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Katarina Petra Van Midden

Osebna bibliografija za obdobje 2018-2025

2018

1. VAN MIDDEN, Katarina Petra. Priprava vzorcev za identifikacijo interakcijskih partnerjev proteina FUS : diplomsko delo : univerzitetni študijski program 1. stopnje Biokemija. Ljubljana: [K. P. van Midden], 2018. 67 str., ilustr. [COBISS.SI-ID 1537983171]

2020

2. VAN MIDDEN, Katarina Petra, BRATINA, Aljaž, GABER, Aljaž, LENARČIČ, Brigita. Analiza cepitve proteina EpCAM z disintegrinsko metaloproteazo TACE in vitro. V: BAVEC, Aljoša (ur.), et al. BIOmolekularec.si : Dan biomolekularnih znanosti : zbornik povzetkov : Ljubljana, 24. september 2020 : [spletna izvedba dogodka]. Ljubljana: Slovensko biokemijsko društvo, 2020. Str. 49. ISBN 978-961-93879-9-3. http://biomolekularec.splet.arnes.si/files/2020/09/BIOmolekularec_2020-zbornik.pdf. [COBISS.SI-ID 29965315]
3. VAN MIDDEN, Katarina Petra. Optimizacija priprave zunajceličnega dela disintegrinske metaloproteaze TACE in analiza cepitve proteina EpCAM in vitro : magistrsko delo. Ljubljana: [K. P. van Midden], 2020. 94 str., ilustr. Repozitorij Univerze v Ljubljani – RUL. [COBISS.SI-ID 26524931]

2021

4. VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Activity-based protein profiling reveals evidence for the involvement of papain-like cysteine proteases during regulated cell death in Chlamydomonas reinhardtii. V: Postgraduate chemical sciences 2021 : international conference : PRECISE2021 : book of abstracts : May 21, 2021. Ljubljana: Univerza v Ljubljani, Fakulteta za kemijo in kemijsko tehnologijo, 2021. Str. 11. https://www.fkkt.uni-lj.si/fizkem/PRECISE2021_Book_of_Abstracts.pdf. [COBISS.SI-ID 70247939]
5. KOKOT, Boštjan, KOKOT, Hana, UMEK, Polona, VAN MIDDEN, Katarina Petra, PAJK, Stane, ZORC, Maja, EGGELING, Christian, KOKLIČ, Tilen, URBANČIČ, Iztok, ŠTRANCAR, Janez. Controlled fluorescent labelling of metal oxide nanoparticles for artefact-free live cell microscopy. bioRxiv : the preprint server for biology. 2021, 33 str. ISSN 2692-8205. DOI: 10.1101/2021.04.19.440400. [COBISS.SI-ID 61845763]
6. OLETIČ, Michelle, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Expression and purification of mutated versions of antitoxin 1067 from cyanobacteria Microcystis aeruginosa PCC 7806. V: HORVAT ZAGOREC, Monika (ur.), et al. Cutting Edge 2021 : scientific conference for young researchers : independent in science : Thursday, 16. 09. 21, virtual conference : book of abstracts. Ljubljana: Fakulteta za kemijo in kemijsko tehnologijo, 2021. Str. 73, ilustr. ISBN 978-961-7078-21-3. [COBISS.SI-ID 77696259]
7. KOKOT, Boštjan, KOKOT, Hana, UMEK, Polona, VAN MIDDEN, Katarina Petra, PAJK, Stane, ZORC, Maja, EGGELING, Christian, KOKLIČ, Tilen, URBANČIČ, Iztok, ŠTRANCAR, Janez. How to control fluorescent labeling of metal oxide nanoparticles for artefact-free live cell microscopy. Nanotoxicology. 2021, vol. 15, no. 8, str. 1102-1123. ISSN 1743-5404. Digitalna knjižnica Univerze v Mariboru – DKUM, DOI: 10.1080/17435390.2021.1973607. [COBISS.SI-ID 79746819]
8. MOTALN, Helena, MILEK, Miha, VAN MIDDEN, Katarina Petra, ROGELJ, Boris. Interactomes of wt and C-terminally truncated FUS : presented at FEBS 2021, 45th FEBS Congress, 3-8 July 2021, Ljubljana, Slovenia. FEBS open bio. 2021, vol. 11, suppl. s1, 1 str. ISSN 2211-5463. https://www.2021.febscongress.org/abstract_preview.aspx?idAbstractEnc=4424170095092091097096424170. [COBISS.SI-ID 161821443]
9. VAN MIDDEN, Katarina Petra, LENARČIČ, Brigita, GABER, Aljaž. Optimized expression and purification of the ectodomain of the disintegrin metalloprotease ADAM17 and the design of a cleavage assay for EpCAM. V: Molecules of life : towards new horizons : FEBS 2021 : the 45th FEBS Congress : 3-8 July 2021, Ljubljana, Slovenia : virtual : abstracts. [S. l.]: Federation of European Biochemical Societies. 2021, str. [1]. https://2021.febscongress.org/abstract_preview.aspx?idAbstractEnc=4424170094100096091098424170. [COBISS.SI-ID 70242051]
10. VAN MIDDEN, Katarina Petra, PERIC, Tanja, KLEMENČIČ, Marina. Plant type I metacaspases are proteolytically active proteases despite their hydrophobic nature. FEBS letters. Sep. 2021, vol. 595, iss. 17, str. 2237-2247, ilustr. ISSN 1873-3468. https://febs.onlinelibrary.wiley.com/doi/10.1002/1873-3468.14165, DOI: 10.1002/1873-3468.14165. [COBISS.SI-ID 73872387]
11. VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Regulated cell death is accompanied by metacaspase-like proteolysis in unicellular eukaryotes : [lecture]. V: 38th Winter School on proteinases and their inhibitors : February 24-26, 2021, virtual : abstracts. [S. l.: s. n.], 2021. Str. 45. [COBISS.SI-ID 98486275]
12. MOTALN, Helena, MILEK, Marija, VAN MIDDEN, Katarina Petra, ROGELJ, Boris. Study of wt and C-terminally truncated FUS interactions. V: ENCALS virtual Meeting 2021, 12th to Friday 14th of May. Str. 182. https://www.encals.eu/wp-content/uploads/2019/05/ENCALS-2021_ABSTRACT-BOOK.pdf. [COBISS.SI-ID 66214403]

2022

13. ŠTILEC, Vida, VAN MIDDEN, Katarina Petra, KRAHN, Daniel, MORIMOTO, Kyoko, NOVINEC, Marko, FUNK, Christiane, STAEL, Simon, SCHOFIELD, Christopher, KLEMENČIČ, Marina, HOORN, Ranier van der Hoorn. Activity-based probes trap early active intermediates during metacaspase activation. iScience. [Online ed.]. 18 Nov. 2022, vol. 25, iss. 11, [article no.] 105247, str. 1-18, ilustr. ISSN 2589-0042. https://www.sciencedirect.com/science/article/pii/S258900422201519X, DOI: 10.1016/j.isci.2022.105247. [COBISS.SI-ID 124043779]
14. ŠTILEC, Vida, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina, FUNK, Christiane. Expression and purification of the type I metacaspase from a cryptophyte Guillardia theta, GtMCA-I. V: KLEMENČIČ, Marina (ur.), STAEL, Simon (ur.), HUESGEN, Pitter F. (ur.). Plant proteases and plant cell death : methods and protocols. New York: Humana Press: Springer, cop. 2022. Str. 1-11, ilustr. Methods in molecular biology (Clifton, N.J. Online), vol. 2447. ISBN 978-1-0716-2079-3. ISSN 1940-6029. https://link.springer.com/protocol/10.1007/978-1-0716-2079-3_1, DOI: 10.1007/978-1-0716-2079-3_1. [COBISS.SI-ID 108789763]
15. BOŽIČ, Tinkara, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Expression of recombinant CEP2 protease from the green alga Chlamydomonas reinhardtii and its activation in bacteria Escherichia coli. V: BAEBLER, Špela (ur.), et al. Plants in Changing Environment : International Conference of the Slovenian Society of Plant Biology : Biotechnical Faculty, University of Ljubljana, September 15-16, 2022, Ljubljana, Slovenia : [book of abstracts]. 1st electronic ed. Ljubljana: Slovenian Society of Plant Biology, 2022. Str. 29. ISBN 978-961-91014-5-2. https://www.plantslo.org/wp/wp-content/uploads/2022/09/PlantsInChangingEnvironment22AbstractBook.pdf. [COBISS.SI-ID 122044931]
16. BOŽIČ, Tinkara, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Izražanje proteaze CEP2 iz zelene alge Chlamydomonas reinhardtii v bakterijskih celicah Escherichia coli in njena aktivacija. V: BAVEC, Aljoša (ur.), et al. BIOmolekularec.si : dan biomolekularnih znanosti : zbornik povzetkov : Ljubljana, 29. september 2022. Ljubljana: Slovensko biokemijsko društvo, 2022. Str. 39. ISBN 978-961-95941-0-0. http://biomolekularec.splet.arnes.si/files/2022/09/BIOmolekularec_2022-zbornik.pdf. [COBISS.SI-ID 122411779]
17. VAN MIDDEN, Katarina Petra, HOORN, Ranier van der Hoorn, KLEMENČIČ, Marina. Molecular and functional analysis of Chlamydomonas metacaspases during oxidative stress : [oral presentation]. V: Dying in self-defense : cell death signaling in animals and plants : EMBO Workshop : 1-5 May 2022, Crete, Greece. [Heidelberg]: EMBO, 2022. Str. 50. [COBISS.SI-ID 108370179]
18. VAN MIDDEN, Katarina Petra, HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Molecular and functional characterization of Chlamydomonas metacaspases : [oral presentation]. V: Plant Proteases : [from structure to function in mechanisms of life and death]. 5th Conference on Plant Proteases, 6th-8th September 2022, University of Ljubljana, Slovenia. [Ljubljana: Faculty of Chemistry and Chemical Technology, 2022]. Str. 19. [COBISS.SI-ID 145082115]
19. VAN MIDDEN, Katarina Petra, HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Molecular characterization of Chlamydomonas metacaspases and their detection by activity-based protein profiling. V: BAEBLER, Špela (ur.), et al. Plants in Changing Environment : International Conference of the Slovenian Society of Plant Biology : Biotechnical Faculty, University of Ljubljana, September 15-16, 2022, Ljubljana, Slovenia : [book of abstracts]. 1st electronic ed. Ljubljana: Slovenian Society of Plant Biology, 2022. Str. 32. ISBN 978-961-91014-5-2. https://www.plantslo.org/wp/wp-content/uploads/2022/09/PlantsInChangingEnvironment22AbstractBook.pdf. [COBISS.SI-ID 145061635]
20. VOGRINEC, Lana, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina. Povezave med strukturo in funkcijo metakaspaz CrMCA-I in CrMCA-II iz alge Chlamydomonas reinhardtii. V: BAVEC, Aljoša (ur.), et al. BIOmolekularec.si : dan biomolekularnih znanosti : zbornik povzetkov : Ljubljana, 29. september 2022. Ljubljana: Slovensko biokemijsko društvo, 2022. Str. 17. ISBN 978-961-95941-0-0. http://biomolekularec.splet.arnes.si/files/2022/09/BIOmolekularec_2022-zbornik.pdf. [COBISS.SI-ID 123952899]
21. MOTALN, Helena, MILEK, Miha, VAN MIDDEN, Katarina Petra, ROGELJ, Boris. Transplantation of stem cells in animal model of stroke reduces cell death. V: Inflammation and proteinopathy in ALS FTD spectrum disorder : joint ICGEB and ALS Society of Canada Symposium, June 30 - July 03, 2022, Rijeka, Croatia : abstract book. Rijeka: Department of Biotechnology, University of Rijeka. Str. 36. http://www.optineurin-neuroimmunology.uniri.hr/files/PDF/ABSTRACT_BOOK-final.pdf. [COBISS.SI-ID 131489027]

2023

22. RUIZ-SOLANÍ, Nerea, SALGUERO-LINARES, Jose, ARMENGOT, Laia, SANTOS, Jaime, PALLARÈS, Irantzu, VAN MIDDEN, Katarina Petra, PHUKKAN, Ujjal J., KOYUNCU, Seda, BORRÀS-BISA, Júlia, LI, Liang, KLEMENČIČ, Marina, et al. Arabidopsis metacaspase MC1 localizes in stress granules, clears protein aggregates and delays senescence. The Plant cell. [Tiskana izd.]. Sep. 2023, vol. 35, iss. 9, str. 3325-3344, ilustr. ISSN 1040-4651. https://academic.oup.com/plcell/advance-article/doi/10.1093/plcell/koad172/7208185, Repozitorij Univerze v Ljubljani – RUL, DOI: 10.1093/plcell/koad172. [COBISS.SI-ID 157990915]
23. VAN MIDDEN, Katarina Petra, MANTZ, Melissa, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. CEP1, a papain-like cysteine protease from Chlamydomonas reinhardtii with transpeptidase activity : [oral presentation]. V: Second annual meeting of the ProteoCure COST Action : Zagreb, June 12-15, 2023. [S. l.: s. n.], 2023. Str. 32. [COBISS.SI-ID 158000899]
24. KOPAČ, Tilen, BOČEK, Žan, VAN MIDDEN, Katarina Petra, KLEMENČIČ, Marina, RUČIGAJ, Aleš. Encapsulation of living photosynthetic organisms in alginate-gelatin hydrogels for controlled cell growth and oxygen production. Biochemical engineering journal. [Print ed.]. Oct. 2023, vol. 199, [article no.] 109070, str. 1-10, ilustr. ISSN 1369-703X. https://www.sciencedirect.com/science/article/pii/S1369703X23002656, Repozitorij Univerze v Ljubljani – RUL, DOI: 10.1016/j.bej.2023.109070. [COBISS.SI-ID 162521347]
25. VAN MIDDEN, Katarina Petra, MANTZ, Melissa, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Exploring the transpeptidase activity of CEP1, a papain-like cysteine protease from Chlamydomonas reinhardtii : presentation at the Gordon Research Conference on Plant Proteolysis, August 6 - 11, 2023, at Bryant University in Smithfield, Rhode Island, United States. [COBISS.SI-ID 198338563]
26. MOTALN, Helena, MILEK, Miha, VAN MIDDEN, Katarina Petra, ROGELJ, Boris. Interactome of FUS and FUSdNLS. V: SEPČIĆ, Kristina (ur.), PAVŠIČ, Miha (ur.). 15th Meeting of the Slovenian Biochemical Society with International Participation = 15. srečanje Slovenskega biokemijskega društva z mednarodno udeležbo : book of abstracts = zbornik povzetkov : Portorož, 20-23 September 2023 = [20.–23. september 2023, Portorož, Slovenija]. Ljubljana: Slovenian Biochemical Society: = Slovensko biokemijsko društvo, 2023. Str. 66. ISBN 978-961-95941-1-7. https://portoroz2023.sbd.si/upload/docs/SBD2023_Portoroz-Book_of_Abstracts.pdf. [COBISS.SI-ID 165917187]
27. MOTALN, Helena, MILEK, Miha, VAN MIDDEN, Katarina Petra, ROGELJ, Boris. Interactomes of wt and C-terminally truncated FUS. V: ENCALS meeting 2023 : European Network to Cure ALS : abstracts : Barcelona, Spain, 11th-14th July. Barcelona: [S. n.], 2023. Str. 78. https://www.encals.eu/wp-content/uploads/2023/07/Posters_0607_design.pdf. [COBISS.SI-ID 161813763]
28. GODEC, Tim, BLEKER, Carissa, RAMŠAK, Živa, HORVAT, Milena, KERENČIČ, Maruša, ELERŠEK, Tina, VAN MIDDEN, Katarina Petra, KOSJEK, Tina, SEPČIĆ, Kristina, ŽUPANIČ, Anže. Mechanisms of chemical toxicity inferred by functional genomics approaches in Chlamydomonas reinhardtii. V: SEPČIĆ, Kristina (ur.), PAVŠIČ, Miha (ur.). 15th Meeting of the Slovenian Biochemical Society with International Participation = 15. srečanje Slovenskega biokemijskega društva z mednarodno udeležbo : book of abstracts = zbornik povzetkov : Portorož, 20-23 September 2023 = [20.–23. september 2023, Portorož, Slovenija]. Ljubljana: Slovenian Biochemical Society: = Slovensko biokemijsko društvo, 2023. Str. 92. ISBN 978-961-95941-1-7. https://portoroz2023.sbd.si/upload/docs/SBD2023_Portoroz-Book_of_Abstracts.pdf. [COBISS.SI-ID 166510851]
29. ŽUPANIČ, Anže, GODEC, Tim, RAMŠAK, Živa, BLEKER, Carissa, ZAGORŠČAK, Maja, KERENČIČ, Maruša, KLEMENČIČ, Marina, ELERŠEK, Tina, VAN MIDDEN, Katarina Petra. Novel genomic markers of susceptibility to paraquat, diuron, and atrazine in Chlamydomonas reinhardtii. V: Data-driven environmental decision-making : abstract book : SETAC Europe 33rd Annual Meeting : 30 April - 4 May 2023, Dublin, Ireland + online. SETAC Europe 33rd Annual Meeting, Data-driven environmental decision-making , 30 April - 4 May 2023, Dublin, Ireland. Brussels; Pensacola: Society of Environmental Toxicology and Chemistry Europe, cop. 2023. Str. 152. SETAC Europe, 2310-3043. https://europe2023.setac.org/wp-content/uploads/2023/04/Abstract-Book-Final2.pdf. [COBISS.SI-ID 153517315]
30. CERKOVNIK, Janez, GODEC, Andrej (avtor, urednik, fotograf), IMPERL, Jernej, KALČÍKOVÁ, Gabriela, KISILAK, Marija, KRIVEC, Marko, VAN MIDDEN, Katarina Petra, POČKAJ, Marta, PUTAR, Ula, SKALAR, Tina, ŽGAJNAR GOTVAJN, Andreja. Poletna šola kemijskih znanosti 2023 : 26.6.2023 – 30.6.2023 : zbornik prispevkov. Ljubljana: Založba UL FKKT, 2023. 1 USB ključ, ilustr. ISBN 978-961-7078-39-8. [COBISS.SI-ID 161286403]

2024

31. VAN MIDDEN, Katarina Petra, MANTZ, Melissa, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. The dual endo- and transpeptidase activity of CrCEP1 enables the N-terminal modification of photosystem II proteins in extracts of Chlamydomonas reinhardtii. V: PP2024 : 6th International Conference on Plant Proteases : University of Hohenheim, Stuttgart, September 3-5, 2024. Stuttgart: University of Hohenheim, 2024. Str. 33. [COBISS.SI-ID 213781763]
32. VAN MIDDEN, Katarina Petra, MANTZ, Melissa, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Mechanistic insights into CrCEP1 - a dual-function endo- and transpeptidase : poster presentation at Protein Termini 2024, Oxford, UK, 8-11 September 2024. [COBISS.SI-ID 214788867]
33. VAN MIDDEN, Katarina Petra, MANTZ, Melissa, FONOVIĆ, Marko, GAZVODA, Martin, SVETE, Jurij, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Mechanistic insights into CrCEP1 : a dual-function cysteine protease with endo- and transpeptidase activity. International journal of biological macromolecules. [Print ed.]. Jun. 2024, vol. 271, pt. 1, [article no.] 132505, str. 1-15, ilustr. ISSN 0141-8130. https://www.sciencedirect.com/science/article/pii/S0141813024033105, Repozitorij Univerze v Ljubljani – RUL, DOI: 10.1016/j.ijbiomac.2024.132505. [COBISS.SI-ID 197196291]
34. VAN MIDDEN, Katarina Petra. Molecular mechanisms of stress-associated cysteine proteases of the green alga Chlamydomonas reinhardtii = Molekularni mehanizmi s stresom povezanih cisteinskih proteaz zelene alge Chlamydomonas reinhardtii : doctoral dissertation. Ljubljana: [K. P. van Midden], 2024. XIII, 179 f., ilustr. Repozitorij Univerze v Ljubljani – RUL. [COBISS.SI-ID 219280643]
35. VAN MIDDEN, Katarina Petra, HUESGEN, Pitter F., HOORN, Renier A. L. van der, KLEMENČIČ, Marina. Raziskovanje transpeptidazne aktivnosti papainu-podobne cisteinske proteaze CrCEP1 iz zelene alge Chlamydomonas reinhardtii. V: KUŠAR, Darja (ur.), JAMNIKAR CIGLENEČKI, Urška (ur.). 9. kongres Slovenskega mikrobiološkega društva : knjiga povzetkov : 14.–16. februar 2024. Ljubljana: Slovensko mikrobiološko društvo, 2024. Str. 129. ISBN 978-961-96562-0-4. http://knjiznica.vf.uni-lj.si/PortalGenerator/Document.aspx?id=420. [COBISS.SI-ID 198316291]
36. VAN MIDDEN, Katarina Petra. Transpeptidase CrCEP1 modifies the N-termini of PsbO, PsbP and PsbQ components of the photosystem’s oxygen-evolving complex in vitro : [lecture]. V: YRSPP : Utrecht, 2024. [S. l.: s. n., 2024]. Str. 38. [COBISS.SI-ID 213842947]

2025

37. BAHOR, Manca, GROŠELJ, Lena, CIBER, Luka, GROŠELJ, Uroš, VAN MIDDEN, Katarina Petra, PETEK, Nejc, ŠTEFANE, Bogdan, NOVINEC, Marko, SVETE, Jurij. Application of (aza)quinolizinyl-3-diazonium tetrafluoroborates in photocatalytic sulfanylation and in fluorescent labeling of proteins. Bioorganic chemistry. Aug. 2025, vol. 163, [article no.] 108686, str. 1-17, ilustr. ISSN 0045-2068. https://www.sciencedirect.com/science/article/pii/S0045206825005668, Repozitorij Univerze v Ljubljani – RUL, DOI: 10.1016/j.bioorg.2025.108686. [COBISS.SI-ID 240849155]
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