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Kasalo, Niko; Domazet-Lošo, Mirjana; Domazet-Lošo, Tomislav; | Convergence in Amino Acid Outsourcing Between Animals and Predatory Bacteria // International journal of molecular sciences, 26 (2025), 7; 3024, 15. doi: 10.3390/ijms26073024
doiwww.mdpi.comwww.biorxiv.orgfulir.irb.hr
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Kasalo, Niko; Domazet-Lošo, Tomislav; Domazet-Lošo, Mirjana | Bacterial Amino Acid Auxotrophies Enable Energetically Costlier Proteomes // International journal of molecular sciences, 26 (2025), 5; 2285, 14. doi: 10.3390/ijms26052285
doiwww.mdpi.comwww.biorxiv.orgfulir.irb.hr
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Kasalo, Niko; Janzen, Daniel H.; Hallwachs, Winnie; Brown, Allison; Husemann, Martin; Vielsäcker, Mathias; Domazet-Lošo, Tomislav; Franjević, Damjan; Subedi, Madan; Bogić, Domagoj et al. | Integrative Taxonomy of Costa Rican Tetrigidae (Orthoptera) Reveals Eight New Species // Diversity, 17 (2025), 3; 190, 34. doi: 10.3390/d17030190
doiwww.mdpi.comfulir.irb.hr
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Koska, Sara; Leljak-Levanić, Dunja; Malenica, Nenad; Bigović Villi, Kian; Futo, Momir; Čorak, Nina; Jagić, Mateja; Ivanić, Ariana; Tušar, Anja; Kasalo, Niko et al. | Developmental phylotranscriptomics in grapevine suggests an ancestral role of somatic embryogenesis // Communications biology, 8 (2025), 1; 265, 15. doi: 10.1038/s42003-025-07712-w
doiwww.nature.comfulir.irb.hr
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Domazet-Lošo, Mirjana; Široki, Tin; Šimičević, Korina; Domazet-Lošo, Tomislav | Macroevolutionary dynamics of gene family gain and loss along multicellular eukaryotic lineages // Nature communications, 15 (2024), 2663, 22. doi: 10.1038/s41467-024-47017-w
doiwww.nature.com
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Ravikumar, Vaishnavi ; Nalpas, Nicolas C. ; Anselm, Viktoria ; Krug, Karsten ; Lenuzzi, Maša ; Šestak, Martin Sebastijan ; Domazet-Lošo, Tomislav ; Mijakovic, Ivan ; Macek, Boris | In-depth analysis of Bacillus subtilis proteome identifies new ORFs and traces the evolutionary history of modified proteins // Scientific reports, 8 (2018), 1; 17246, 11. doi: 10.1038/s41598-018-35589-9
doi
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Čorak, Nina ; Anniko, Sirli ; Daschkin-Steinborn, Christina ; Krey, Viktoria ; Koska, Sara ; Futo, Momir ; Široki, Tin ; Woichansky, Innokenty ; Opašić, Luka ; Kifer, Domagoj et al. | Pleomorphic Variants of Borreliella (syn. Borrelia) burgdorferi Express Evolutionary Distinct Transcriptomes // International journal of molecular sciences, 24 (2023), 6; 5594, 23. doi: 10.3390/ijms24065594
doidoi.orgwww.mdpi.com
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Futo, Momir ; Široki, Tin ; Koska, Sara ; Čorak, Nina ; Tušar, Anja ; Domazet-Lošo, Mirjana ; Tomislav Domazet-Lošo | A novel time-lapse imaging method for studying developing bacterial biofilms // Scientific reports, 12 (2022), 21120, 13. doi: 10.1038/s41598-022-24431-y
doiwww.nature.comfulir.irb.hr
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Futo, Momir ; Opašić, Luka ; Koska, Sara ; Čorak, Nina ; Široki, Tin ; Ravikumar, Vaishnavi ; Thorsell, Annika ; Lenuzzi, Maša ; Kifer, Domagoj ; Domazet-Lošo, Mirjana et al. | Embryo-like features in developing Bacillus subtilis biofilms // Molecular biology and evolution, 38 (2021), 1; 31-47. doi: 10.1093/molbev/msaa217
doidoi.orgacademic.oup.comfulir.irb.hr
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Pozhitkov, Alex E. ; Neme, Rafik ; Domazet-Lošo, Tomislav ; Leroux, Brian G. ; Soni, Shivani ; Tautz, Diethard ; Noble, Peter A. | Tracing the dynamics of gene transcripts after organismal death // Open Biology, 7 (2017), 1; 160267, 25. doi: 10.1098/rsob.160267
doirsob.royalsocietypublishing.orgdx.doi.org
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Domazet-Lošo, Tomislav ; Carvunis, Anne-Ruxandra ; Mar Albà, M. ; Sebastijan Šestak, Martin ; Bakarić, Robert ; Neme, Rafik ; Tautz, Diethard | No Evidence for Phylostratigraphic Bias Impacting Inferences on Patterns of Gene Emergence and Evolution // Molecular biology and evolution, 34 (2017), 4; 843-856. doi: 10.1093/molbev/msw284
doiacademic.oup.com
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Bosch, Thomas C.G. ; Klimovich, Alexander ; Domazet-Lošo, Tomislav ; Gründer, Stefan ; Holstein, Thomas W. ; Jékely, Gáspár ; Miller, David J. ; Murillo-Rincon, Andrea P. ; Rentzsch, Fabian ; Richards, Gemma S. et al. | Back to the Basics: Cnidarians Start to Fire // Trends in neurosciences, 40 (2017), 2; 92-105. doi: 10.1016/j.tins.2016.11.005
doiwww.sciencedirect.com
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Stancik, Ivan Andreas ; Sestak, Martin Sebastijan ; Ji, Boyang ; Axelson-Fisk, Marina ; Franjevic, Damjan ; Jers, Carsten ; Domazet- Lošo, Tomislav ; Mijakovic, Ivan | Serine/Threonine protein kinases from bacteria, archaea and eukarya share a common evolutionary origin deeply rooted in the tree of life // Journal of molecular biology, 430 (2018), 1; 27-32. doi: 10.1016/j.jmb.2017.11.004
doiwww.sciencedirect.com
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Domazet-Lošo, Mirjana ; Domazet-Lošo, Tomislav | gmos: Rapid Detection of Genome Mosaicism over Short Evolutionary Distances // PLoS One, 11 (2016), 11; e0166602-1-e0166602-14. doi: 10.1371/journal.pone.0166602
doijournals.plos.org
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Xu, Fei ; Domazet-Lošo, Tomislav ; Fan, Dingding ; Dunwell, Thomas L. ; Li, Li ; Fang, Xiaodong ; Zhang, Guofan ; | High expression of new genes in trochophore enlightening the ontogeny and evolution of trochozoans // Scientific reports, 6 (2016), 34664-1-34664-10. doi: 10.1038/srep34664
doiwww.nature.com
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Fuchs, Björn ; Wang, Wei ; Graspeuntner, Simon ; Li, Yizhu ; Insua, Santiago ; Herbst, Eva- Maria ; Dirksen, Philipp ; Böhm, Anna-Marei ; Hemmrich, Georg ; Sommer, Felix et al. | Regulation of Polyp-to-Jellyfish Transition in Aurelia aurita // Current biology, 24 (2014), 3; 263-273. doi: 10.1016/j.cub.2013.12.003
doiwww.sciencedirect.com
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C. G. Bosch, Thomas ; Adamska, Maja ; Augustin, René ; Domazet- Lošo, Tomislav ; Foret, Sylvain ; Fraune, Sebastian ; Funayama, Noriko ; Grasis, Juris ; Hamada, Mayuko ; Hatta, Masayuki et al. | How do environmental factors influence life cycles and development? An experimental framework for early-diverging metazoans // Bioessays, 36 (2014), 12; 1185-1194. doi: 10.1002/bies.201400065
doionlinelibrary.wiley.com
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Šestak, Marin Sebastian ; Domazet-Lošo, Tomislav | Phylostratigraphic Profiles in Zebrafish Uncover Chordate Origins of the Vertebrate Brain // Molecular biology and evolution, 32 (2015), 2; 299-312. doi: 10.1093/molbev/msu319
doimbe.oxfordjournals.org
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Domazet-Lošo, Tomislav ; Klimovich, Alexander ; Anokhin, Borsi ; Anton-Erxleben, Friederike ; Hamm, Maillin J. ; Lange, Christina ; Bosch, Thomas C.G. | Naturally occurring tumours in the basal metazoan Hydra // Nature communications, 5 (2014), 4222-4230. doi: 10.1038/ncomms5222
doiwww.nature.com
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Šestak, Martin Sebastijan ; Božičević, Vedran ; Bakarić, Robert ; Dunjko, Vedran ; Domazet-Lošo, Tomislav | Phylostratigraphic profiles reveal a deep evolutionary history of the vertebrate head sensory systems // Frontiers in Zoology, 10 (2013), 18-18. doi: 10.1186/1742-9994-10-18
doifrontiersinzoology.biomedcentral.comfrontiersinzoology.biomedcentral.com
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de Mendoza, A. ; Sebé-Pedrós, A. ; Šestak, Martin Sebastijan ; Matejčić, Marija ; Torruella, G. ; Domazet-Lošo, Tomislav ; Ruiz-Trillo, I. | Transcription factor evolution in eukaryotes and the assembly of the regulatory toolkit in multicellular lineages // Proceedings of the National Academy of Sciences of the United States of America, 110 (2013), 50; E4858-E4566. doi: 10.1073/pnas.1311818110
doiwww.pnas.org
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Zhang G. ; Fang X. ; Guo X. ; Li, L. ; Luo, R. ; Xu, F. ; Yang, P. ; Zhang, L. ; Wang, X. ; Qi, H. et al. | The oyster genome reveals stress adaptation and complexity of shell formation // Nature, 490 (2012), 7418; 49-54. doi: 10.1038/nature11413
doiwww.nature.com
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Hemmrich, G. ; Khalturin, K. ; Boehm, A.M. ; Puchert, M. ; Anton-Erxleben, F. ; Wittlieb, J. ; Klostermeier, U.C. ; Rosenstiel, P. ; Oberg H.H. ; Domazet-Lošo, Tomislav et al. | Molecular signatures of the three stem cell lineages in hydra and the emergence of stem cell function at the base of multicellularity // Molecular biology and evolution, 29 (2012), 11; 3267-3280. doi: 10.1093/molbev/mss134
doimbe.oxfordjournals.org
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Franzenburg, S. ; Fraune, S. ; Künzel, S. ; Baines, J.F. ; Domazet-Lošo, Tomislav ; Bosch, T.C.G. | MyD88-deficient Hydra reveal an ancient function of TLR signaling in sensingbacterial colonizers. // Proceedings of the National Academy of Sciences of the United States of America, 109 (2012), 47; 19374-19379. doi: 10.1073/pnas.1213110109
doiwww.pnas.orgdoi.org
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Diethard, Tautz ; Domazet-Lošo, Tomislav | The evolutionary origin of orphan genes // Nature reviews genetics, 12 (2011), 10; 692-702. doi: 10.1038/nrg3053
doiwww.nature.com
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Domazet-Lošo, Tomislav ; Tautz Diethard | Phylostratigraphic tracking of cancer genes suggests a link to the emergence of multicellularity in metazoa // BMC biology, 8 (2010), 66-66. doi: 10.1186/1741-7007-8-66
doiwww.biomedcentral.com
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Domazet-Lošo, Tomislav ; Tautz, D. | An Ancient Evolutionary Origin of Genes Associated with Human Genetic Diseases // Molecular biology and evolution, 25 (2008), 12; 2699-2707. doi: 10.1093/molbev/msn214
doidoi.orgmbe.oxfordjournals.org
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Domazet-Lošo, Tomislav ; Brajković, Josip ; Tautz, Diethard | A phylostratigraphy approach to uncover the genomic history of major adaptations in metazoan lineages // Trends in genetics, 23 (2007), 11; 533-539-x
www.sciencedirect.com
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Pozhitkov, Alex ; Noble, Peter ; Domazet-Lošo, Tomislav ; Nolte, Arne ; Staehler, Peer ; Beier, Markus ; Tautz, Diethard | Tests of rRNA hybridization to microarrays suggest that hybridization characteristics of oligonucleotide probes for species discrimination cannot be predicted // Nucleic acids research, 34 (2006), 9; e66 online-x
nar.oxfordjournals.org
Marais, Gabriel ; Domazet-Lošo, Tomislav ; Tautz, Diethard ; Charlesworth, Brian | Correlated evolution of synonymous and nonsynonymous sites in Drosophila // Journal of molecular evolution, 59 (2004), 771-779-x
Domazet-Lošo, Tomislav ; Diethard, Tautz | An Evolutionary Analysis of Orphan Genes in Drosophila // Genome research, 13 (2003), 2213-2219-x
