-288 10 p.

Research output: Article

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., jún. 19 2018, In : Proceedings of the National Academy of Sciences of the United States of America. 115, 25, p. E5726-E5735

Research output: Article

17 Citations (Scopus)

High-throughput metabolomic analysis predicts mode of action of uncharacterized antimicrobial compounds

Zampieri, M., Szappanos, B., Buchieri, M. V., Trauner, A., Piazza, I., Picotti, P., Gagneux, S., Borrell, S., Gicquel, B., Lelievre, J., Papp, B. & Sauer, U., febr. 21 2018, In : Science Translational Medicine. 10, 429, eaal3973.

Research output: Article

30 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: Article

8 Citations (Scopus)

Model-driven discovery of long-chain fatty acid metabolic reprogramming in heterogeneous prostate cancer cells

Marín de Mas, I., Aguilar, E., Zodda, E., Balcells, C., Marin, S., Dallmann, G., Thomson, T. M., Papp, B. & Cascante, M., jan. 2018, In : PLoS computational biology. 14, 1, e1005914.

Research output: Article

8 Citations (Scopus)

Underground metabolism: network-level perspective and biotechnological potential

Notebaart, R. A., Kintses, B., Feist, A. M. & Papp, B., febr. 1 2018, In : Current Opinion in Biotechnology. 49, p. 108-114 7 p.

Research output: Review article

17 Citations (Scopus)
2017

Erratum: Correction: Phenotypic heterogeneity promotes adaptive evolution (PLoS biology (2017) 15 5 (e2000644))

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., jún. 1 2017, In : PLoS biology. 15, 6, p. e1002607

Research output: Comment/debate

Open Access

Erroneous energy-generating cycles in published genome scale metabolic networks: Identification and removal

Fritzemeier, C. J., Hartleb, D., Szappanos, B., Papp, B. & Lercher, M. J., ápr. 2017, In : PLoS computational biology. 13, 4, e1005494.

Research output: Article

20 Citations (Scopus)

Evolution of complex adaptations in molecular systems

Pál, C. & Papp, B., aug. 1 2017, In : Nature Ecology and Evolution. 1, 8, p. 1084-1092 9 p.

Research output: Review article

11 Citations (Scopus)

Molecular mechanisms underlying COPD-muscle dysfunction unveiled through a systems medicine approach

Marín De Mas, I., Fanchon, E., Papp, B., Kalko, S., Roca, J. & Cascante, M., 2017, In : Bioinformatics. 33, 1, p. 95-103 9 p.

Research output: Article

7 Citations (Scopus)
2 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., máj. 9 2017, In : PLoS biology. 15, 5, e2000644.

Research output: Article

49 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., máj. 20 2016, In : Nature communications. 7, 11607.

Research output: Article

23 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., máj. 1 2016, In : Molecular biology and evolution. 33, 5, p. 1257-1269 13 p.

Research output: Article

32 Citations (Scopus)
2015

Collateral sensitivity of antibiotic-resistant microbes

Pál, C., Papp, B. & Lázár, V., júl. 1 2015, In : Trends in Microbiology. 23, 7, p. 401-407 7 p.

Research output: Review article

75 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: Article

91 Citations (Scopus)

Broad metabolic sensitivity profiling of a prototrophic yeast deletion collection

VanderSluis, B., Hess, D. C., Pesyna, C., Krumholz, E. W., Syed, T., Szappanos, B., Nislow, C., Papp, B., Troyanskaya, O. G., Myers, C. L. & Caudy, A. A., 2014, In : Genome biology. 15, 4, R64.

Research output: Article

29 Citations (Scopus)

Cancer cell metabolism as new targets for novel designed therapies

De Mas, I. M., Aguilar, E., Jayaraman, A., Polat, I. H., Martín-Bernabé, A., Bharat, R., Foguet, C., Milà, E., Papp, B., Centelles, J. J. & Cascante, M., okt. 1 2014, In : Future Medicinal Chemistry. 6, 16, p. 1791-1810 20 p.

Research output: Review article

13 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., júl. 8 2014, In : Nature communications. 5, 4352.

Research output: Article

93 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: Article

64 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., okt. 1 2014, In : Molecular biology and evolution. 31, 10, p. 2793-2804 12 p.

Research output: Article

21 Citations (Scopus)

The dawn of evolutionary genome engineering

Pál, C., Papp, B. & Pósfai, G., júl. 2014, In : Nature Reviews Genetics. 15, 7, p. 504-512 9 p.

Research output: Review article

30 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: Article

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., okt. 29 2013, In : Molecular systems biology. 9, 700.

Research output: Article

145 Citations (Scopus)

Turning gold into 'junk': Transposable elements utilize central proteins of cellular networks

Abrusán, G., Szilágyi, A., Zhang, Y. & Papp, B., márc. 2013, In : Nucleic acids research. 41, 5, p. 3190-3200 11 p.

Research output: Article

12 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., okt. 2012, In : Molecular biology and evolution. 29, 10, p. 3153-3159 7 p.

Research output: Article

21 Citations (Scopus)

Functional wiring of the yeast kinome revealed by global analysis of genetic network motifs

Sharifpoor, S., Van Dyk, D., Costanzo, M., Baryshnikova, A., Friesen, H., Douglas, A. C., Youn, J. Y., VanderSluis, B., Myers, C. L., Papp, B., Boone, C. & Andrews, B. J., ápr. 2012, In : Genome Research. 22, 4, p. 791-801 11 p.

Research output: Article

43 Citations (Scopus)

ModuLand plug-in for Cytoscape: Determination of hierarchical layers of overlapping network modules and community centrality

Szalay-Beko, M., Palotai, R., Szappanos, B., Kovács, I. A., Papp, B. & Csermely, P., aug. 2012, In : Bioinformatics. 28, 16, p. 2202-2204 3 p., bts352.

Research output: Article

68 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., júl. 2011, In : Nature genetics. 43, 7, p. 656-662 7 p.

Research output: Article

135 Citations (Scopus)

Metabolic modeling of endosymbiont genome reduction on a temporal scale

Yizhak, K., Tuller, T., Papp, B. & Ruppin, E., 2011, In : Molecular systems biology. 7, 479.

Research output: Article

31 Citations (Scopus)

Systems-biology approaches for predicting genomic evolution

Papp, B., Notebaart, R. A. & Pál, C., szept. 1 2011, In : Nature Reviews Genetics. 12, 9, p. 591-602 12 p.

Research output: Review article

84 Citations (Scopus)

Systems biology of epistasis: Shedding light on genetic interaction network "hubs"

Papp, B. & Pál, C., nov. 1 2011, In : Cell Cycle. 10, 21, p. 3623-3624 2 p.

Research output: Editorial

1 Citation (Scopus)

Use of genome-scale metabolic models in evolutionary systems biology

Papp, B., Szappanos, B. & Notebaart, R. A., okt. 24 2011, Yeast Systems Biology: Methods and Protocols. Castrillo, J. I. & Oliver, S. G. (eds.). p. 483-497 15 p. (Methods in Molecular Biology; vol. 759).

Research output: Chapter

7 Citations (Scopus)
2010

Genetic interactions reveal the evolutionary trajectories of duplicate genes

Vandersluis, B., Bellay, J., Musso, G., Costanzo, M., Papp, B., Vizeacoumar, F. J., Baryshnikova, A., Andrews, B., Boone, C. & Myers, C. L., 2010, In : Molecular systems biology. 6, 429.

Research output: Article

51 Citations (Scopus)

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: Article

1449 Citations (Scopus)
2009

A critical view of metabolic network adaptations

Papp, B., Teusink, B. & Notebaart, R. A., febr. 2009, In : HFSP Journal. 3, 1, p. 24-35 12 p.

Research output: Article

44 Citations (Scopus)

Stochasticity in protein levels drives colinearity of gene order in metabolic operons of Escherichia coli

Kovács, K., Hurst, L. D. & Papp, B., máj. 2009, In : PLoS biology. 7, 5, e1000115.

Research output: Article

26 Citations (Scopus)
2008
33 Citations (Scopus)

Co-regulation of metabolic genes is better explained by flux coupling than by network distance

Notebaart, R. A., Teusink, B., Siezen, R. J. & Papp, B., jan. 2008, In : PLoS computational biology. 4, 1, p. 157-163 7 p.

Research output: Article

69 Citations (Scopus)
2007

Evaluation of predicted network modules in yeast metabolism using NMR-based metabolite profiling

Bundy, J. G., Papp, B., Harmston, R., Browne, R. A., Clayson, E. M., Burton, N., Reece, R. J., Oliver, S. G. & Brindle, K. M., ápr. 2007, In : Genome Research. 17, 4, p. 510-519 10 p.

Research output: Article

57 Citations (Scopus)

Metabolic reconstruction and analysis for parasite genomes

Pinney, J. W., Papp, B., Hyland, C., Wambua, L., Westhead, D. R. & McConkey, G. A., nov. 1 2007, In : Trends in Parasitology. 23, 11, p. 548-554 7 p.

Research output: Review article

34 Citations (Scopus)