Publikationen der Gruppe

Qian, L.; Yan, B.; Zhou, J.; Fan, Y.; Tao, M.; Zhu, W.; Wang, C.; Tu, Q.; Tian, Y.; He, Q. et al.; Wu, K.; Niu, M.; Yan, Q.; Nikoloski, Z.; Liu, G.; Yu, X.; He, Z.: Comprehensive profiles of sulfur cycling microbial communities along a mangrove sediment depth. Science of the Total Environment 944, 173961 (2024)

Rahimi-Majd, M.; Leverett, A.; Neumann, A.; Kromdijk, J.; Nikoloski, Z.: Nonlinear models based on leaf architecture traits explain the variability of mesophyll conductance across plant species. Plant, Cell and Environment (2024)

Pieri, A.; Beleggia, R.; Gioia, T.; Tong, H.; Di Vittori, V.; Frascarelli, G.; Bitocchi, E.; Nanni, L.; Bellucci, E.; Fiorani, F. et al.; Pecchioni, N.; Marzario, S.; De Quattro, C.; Limongi, A.; De Vita, P.; Rossato, M.; Schurr, U.; David, J.; Nikoloski, Z.; Papa, R.: Transcriptomic response to nitrogen availability reveals signatures of adaptive plasticity during tetraploid wheat domestication. Plant Cell (2024)

Hsieh, Y. E.; Tandon, K.; Verbruggen, H.; Nikoloski, Z.: Comparative analysis of metabolic models of microbial communities reconstructed from automated tools and consensus approaches. npj Systems biology and applications 10 (1), 54 (2024)

Laitinen, R. A. E.; Nikoloski, Z.: Strategies to identify and dissect trade-offs in plants. Molecular Ecology 33 (10), e16780 (2024)

Gupta, S.; Petrov, V.; Garg, V.; Mueller-Roeber, B.; Fernie, A. R.; Nikoloski, Z.; Gechev, T.: The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments. Cellular and Molecular Life Sciences 81 (1), 117 (2024)

Habibpour, M.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Prediction and integration of metabolite-protein interactions with genome-scale metabolic models. Metabolic Engineering 82, S. 216 - 224 (2024)

Hsieh, Y.; Lu, C.-Y.; Liu, P.-Y.; Kao, J.-M.; Yang, S.-Y.; Wu, C.-Y.; Wong, J.-W.M.; Shikina, S.; Fan, T.-Y.; Yang, S.-H.: Successive responses of three coral holobiont components (coral hosts, symbiotic algae, and bacteria) to daily temperature fluctuations. Ecological Indicators 158, 111515 (2024)

Arend, M.; Yuan, Y.; Ruiz-Sola, M.Á.; Omranian, N.; Nikoloski, Z.; Petroutsos, D.: Widening the landscape of transcriptional regulation of green algal photoprotection. Nature Communications 14 (1), 2687 (2023)

Langary, D.; Küken, A.; Nikoloski, Z.: The unraveling of balanced complexes in metabolic networks. Scientific Reports 13 (1), 5712 (2023)

Tan, Q.W.; Lim, P.K.; Chen, Z.; Pasha, A.; Provart, N.; Arend, M.; Nikoloski, Z.; Mutwil, M.: Cross-stress gene expression atlas of Marchantia polymorpha reveals the hierarchy and regulatory principles of abiotic stress responses. Nature Communications 14 (1), 986 (2023)

Küken, A.; Treves, H.; Nikoloski, Z.: A simulation-free constrained regression approach for flux estimation in isotopically nonstationary metabolic flux analysis with applications in microalgae. Frontiers in Plant Science 14, 1140829 (2023)

Moura Ferreira, M.A.D.; Wendering, P.; Arend, M.; Batista da Silveira, W.; Nikoloski, Z.: Accurate prediction of in vivo protein abundances by coupling constraint-based modelling and machine learning. Metabolic Engineering 80, S. 184 - 192 (2023)

Pratx, L.; Wendering, P.; Kappel, C.; Nikoloski, Z.; Bäurle, I.: Histone retention preserves epigenetic marks during heat stress-induced transcriptional memory in plants. The EMBO Journal 42, e113595 (2023)

von Bismarck, T.; Wendering, P.; de Souza, L. P.; Ruß, J.; Strandberg, L.; Heyneke, E.; Walker, B. J.; Schöttler, M. A.; Fernie, A. R.; Nikoloski, Z. et al.; Armbruster, U.: Growth in fluctuating light buffers plants against photorespiratory perturbations. Nature Communications 14 (1), 7052 (2023)

Ferreira, M. A. d. M.; Silveira, W. B. d.; Nikoloski, Z.: PARROT: Prediction of enzyme abundances using protein-constrained metabolic models. PLoS Computational Biology 19 (10), e1011549 (2023)

Tong, H.; Laitinen, R.A.E.; Nikoloski, Z.: Predicting plasticity of rosette growth and metabolic fluxes in Arabidopsis thaliana. New Phytologist 240 (1), S. 426 - 438 (2023)

Bezold, F.; Scheffer, J.; Wendering, P.; Razaghi-Moghadam, Z.; Trauth, J.; Pook, B.; Nußhär, H.; Hasenjäger, S.; Nikoloski, Z.; Essen, L.-O. et al.; Taxis, C.: Optogenetic control of Cdc48 for dynamic metabolic engineering in yeast. Metabolic Engineering 79, S. 97 - 107 (2023)

Hashemi, S.; Razaghi-Moghadam, Z.; Nikoloski, Z.: Maximizing multi-reaction dependencies provides more accurate and precise predictions of intracellular fluxes than the principle of parsimony. PLoS Computational Biology 19 (9), e1011489 (2023)

Langary, D.; Küken, A.; Nikoloski, Z.: The effective deficiency of biochemical networks. Scientific Reports 13, 14589 (2023)