Izvorni znanstveni rad

• Tautz, Diethard ; Neme, Rafik ; Domazet-Lošo, Tomislav | Evolutionary Origin of Orphan Genes // eLS. | Chichester: John Wiley & Sons, 2013. str. 1-8

  onlinelibrary.wiley.com

• Tautz, Diethard ; Neme, Rafik ; Domazet-Lošo, Tomislav | Evolutionary origin of orphan genes // eLS. | Chichester: John Wiley & Sons, 2013. str. 1-10

  onlinelibrary.wiley.com

Izvorni znanstveni rad

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

• 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

Pismo (znanstveno)

• Domazet-Lošo, Tomislav ; Tautz, Diethard | A phylogenetically based transcriptome age index mirrors ontogenetic divergence patterns // Nature, 468 (2010), 7325; 815-818. doi: 10.1038/nature09632

  doiwww.nature.comdoi.org

Pregledni rad (znanstveni)

• Domazet-Lošo, Tomislav | mRNA Vaccines: Why Is the Biology of Retroposition Ignored? // Genes, 13 (2022), 5; 719, 24. doi: 10.3390/genes13050719

  doiwww.mdpi.comdoi.orgfulir.irb.hr

• McFall-Ngai, Margaret ; Hadfield, Michael G. ; Bosch, Thomas C.G. ; Carey, Hannah V. ; Domazet-Lošo, Tomislav ; ... ; Wernegreen, Jennifer J. | Animals in a bacterial world, a new imperative for the life sciences // Proceedings of the National Academy of Sciences of the United States of America, 110 (2013), 9; 3229-3236. doi: 10.1073/pnas.1218525110

  doiwww.pnas.org

Sažetak izlaganja sa skupa

• Kifer, Domagoj ; Ledinski, Maja ; Čorak, Nina ; Domazet-Lošo, Mirjana ; Lauc, Gordan ; Klobučar, Göran ; Domazet-Lošo, Tomislav | Evolutionary origins of the N-glycosylation from the perspective of Homo sapiens genome // Book of Abstracts of the Congress of the Croatian Society of Biochemistry and Molecular Biology HDBMB22: From Science to Knowledge. | Zagreb: Hrvatsko društvo za biokemiju i molekularnu biologiju (HDBMB), 2022. str. 49-49

  congress2022.hdbmb.hr

• Čorak, Nina ; Daschkin, Christina ; Krey, Viktoria ; Koska, Sara ; Futo, Momir ; Široki, Tin ; Anniko, Sirli ; Woichansky, Innokenty ; Opašić, Luka ; Kifer, Domagoj et al. | Transkripcijske značajke pleomorfnih varijanti bakterije Borrelia burgdorferi. | 2021. str. 87-88

• Koska, Sara ; Futo, Momir ; Opašić, Luka ; Čorak, Nina ; Široki, Tin ; Ravikumar, Vaishnavi ; Thorsell, Annika ; Kifer, Domagoj ; Domazet-Lošo, Mirjana ; Vlahoviček, Kristian et al. | Korelacija filogenije i ontogenije kod biofilmova vrste Bacillus subtilis. | 2020. str. 37-37

• Domazet-Lošo, Tomislav | Use of orphan genes and protein evolution are shaped by Drosophila development // Second Congress of Croatian Geneticists with international participation - Book of Abstracts. | Zagreb: Hrvatsko genetičko društvo, 2005. str. 43-x

• Domazet-Lošo, Tomislav ; Tautz, Diethard | An evolutionary analysis of orphan genes in Drosophila // 8. Hrvatski biološki kongres - Zbornik sažetaka. | Zagreb: Hrvatsko biološko društvo, 2003. str. 23-x

• Domazet-Lošo, Tomislav ; Diethard, Tautz | An evolutionary analysis of orphan genes in Drosophila // Book of abstracts, 9th Congress of European Society for Evolutionary Biology. | Leeds, 2003. str. 3.5-x

Izvorni znanstveni rad

• Ribarić, Antea; Domazet-Lošo, Tomislav; Domazet-Lošo, Mirjana; | Gene Age Prediction is Robust to False Homology // 48th ICT and Electronics Convention MIPRO 2025 / Skala, Karolj (ur.). | Rijeka: Croatian Society for Information, Communication and Electronic Technology – MIPRO, 2025. str. ---

• Široki, Tin ; Koska, Sara ; Čorak, Nina ; Futo, Momir ; Domazet-Lošo, Tomislav ; Domazet-Lošo, Mirjana | Correspondence analysis applied to large scale Evo-Devo data // 42th International Convention on Information, Communication and Electronic Technology (MIPRO) - proceedings. | Rijeka: Hrvatska udruga za informacijsku i komunikacijsku tehnologiju, elektroniku i mikroelektroniku - MIPRO, 2019. str. 279-282

  ieeexplore.ieee.orgwww.mipro.hr

Sažetak izlaganja sa skupa

• Futo, Momir ; Opašić, Luka ; Koska, Sara ; Čorak, Nina ; Široki, Tin ; Ravikumar, Vaishnavi ; Thorsell, Annika ; Kifer, Domagoj ; Domazet­ - Lošo, Mirjana ; Vlahoviček, Kristian et al. | Phylogeny­-Ontogeny Correlations: Lessons From Microbial Biofilms // FEBS Open Bio, 2021. str. 12-12

  febs.onlinelibrary.wiley.com

• Kifer, Domagoj ; Ledinski, Maja ; Domazet-Lošo, Mirjana ; Lauc, Gordan ; Klobučar, Göran ; Domazet-Lošo, Tomislav | Macroevolutionary reconstruction of glycosylation from the perspective of homo sapiens genome // Glycoconjugate journal, 2019. str. 331-332. doi: 10.1007/s10719-019-09880-4

  doilink.springer.com

Neobjavljeni prilog sa skupa

• Kifer, Domagoj ; Ledinski, Maja ; Čorak, Nina ; Domazet-Lošo, Mirjana ; Lauc, Gordan ; Klobučar, Göran ; Domazet-Lošo, Tomislav | Evolutionary origins of the N-glycosylation from the perspective of Homo sapiens genome // 4TH MEETING OF THE HUMAN GLYCOME PROJECT | Split, Hrvatska, 04.06.2023-07.06.2023

Doktorski rad

• Koska, Sara | Phylogeny-ontogeny correspondence in Bacillus subtilis biofilms / Domazet-Lošo, Tomislav (mentor). | Zagreb, Prirodoslovno-matematički fakultet, Zagreb, 2022

  fulir.irb.hrrepozitorij.pmf.unizg.hr

• Čorak, Nina | Differential expression and evolutionary signatures of Borrelia burgdorferi morphotypes / Domazet-Lošo, Tomislav (mentor). | Zagreb, 2022

  fulir.irb.hr

• Šestak, Martin Sebastijan | Phylostratigraphic analysis of the macroevolutionary history of organ systems in animals / Domazet-Lošo, Tomislav (mentor). | Zagreb, Prirodoslovno-matematički fakultet, Zagreb, 2013

• Domazet-Lošo, Tomislav | Evolution of orphan genes in Drosophila / Tautz, Diethard (mentor). | Köln, 2003

Diplomski rad (sveučilišni)

• Pešut, Mate | Utjecaj prisutnosti specifičnih i jasnih informacija o riziku na rizično ponašanje: uloga spola / Domazet-Lošo, Tomislav ; Glavaš, Dragan (mentor). | Zagreb, Hrvatsko katoličko sveučilište, 2022

• Zec, Mate | Phylostratigraphic Analysis of Eusocial Hymenoptera / Domazet-Lošo, Tomislav (mentor); Franjević, Damjan (neposredni voditelj) . | Zagreb, Prirodoslovno-matematički fakultet, Zagreb, 2013

• Jasek, Sanja | Evolution of Oxidative Phosphorylation / Domazet-Lošo, Tomislav (mentor); Brčić-Kostić, Krunoslav ; Franjević, Damjan (neposredni voditelj) . | Zagreb, Prirodoslovno-matematički fakultet, Zagreb, 2012

Ostali članci/prilozi

• 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, 8, 1: Springer Science and Business Media LLC, 2025. 265. doi: 10.1038/s42003-025-07712-w

  doiwww.nature.comwww.nature.com