[{"month":"01","title":"Single-molecule localization microscopy of presynaptic active zones in Drosophila melanogaster after rapid cryofixation","ddc":["570"],"article_number":"2128","article_type":"original","author":[{"last_name":"Mrestani","first_name":"Achmed","full_name":"Mrestani, Achmed"},{"id":"39302e62-fcfc-11ec-8196-8b01447dbd3d","full_name":"Lichter, Katharina","orcid":"0000-0002-1485-0351","last_name":"Lichter","first_name":"Katharina"},{"full_name":"Sirén, Anna Leena","last_name":"Sirén","first_name":"Anna Leena"},{"full_name":"Heckmann, Manfred","first_name":"Manfred","last_name":"Heckmann"},{"first_name":"Mila M.","last_name":"Paul","full_name":"Paul, Mila M."},{"last_name":"Pauli","first_name":"Martin","full_name":"Pauli, Martin"}],"doi":"10.3390/ijms24032128","year":"2023","day":"21","scopus_import":"1","quality_controlled":"1","status":"public","oa":1,"file":[{"success":1,"file_name":"2023_IJMS_Mrestani.pdf","content_type":"application/pdf","date_created":"2023-02-20T07:09:27Z","file_id":"12569","checksum":"69a35dcd3e0249f902ab881b06ee2e58","file_size":2823025,"creator":"dernst","access_level":"open_access","date_updated":"2023-02-20T07:09:27Z","relation":"main_file"}],"type":"journal_article","abstract":[{"text":"Single-molecule localization microscopy (SMLM) greatly advances structural studies of diverse biological tissues. For example, presynaptic active zone (AZ) nanotopology is resolved in increasing detail. Immunofluorescence imaging of AZ proteins usually relies on epitope preservation using aldehyde-based immunocompetent fixation. Cryofixation techniques, such as high-pressure freezing (HPF) and freeze substitution (FS), are widely used for ultrastructural studies of presynaptic architecture in electron microscopy (EM). HPF/FS demonstrated nearer-to-native preservation of AZ ultrastructure, e.g., by facilitating single filamentous structures. Here, we present a protocol combining the advantages of HPF/FS and direct stochastic optical reconstruction microscopy (dSTORM) to quantify nanotopology of the AZ scaffold protein Bruchpilot (Brp) at neuromuscular junctions (NMJs) of Drosophila melanogaster. Using this standardized model, we tested for preservation of Brp clusters in different FS protocols compared to classical aldehyde fixation. In HPF/FS samples, presynaptic boutons were structurally well preserved with ~22% smaller Brp clusters that allowed quantification of subcluster topology. In summary, we established a standardized near-to-native preparation and immunohistochemistry protocol for SMLM analyses of AZ protein clusters in a defined model synapse. Our protocol could be adapted to study protein arrangements at single-molecule resolution in other intact tissue preparations.","lang":"eng"}],"date_created":"2023-02-19T23:00:56Z","date_updated":"2025-04-23T08:48:27Z","article_processing_charge":"No","_id":"12567","issue":"3","language":[{"iso":"eng"}],"has_accepted_license":"1","external_id":{"pmid":["36768451"],"isi":["000930324700001"]},"citation":{"ieee":"A. Mrestani, K. Lichter, A. L. Sirén, M. Heckmann, M. M. Paul, and M. Pauli, “Single-molecule localization microscopy of presynaptic active zones in Drosophila melanogaster after rapid cryofixation,” <i>International Journal of Molecular Sciences</i>, vol. 24, no. 3. MDPI, 2023.","chicago":"Mrestani, Achmed, Katharina Lichter, Anna Leena Sirén, Manfred Heckmann, Mila M. Paul, and Martin Pauli. “Single-Molecule Localization Microscopy of Presynaptic Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” <i>International Journal of Molecular Sciences</i>. MDPI, 2023. <a href=\"https://doi.org/10.3390/ijms24032128\">https://doi.org/10.3390/ijms24032128</a>.","apa":"Mrestani, A., Lichter, K., Sirén, A. L., Heckmann, M., Paul, M. M., &#38; Pauli, M. (2023). Single-molecule localization microscopy of presynaptic active zones in Drosophila melanogaster after rapid cryofixation. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms24032128\">https://doi.org/10.3390/ijms24032128</a>","short":"A. Mrestani, K. Lichter, A.L. Sirén, M. Heckmann, M.M. Paul, M. Pauli, International Journal of Molecular Sciences 24 (2023).","ista":"Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. 2023. Single-molecule localization microscopy of presynaptic active zones in Drosophila melanogaster after rapid cryofixation. International Journal of Molecular Sciences. 24(3), 2128.","mla":"Mrestani, Achmed, et al. “Single-Molecule Localization Microscopy of Presynaptic Active Zones in Drosophila Melanogaster after Rapid Cryofixation.” <i>International Journal of Molecular Sciences</i>, vol. 24, no. 3, 2128, MDPI, 2023, doi:<a href=\"https://doi.org/10.3390/ijms24032128\">10.3390/ijms24032128</a>.","ama":"Mrestani A, Lichter K, Sirén AL, Heckmann M, Paul MM, Pauli M. Single-molecule localization microscopy of presynaptic active zones in Drosophila melanogaster after rapid cryofixation. <i>International Journal of Molecular Sciences</i>. 2023;24(3). doi:<a href=\"https://doi.org/10.3390/ijms24032128\">10.3390/ijms24032128</a>"},"publication_identifier":{"eissn":["1422-0067"]},"department":[{"_id":"PeJo"}],"pmid":1,"oa_version":"Published Version","volume":24,"date_published":"2023-01-21T00:00:00Z","publication_status":"published","publisher":"MDPI","acknowledgement":"This work has been supported by funding of the German Research Foundation (Deutsche Forschungsgemeinschaft [DFG], CRC 166, Project B06 to M.H. and A.-L.S., FOR 3004 SYNABS P1 to M.H.) and by the Interdisciplinary Clinical Research Center (IZKF) Würzburg (Z-3/69 to M.M.P., N-229 to M.H. and A.-L.S.). A.M. is funded by the University of Leipzig Clinician Scientist Program.","isi":1,"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"publication":"International Journal of Molecular Sciences","license":"https://creativecommons.org/licenses/by/4.0/","file_date_updated":"2023-02-20T07:09:27Z","intvolume":"        24","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"month":"02","title":"Developing a mathematical model of intracellular Calcium dynamics for evaluating combined anticancer effects of afatinib and RP4010 in esophageal cancer","ddc":["510","576"],"article_number":"1763","article_type":"original","author":[{"full_name":"Chang, Yan","last_name":"Chang","first_name":"Yan"},{"first_name":"Marah","last_name":"Funk","full_name":"Funk, Marah"},{"first_name":"Souvik","last_name":"Roy","full_name":"Roy, Souvik"},{"orcid":"0000-0002-6862-208X","last_name":"Stephenson","first_name":"Elizabeth R","full_name":"Stephenson, Elizabeth R","id":"2D04F932-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Choi","first_name":"Sangyong","full_name":"Choi, Sangyong"},{"first_name":"Hristo V.","last_name":"Kojouharov","full_name":"Kojouharov, Hristo V."},{"full_name":"Chen, Benito","first_name":"Benito","last_name":"Chen"},{"full_name":"Pan, Zui","last_name":"Pan","first_name":"Zui"}],"doi":"10.3390/ijms23031763","year":"2022","day":"01","scopus_import":"1","quality_controlled":"1","status":"public","file":[{"relation":"main_file","access_level":"open_access","creator":"dernst","date_updated":"2022-02-14T07:46:30Z","checksum":"8890ad20c54e90dc58ad5ea97c902998","file_size":24416183,"file_id":"10756","file_name":"2022_IJMS_Chang.pdf","date_created":"2022-02-14T07:46:30Z","content_type":"application/pdf","success":1}],"oa":1,"type":"journal_article","abstract":[{"lang":"eng","text":"Targeting dysregulated Ca2+ signaling in cancer cells is an emerging chemotherapy approach. We previously reported that store-operated Ca2+ entry (SOCE) blockers, such as RP4010, are promising antitumor drugs for esophageal cancer. As a tyrosine kinase inhibitor (TKI), afatinib received FDA approval to be used in targeted therapy for patients with EGFR mutation-positive cancers. While preclinical studies and clinical trials have shown that afatinib has benefits for esophageal cancer patients, it is not known whether a combination of afatinib and RP4010 could achieve better anticancer effects. Since TKI can alter intracellular Ca2+ dynamics through EGFR/phospholipase C-γ pathway, in this study, we evaluated the inhibitory effect of afatinib and RP4010 on intracellular Ca2+ oscillations in KYSE-150, a human esophageal squamous cell carcinoma cell line, using both experimental and mathematical simulations. Our mathematical simulation of Ca2+ oscillations could fit well with experimental data responding to afatinib or RP4010, both separately or in combination. Guided by simulation, we were able to identify a proper ratio of afatinib and RP4010 for combined treatment, and such a combination presented synergistic anticancer-effect evidence by experimental measurement of intracellular Ca2+ and cell proliferation. This intracellular Ca2+ dynamic-based mathematical simulation approach could be useful for a rapid and cost-effective evaluation of combined targeting therapy drugs."}],"date_created":"2022-02-13T23:01:35Z","date_updated":"2025-06-11T13:46:46Z","article_processing_charge":"Yes","_id":"10754","issue":"3","language":[{"iso":"eng"}],"has_accepted_license":"1","external_id":{"isi":["000754773500001"],"pmid":["35163685"]},"publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"citation":{"ieee":"Y. Chang <i>et al.</i>, “Developing a mathematical model of intracellular Calcium dynamics for evaluating combined anticancer effects of afatinib and RP4010 in esophageal cancer,” <i>International Journal of Molecular Sciences</i>, vol. 23, no. 3. MDPI, 2022.","chicago":"Chang, Yan, Marah Funk, Souvik Roy, Elizabeth R Stephenson, Sangyong Choi, Hristo V. Kojouharov, Benito Chen, and Zui Pan. “Developing a Mathematical Model of Intracellular Calcium Dynamics for Evaluating Combined Anticancer Effects of Afatinib and RP4010 in Esophageal Cancer.” <i>International Journal of Molecular Sciences</i>. MDPI, 2022. <a href=\"https://doi.org/10.3390/ijms23031763\">https://doi.org/10.3390/ijms23031763</a>.","apa":"Chang, Y., Funk, M., Roy, S., Stephenson, E. R., Choi, S., Kojouharov, H. V., … Pan, Z. (2022). Developing a mathematical model of intracellular Calcium dynamics for evaluating combined anticancer effects of afatinib and RP4010 in esophageal cancer. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms23031763\">https://doi.org/10.3390/ijms23031763</a>","ista":"Chang Y, Funk M, Roy S, Stephenson ER, Choi S, Kojouharov HV, Chen B, Pan Z. 2022. Developing a mathematical model of intracellular Calcium dynamics for evaluating combined anticancer effects of afatinib and RP4010 in esophageal cancer. International Journal of Molecular Sciences. 23(3), 1763.","short":"Y. Chang, M. Funk, S. Roy, E.R. Stephenson, S. Choi, H.V. Kojouharov, B. Chen, Z. Pan, International Journal of Molecular Sciences 23 (2022).","mla":"Chang, Yan, et al. “Developing a Mathematical Model of Intracellular Calcium Dynamics for Evaluating Combined Anticancer Effects of Afatinib and RP4010 in Esophageal Cancer.” <i>International Journal of Molecular Sciences</i>, vol. 23, no. 3, 1763, MDPI, 2022, doi:<a href=\"https://doi.org/10.3390/ijms23031763\">10.3390/ijms23031763</a>.","ama":"Chang Y, Funk M, Roy S, et al. Developing a mathematical model of intracellular Calcium dynamics for evaluating combined anticancer effects of afatinib and RP4010 in esophageal cancer. <i>International Journal of Molecular Sciences</i>. 2022;23(3). doi:<a href=\"https://doi.org/10.3390/ijms23031763\">10.3390/ijms23031763</a>"},"department":[{"_id":"HeEd"}],"pmid":1,"oa_version":"Published Version","volume":23,"date_published":"2022-02-01T00:00:00Z","publication_status":"published","publisher":"MDPI","acknowledgement":"This work was partially supported by grants from National Institutes of Health (NIH) (R01 CA185055, S10OD0252300) and The University of Texas System STARs Award (to Z.P.),\r\nThe University of Texas at Arlington Interdisciplinary Research Program (to B.C., H.V.K. and Z.P.). ","isi":1,"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"publication":"International Journal of Molecular Sciences","intvolume":"        23","file_date_updated":"2022-02-14T07:46:30Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"has_accepted_license":"1","language":[{"iso":"eng"}],"external_id":{"pmid":["33917959"],"isi":["000644394800001"]},"pmid":1,"department":[{"_id":"EvBe"}],"publication_identifier":{"eissn":["1422-0067"],"issn":["1661-6596"]},"citation":{"apa":"Ötvös, K., Miskolczi, P., Marhavý, P., Cruz-Ramírez, A., Benková, E., Robert, S., &#38; Bakó, L. (2021). Pickle recruits retinoblastoma related 1 to control lateral root formation in arabidopsis. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22083862\">https://doi.org/10.3390/ijms22083862</a>","ista":"Ötvös K, Miskolczi P, Marhavý P, Cruz-Ramírez A, Benková E, Robert S, Bakó L. 2021. Pickle recruits retinoblastoma related 1 to control lateral root formation in arabidopsis. International Journal of Molecular Sciences. 22(8), 3862.","short":"K. Ötvös, P. Miskolczi, P. Marhavý, A. Cruz-Ramírez, E. Benková, S. Robert, L. Bakó, International Journal of Molecular Sciences 22 (2021).","ama":"Ötvös K, Miskolczi P, Marhavý P, et al. Pickle recruits retinoblastoma related 1 to control lateral root formation in arabidopsis. <i>International Journal of Molecular Sciences</i>. 2021;22(8). doi:<a href=\"https://doi.org/10.3390/ijms22083862\">10.3390/ijms22083862</a>","mla":"Ötvös, Krisztina, et al. “Pickle Recruits Retinoblastoma Related 1 to Control Lateral Root Formation in Arabidopsis.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 8, 3862, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22083862\">10.3390/ijms22083862</a>.","ieee":"K. Ötvös <i>et al.</i>, “Pickle recruits retinoblastoma related 1 to control lateral root formation in arabidopsis,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 8. MDPI, 2021.","chicago":"Ötvös, Krisztina, Pál Miskolczi, Peter Marhavý, Alfredo Cruz-Ramírez, Eva Benková, Stéphanie Robert, and László Bakó. “Pickle Recruits Retinoblastoma Related 1 to Control Lateral Root Formation in Arabidopsis.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22083862\">https://doi.org/10.3390/ijms22083862</a>."},"article_processing_charge":"No","date_updated":"2025-06-12T06:39:41Z","_id":"9332","issue":"8","isi":1,"acknowledgement":"This research was supported by a postdoctoral fellowship of the Carl Tryggers Foundation (to K.Ö.) and by grants from Vetenskapsrådet (Nr.: 621-2004-2921 to L.B.) and VINNOVA (to L.B. and S.R.).\r\nWe thank Frederic Berger, Hidehiro Fukaki, Malcolm Bennett, Claudia Köhler, Jiri Friml for providing pRBR1::RBR1-RFP, ssl2-1, slr-1, pPKL::PKL-GFP seeds and the DR5 expressing vector, respectively. Authors are grateful to Hayashi Kenichiro for providing the auxinol compound and to Rishi Bhalerao for stimulating discussions. The technical help of Adeline Rigal and Thomas Vain with the auxinol experiments is much appreciated.","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"publication":"International Journal of Molecular Sciences","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2021-04-19T10:54:55Z","intvolume":"        22","oa_version":"Published Version","date_published":"2021-04-08T00:00:00Z","volume":22,"publisher":"MDPI","publication_status":"published","article_number":"3862","article_type":"original","year":"2021","doi":"10.3390/ijms22083862","author":[{"full_name":"Ötvös, Krisztina","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","first_name":"Krisztina","last_name":"Ötvös","orcid":"0000-0002-5503-4983"},{"first_name":"Pál","last_name":"Miskolczi","full_name":"Miskolczi, Pál"},{"last_name":"Marhavý","first_name":"Peter","orcid":"0000-0001-5227-5741","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavý, Peter"},{"full_name":"Cruz-Ramírez, Alfredo","last_name":"Cruz-Ramírez","first_name":"Alfredo"},{"first_name":"Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Robert, Stéphanie","first_name":"Stéphanie","last_name":"Robert"},{"first_name":"László","last_name":"Bakó","full_name":"Bakó, László"}],"scopus_import":"1","day":"08","month":"04","title":"Pickle recruits retinoblastoma related 1 to control lateral root formation in arabidopsis","ddc":["570"],"file":[{"file_id":"9342","checksum":"26ada2531ad1f9c01a1664de0431f1fe","file_size":2769717,"creator":"dernst","access_level":"open_access","date_updated":"2021-04-19T10:54:55Z","relation":"main_file","success":1,"file_name":"2021_JourMolecularScience_Oetvoes.pdf","date_created":"2021-04-19T10:54:55Z","content_type":"application/pdf"}],"oa":1,"type":"journal_article","abstract":[{"lang":"eng","text":"Lateral root (LR) formation is an example of a plant post-embryonic organogenesis event. LRs are issued from non-dividing cells entering consecutive steps of formative divisions, proliferation and elongation. The chromatin remodeling protein PICKLE (PKL) negatively regulates auxin-mediated LR formation through a mechanism that is not yet known. Here we show that PKL interacts with RETINOBLASTOMA-RELATED 1 (RBR1) to repress the LATERAL ORGAN BOUNDARIES-DOMAIN 16 (LBD16) promoter activity. Since LBD16 function is required for the formative division of LR founder cells, repression mediated by the PKL–RBR1 complex negatively regulates formative division and LR formation. Inhibition of LR formation by PKL–RBR1 is counteracted by auxin, indicating that, in addition to auxin-mediated transcriptional responses, the fine-tuned process of LR formation is also controlled at the chromatin level in an auxin-signaling dependent manner."}],"date_created":"2021-04-18T22:01:41Z","quality_controlled":"1","status":"public"},{"issue":"16","date_updated":"2025-06-12T06:29:07Z","article_processing_charge":"Yes","_id":"9906","external_id":{"pmid":["34445100"],"isi":["000689147400001"]},"citation":{"chicago":"Yotova, Iveta, Quanah J. Hudson, Florian Pauler, Katharina Proestling, Isabella Haslinger, Lorenz Kuessel, Alexandra Perricos, Heinrich Husslein, and René Wenzl. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22168385\">https://doi.org/10.3390/ijms22168385</a>.","ieee":"I. Yotova <i>et al.</i>, “LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 16. MDPI, 2021.","mla":"Yotova, Iveta, et al. “LINC01133 Inhibits Invasion and Promotes Proliferation in an Endometriosis Epithelial Cell Line.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 16, 8385, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22168385\">10.3390/ijms22168385</a>.","ama":"Yotova I, Hudson QJ, Pauler F, et al. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. <i>International Journal of Molecular Sciences</i>. 2021;22(16). doi:<a href=\"https://doi.org/10.3390/ijms22168385\">10.3390/ijms22168385</a>","ista":"Yotova I, Hudson QJ, Pauler F, Proestling K, Haslinger I, Kuessel L, Perricos A, Husslein H, Wenzl R. 2021. LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. International Journal of Molecular Sciences. 22(16), 8385.","short":"I. Yotova, Q.J. Hudson, F. Pauler, K. Proestling, I. Haslinger, L. Kuessel, A. Perricos, H. Husslein, R. Wenzl, International Journal of Molecular Sciences 22 (2021).","apa":"Yotova, I., Hudson, Q. J., Pauler, F., Proestling, K., Haslinger, I., Kuessel, L., … Wenzl, R. (2021). LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22168385\">https://doi.org/10.3390/ijms22168385</a>"},"publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"department":[{"_id":"SiHi"}],"pmid":1,"language":[{"iso":"eng"}],"has_accepted_license":"1","publication_status":"published","publisher":"MDPI","oa_version":"Published Version","date_published":"2021-08-04T00:00:00Z","volume":22,"publication":"International Journal of Molecular Sciences","intvolume":"        22","file_date_updated":"2021-08-16T09:29:17Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"Open access funding provided by Medical University of Vienna. The authors would like to thank all the participants and health professionals involved in the present study. We want to thank our technical assistants Barbara Widmar and Matthias Witzmann-Stern for their diligent work and constant assistance. We would like to thank Simon Hippenmeyer for access to\r\nbioinformatic infrastructure and resources.","isi":1,"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"ddc":["570"],"month":"08","title":"LINC01133 inhibits invasion and promotes proliferation in an endometriosis epithelial cell line","author":[{"first_name":"Iveta","last_name":"Yotova","full_name":"Yotova, Iveta"},{"first_name":"Quanah J.","last_name":"Hudson","full_name":"Hudson, Quanah J."},{"orcid":"0000-0002-7462-0048","first_name":"Florian","last_name":"Pauler","id":"48EA0138-F248-11E8-B48F-1D18A9856A87","full_name":"Pauler, Florian"},{"first_name":"Katharina","last_name":"Proestling","full_name":"Proestling, Katharina"},{"full_name":"Haslinger, Isabella","last_name":"Haslinger","first_name":"Isabella"},{"full_name":"Kuessel, Lorenz","last_name":"Kuessel","first_name":"Lorenz"},{"last_name":"Perricos","first_name":"Alexandra","full_name":"Perricos, Alexandra"},{"full_name":"Husslein, Heinrich","first_name":"Heinrich","last_name":"Husslein"},{"full_name":"Wenzl, René","first_name":"René","last_name":"Wenzl"}],"year":"2021","doi":"10.3390/ijms22168385","day":"04","scopus_import":"1","article_number":"8385","article_type":"original","quality_controlled":"1","status":"public","abstract":[{"lang":"eng","text":"Endometriosis is a common gynecological disorder characterized by ectopic growth of endometrium outside the uterus and is associated with chronic pain and infertility. We investigated the role of the long intergenic noncoding RNA 01133 (LINC01133) in endometriosis, an lncRNA that has been implicated in several types of cancer. We found that LINC01133 is upregulated in ectopic endometriotic lesions. As expression appeared higher in the epithelial endometrial layer, we performed a siRNA knockdown of LINC01133 in an endometriosis epithelial cell line. Phenotypic assays indicated that LINC01133 may promote proliferation and suppress cellular migration, and affect the cytoskeleton and morphology of the cells. Gene ontology analysis of differentially expressed genes indicated that cell proliferation and migration pathways were affected in line with the observed phenotype. We validated upregulation of p21 and downregulation of Cyclin A at the protein level, which together with the quantification of the DNA content using fluorescence-activated cell sorting (FACS) analysis indicated that the observed effects on cellular proliferation may be due to changes in cell cycle. Further, we found testis-specific protein kinase 1 (TESK1) kinase upregulation corresponding with phosphorylation and inactivation of actin severing protein Cofilin, which could explain changes in the cytoskeleton and cellular migration. These results indicate that endometriosis is associated with LINC01133 upregulation, which may affect pathogenesis via the cellular proliferation and migration pathways."}],"date_created":"2021-08-15T22:01:27Z","file":[{"creator":"asandaue","access_level":"open_access","date_updated":"2021-08-16T09:29:17Z","relation":"main_file","file_id":"9922","checksum":"be7f0042607ca60549cb27513c19c6af","file_size":2646018,"success":1,"file_name":"2021_InternationalJournalOfMolecularSciences_Yotova.pdf","content_type":"application/pdf","date_created":"2021-08-16T09:29:17Z"}],"oa":1,"type":"journal_article"},{"publication_status":"published","publisher":"MDPI","volume":22,"date_published":"2021-08-01T00:00:00Z","ec_funded":1,"oa_version":"Published Version","intvolume":"        22","file_date_updated":"2021-08-16T09:35:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"International Journal of Molecular Sciences","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"acknowledgement":"We thank Daniela Krajˇcíkova, Katarína Muchová, Zuzana Chromíkova and other members of Barák’s laboratory for useful discussions, suggestions and help. Special thanks also to Emília Chovancová for technical support. We are grateful to Juraj Labaj for drawing the model and for help with graphics. Many thanks to all members of Loose’s laboratory: Maria del Mar\r\nLópez, Paulo Caldas, Philipp Radler, and other members of the Loose’s laboratory for sharing their knowledge of SLB preparation and TIRF experiment chambers, for sharing coverslips and for help with the TIRF microscope and data analysis. We also thank the members of the Dept. of Biochemistry of Biomembranes at the Institute of Animal Biochemistry and Genetics, CBs SAS for their help with preparing the lipid mixtures. We thank J. Bauer for critically reading the manuscript.","isi":1,"issue":"15","_id":"9907","date_updated":"2025-07-10T12:02:05Z","article_processing_charge":"Yes","citation":{"chicago":"Labajová, Naďa, Natalia S. Baranova, Miroslav Jurásek, Robert Vácha, Martin Loose, and Imrich Barák. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22158350\">https://doi.org/10.3390/ijms22158350</a>.","ieee":"N. Labajová, N. S. Baranova, M. Jurásek, R. Vácha, M. Loose, and I. Barák, “Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 15. MDPI, 2021.","apa":"Labajová, N., Baranova, N. S., Jurásek, M., Vácha, R., Loose, M., &#38; Barák, I. (2021). Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22158350\">https://doi.org/10.3390/ijms22158350</a>","mla":"Labajová, Naďa, et al. “Cardiolipin-Containing Lipid Membranes Attract the Bacterial Cell Division Protein Diviva.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 15, 8350, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22158350\">10.3390/ijms22158350</a>.","ama":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. <i>International Journal of Molecular Sciences</i>. 2021;22(15). doi:<a href=\"https://doi.org/10.3390/ijms22158350\">10.3390/ijms22158350</a>","short":"N. Labajová, N.S. Baranova, M. Jurásek, R. Vácha, M. Loose, I. Barák, International Journal of Molecular Sciences 22 (2021).","ista":"Labajová N, Baranova NS, Jurásek M, Vácha R, Loose M, Barák I. 2021. Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva. International Journal of Molecular Sciences. 22(15), 8350."},"publication_identifier":{"eissn":["1422-0067"],"issn":["1661-6596"]},"department":[{"_id":"MaLo"}],"pmid":1,"external_id":{"isi":["000681815400001"],"pmid":["34361115"]},"language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","quality_controlled":"1","date_created":"2021-08-15T22:01:27Z","abstract":[{"text":"DivIVA is a protein initially identified as a spatial regulator of cell division in the model organism Bacillus subtilis, but its homologues are present in many other Gram-positive bacteria, including Clostridia species. Besides its role as topological regulator of the Min system during bacterial cell division, DivIVA is involved in chromosome segregation during sporulation, genetic competence, and cell wall synthesis. DivIVA localizes to regions of high membrane curvature, such as the cell poles and cell division site, where it recruits distinct binding partners. Previously, it was suggested that negative curvature sensing is the main mechanism by which DivIVA binds to these specific regions. Here, we show that Clostridioides difficile DivIVA binds preferably to membranes containing negatively charged phospholipids, especially cardiolipin. Strikingly, we observed that upon binding, DivIVA modifies the lipid distribution and induces changes to lipid bilayers containing cardiolipin. Our observations indicate that DivIVA might play a more complex and so far unknown active role during the formation of the cell division septal membrane. ","lang":"eng"}],"type":"journal_article","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"file":[{"success":1,"file_name":"2021_InternationalJournalOfMolecularSciences_Labajová .pdf","date_created":"2021-08-16T09:35:56Z","content_type":"application/pdf","file_id":"9923","checksum":"a4bc06e9a2c803ceff5a91f10b174054","file_size":6132410,"creator":"asandaue","access_level":"open_access","date_updated":"2021-08-16T09:35:56Z","relation":"main_file"}],"oa":1,"ddc":["570"],"title":"Cardiolipin-containing lipid membranes attract the bacterial cell division protein diviva","month":"08","day":"01","scopus_import":"1","author":[{"last_name":"Labajová","first_name":"Naďa","full_name":"Labajová, Naďa"},{"first_name":"Natalia S.","last_name":"Baranova","orcid":"0000-0002-3086-9124","full_name":"Baranova, Natalia S.","id":"38661662-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Jurásek","first_name":"Miroslav","full_name":"Jurásek, Miroslav"},{"full_name":"Vácha, Robert","first_name":"Robert","last_name":"Vácha"},{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","full_name":"Loose, Martin","first_name":"Martin","last_name":"Loose","orcid":"0000-0001-7309-9724"},{"full_name":"Barák, Imrich","last_name":"Barák","first_name":"Imrich"}],"project":[{"_id":"2595697A-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"679239","name":"Self-Organization of the Bacterial Cell"}],"doi":"10.3390/ijms22158350","year":"2021","article_type":"original","article_number":"8350"},{"_id":"9986","date_updated":"2024-10-09T21:00:50Z","article_processing_charge":"Yes","issue":"17","language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"ieee":"S. M. Velasquez <i>et al.</i>, “Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants,” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 17. MDPI, 2021.","chicago":"Velasquez, Silvia Melina, Xiaoyuan Guo, Marçal Gallemi, Bibek Aryal, Peter Venhuizen, Elke Barbez, Kai Alexander Dünser, et al. “Xyloglucan Remodeling Defines Auxin-Dependent Differential Tissue Expansion in Plants.” <i>International Journal of Molecular Sciences</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/ijms22179222\">https://doi.org/10.3390/ijms22179222</a>.","ista":"Velasquez SM, Guo X, Gallemi M, Aryal B, Venhuizen P, Barbez E, Dünser KA, Darino M, Pӗnčík A, Novák O, Kalyna M, Mouille G, Benková E, Bhalerao RP, Mravec J, Kleine-Vehn J. 2021. Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. International Journal of Molecular Sciences. 22(17), 9222.","short":"S.M. Velasquez, X. Guo, M. Gallemi, B. Aryal, P. Venhuizen, E. Barbez, K.A. Dünser, M. Darino, A. Pӗnčík, O. Novák, M. Kalyna, G. Mouille, E. Benková, R.P. Bhalerao, J. Mravec, J. Kleine-Vehn, International Journal of Molecular Sciences 22 (2021).","mla":"Velasquez, Silvia Melina, et al. “Xyloglucan Remodeling Defines Auxin-Dependent Differential Tissue Expansion in Plants.” <i>International Journal of Molecular Sciences</i>, vol. 22, no. 17, 9222, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/ijms22179222\">10.3390/ijms22179222</a>.","ama":"Velasquez SM, Guo X, Gallemi M, et al. Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. <i>International Journal of Molecular Sciences</i>. 2021;22(17). doi:<a href=\"https://doi.org/10.3390/ijms22179222\">10.3390/ijms22179222</a>","apa":"Velasquez, S. M., Guo, X., Gallemi, M., Aryal, B., Venhuizen, P., Barbez, E., … Kleine-Vehn, J. (2021). Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms22179222\">https://doi.org/10.3390/ijms22179222</a>"},"publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"department":[{"_id":"EvBe"}],"pmid":1,"external_id":{"isi":["000694347100001"],"pmid":["34502129"]},"date_published":"2021-08-26T00:00:00Z","volume":22,"oa_version":"Published Version","publication_status":"published","publisher":"MDPI","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"acknowledgement":"We are grateful to Paul Knox, Markus Pauly, Malcom O’Neill, and Ignacio Zarra for providing published material; the BOKU-VIBT Imaging Center for access and M. Debreczeny for expertise; J.I. Thaker and Georg Seifert for critical reading.\r\n","isi":1,"intvolume":"        22","file_date_updated":"2021-09-07T09:04:53Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"International Journal of Molecular Sciences","title":"Xyloglucan remodeling defines auxin-dependent differential tissue expansion in plants","month":"08","ddc":["575"],"article_type":"original","article_number":"9222","day":"26","scopus_import":"1","author":[{"last_name":"Velasquez","first_name":"Silvia Melina","full_name":"Velasquez, Silvia Melina"},{"first_name":"Xiaoyuan","last_name":"Guo","full_name":"Guo, Xiaoyuan"},{"id":"460C6802-F248-11E8-B48F-1D18A9856A87","full_name":"Gallemi, Marçal","orcid":"0000-0003-4675-6893","last_name":"Gallemi","first_name":"Marçal"},{"full_name":"Aryal, Bibek","first_name":"Bibek","last_name":"Aryal"},{"first_name":"Peter","last_name":"Venhuizen","full_name":"Venhuizen, Peter"},{"full_name":"Barbez, Elke","first_name":"Elke","last_name":"Barbez"},{"last_name":"Dünser","first_name":"Kai Alexander","full_name":"Dünser, Kai Alexander"},{"full_name":"Darino, Martin","first_name":"Martin","last_name":"Darino"},{"first_name":"Aleš","last_name":"Pӗnčík","full_name":"Pӗnčík, Aleš"},{"full_name":"Novák, Ondřej","last_name":"Novák","first_name":"Ondřej"},{"full_name":"Kalyna, Maria","last_name":"Kalyna","first_name":"Maria"},{"full_name":"Mouille, Gregory","last_name":"Mouille","first_name":"Gregory"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","first_name":"Eva","last_name":"Benková","orcid":"0000-0002-8510-9739"},{"last_name":"Bhalerao","first_name":"Rishikesh P.","full_name":"Bhalerao, Rishikesh P."},{"full_name":"Mravec, Jozef","last_name":"Mravec","first_name":"Jozef"},{"full_name":"Kleine-Vehn, Jürgen","last_name":"Kleine-Vehn","first_name":"Jürgen"}],"doi":"10.3390/ijms22179222","year":"2021","status":"public","quality_controlled":"1","corr_author":"1","type":"journal_article","keyword":["auxin","growth","cell wall","xyloglucans","hypocotyls","gravitropism"],"file":[{"content_type":"application/pdf","date_created":"2021-09-06T12:50:19Z","file_name":"2021_IntJMolecularSciences_Velasquez.pdf","relation":"main_file","date_updated":"2021-09-07T09:04:53Z","creator":"cchlebak","access_level":"open_access","file_size":2162247,"checksum":"6b7055cf89f1b7ed8594c3fdf56f000b","file_id":"9988"}],"oa":1,"date_created":"2021-09-05T22:01:24Z","abstract":[{"text":"Size control is a fundamental question in biology, showing incremental complexity in plants, whose cells possess a rigid cell wall. The phytohormone auxin is a vital growth regulator with central importance for differential growth control. Our results indicate that auxin-reliant growth programs affect the molecular complexity of xyloglucans, the major type of cell wall hemicellulose in eudicots. Auxin-dependent induction and repression of growth coincide with reduced and enhanced molecular complexity of xyloglucans, respectively. In agreement with a proposed function in growth control, genetic interference with xyloglucan side decorations distinctly modulates auxin-dependent differential growth rates. Our work proposes that auxin-dependent growth programs have a spatially defined effect on xyloglucan’s molecular structure, which in turn affects cell wall mechanics and specifies differential, gravitropic hypocotyl growth.","lang":"eng"}]},{"title":"Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes","month":"02","ddc":["570"],"article_type":"original","article_number":"1042","scopus_import":"1","day":"04","doi":"10.3390/ijms21031042","year":"2020","author":[{"full_name":"Latorre-Pellicer, Ana","first_name":"Ana","last_name":"Latorre-Pellicer"},{"first_name":"Ángela","last_name":"Ascaso","full_name":"Ascaso, Ángela"},{"full_name":"Trujillano, Laura","last_name":"Trujillano","first_name":"Laura"},{"first_name":"Marta","last_name":"Gil-Salvador","full_name":"Gil-Salvador, Marta"},{"full_name":"Arnedo, Maria","last_name":"Arnedo","first_name":"Maria"},{"first_name":"Cristina","last_name":"Lucia-Campos","full_name":"Lucia-Campos, Cristina"},{"last_name":"Antoñanzas-Pérez","first_name":"Rebeca","full_name":"Antoñanzas-Pérez, Rebeca"},{"first_name":"Iñigo","last_name":"Marcos-Alcalde","full_name":"Marcos-Alcalde, Iñigo"},{"last_name":"Parenti","first_name":"Ilaria","full_name":"Parenti, Ilaria","id":"D93538B0-5B71-11E9-AC62-02EBE5697425"},{"last_name":"Bueno-Lozano","first_name":"Gloria","full_name":"Bueno-Lozano, Gloria"},{"first_name":"Antonio","last_name":"Musio","full_name":"Musio, Antonio"},{"last_name":"Puisac","first_name":"Beatriz","full_name":"Puisac, Beatriz"},{"full_name":"Kaiser, Frank J.","first_name":"Frank J.","last_name":"Kaiser"},{"first_name":"Feliciano J.","last_name":"Ramos","full_name":"Ramos, Feliciano J."},{"last_name":"Gómez-Puertas","first_name":"Paulino","full_name":"Gómez-Puertas, Paulino"},{"last_name":"Pié","first_name":"Juan","full_name":"Pié, Juan"}],"status":"public","quality_controlled":"1","corr_author":"1","type":"journal_article","oa":1,"file":[{"file_id":"7496","file_size":4271234,"checksum":"0e6658c4fe329d55d4d9bef01c5b15d0","date_updated":"2020-07-14T12:47:59Z","creator":"dernst","access_level":"open_access","relation":"main_file","date_created":"2020-02-18T07:49:22Z","content_type":"application/pdf","file_name":"2020_IntMolecSciences_Latorre.pdf"}],"date_created":"2020-02-16T23:00:49Z","abstract":[{"lang":"eng","text":"Characteristic or classic phenotype of Cornelia de Lange syndrome (CdLS) is associated with a recognisable facial pattern. However, the heterogeneity in causal genes and the presence of overlapping syndromes have made it increasingly difficult to diagnose only by clinical features. DeepGestalt technology, and its app Face2Gene, is having a growing impact on the diagnosis and management of genetic diseases by analysing the features of affected individuals. Here, we performed a phenotypic study on a cohort of 49 individuals harbouring causative variants in known CdLS genes in order to evaluate Face2Gene utility and sensitivity in the clinical diagnosis of CdLS. Based on the profile images of patients, a diagnosis of CdLS was within the top five predicted syndromes for 97.9% of our cases and even listed as first prediction for 83.7%. The age of patients did not seem to affect the prediction accuracy, whereas our results indicate a correlation between the clinical score and affected genes. Furthermore, each gene presents a different pattern recognition that may be used to develop new neural networks with the goal of separating different genetic subtypes in CdLS. Overall, we conclude that computer-assisted image analysis based on deep learning could support the clinical diagnosis of CdLS."}],"_id":"7488","article_processing_charge":"No","date_updated":"2025-07-10T11:54:41Z","issue":"3","has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"GaNo"}],"citation":{"ama":"Latorre-Pellicer A, Ascaso Á, Trujillano L, et al. Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. <i>International Journal of Molecular Sciences</i>. 2020;21(3). doi:<a href=\"https://doi.org/10.3390/ijms21031042\">10.3390/ijms21031042</a>","mla":"Latorre-Pellicer, Ana, et al. “Evaluating Face2Gene as a Tool to Identify Cornelia de Lange Syndrome by Facial Phenotypes.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 3, 1042, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21031042\">10.3390/ijms21031042</a>.","ista":"Latorre-Pellicer A, Ascaso Á, Trujillano L, Gil-Salvador M, Arnedo M, Lucia-Campos C, Antoñanzas-Pérez R, Marcos-Alcalde I, Parenti I, Bueno-Lozano G, Musio A, Puisac B, Kaiser FJ, Ramos FJ, Gómez-Puertas P, Pié J. 2020. Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. International Journal of Molecular Sciences. 21(3), 1042.","short":"A. Latorre-Pellicer, Á. Ascaso, L. Trujillano, M. Gil-Salvador, M. Arnedo, C. Lucia-Campos, R. Antoñanzas-Pérez, I. Marcos-Alcalde, I. Parenti, G. Bueno-Lozano, A. Musio, B. Puisac, F.J. Kaiser, F.J. Ramos, P. Gómez-Puertas, J. Pié, International Journal of Molecular Sciences 21 (2020).","apa":"Latorre-Pellicer, A., Ascaso, Á., Trujillano, L., Gil-Salvador, M., Arnedo, M., Lucia-Campos, C., … Pié, J. (2020). Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21031042\">https://doi.org/10.3390/ijms21031042</a>","chicago":"Latorre-Pellicer, Ana, Ángela Ascaso, Laura Trujillano, Marta Gil-Salvador, Maria Arnedo, Cristina Lucia-Campos, Rebeca Antoñanzas-Pérez, et al. “Evaluating Face2Gene as a Tool to Identify Cornelia de Lange Syndrome by Facial Phenotypes.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21031042\">https://doi.org/10.3390/ijms21031042</a>.","ieee":"A. Latorre-Pellicer <i>et al.</i>, “Evaluating Face2Gene as a tool to identify Cornelia de Lange syndrome by facial phenotypes,” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 3. MDPI, 2020."},"publication_identifier":{"issn":["1661-6596"],"eissn":["1422-0067"]},"external_id":{"isi":["000522551606028"]},"date_published":"2020-02-04T00:00:00Z","volume":21,"oa_version":"Published Version","publisher":"MDPI","publication_status":"published","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"isi":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        21","file_date_updated":"2020-07-14T12:47:59Z","publication":"International Journal of Molecular Sciences"},{"oa_version":"Published Version","volume":21,"date_published":"2020-04-02T00:00:00Z","publisher":"MDPI","publication_status":"published","isi":1,"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"publication":"International journal of molecular sciences","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","intvolume":"        21","file_date_updated":"2020-07-14T12:48:01Z","article_processing_charge":"No","date_updated":"2026-04-02T14:27:06Z","_id":"7664","issue":"7","has_accepted_license":"1","language":[{"iso":"eng"}],"external_id":{"isi":["000535574200201"],"pmid":["32252271"]},"pmid":1,"department":[{"_id":"RySh"}],"publication_identifier":{"eissn":["1422-0067"]},"citation":{"ieee":"A. Martín-Belmonte <i>et al.</i>, “Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease,” <i>International journal of molecular sciences</i>, vol. 21, no. 7. MDPI, 2020.","chicago":"Martín-Belmonte, Alejandro, Carolina Aguado, Rocío Alfaro-Ruíz, Ana Esther Moreno-Martínez, Luis De La Ossa, José Martínez-Hernández, Alain Buisson, Ryuichi Shigemoto, Yugo Fukazawa, and Rafael Luján. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>.","apa":"Martín-Belmonte, A., Aguado, C., Alfaro-Ruíz, R., Moreno-Martínez, A. E., De La Ossa, L., Martínez-Hernández, J., … Luján, R. (2020). Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21072459\">https://doi.org/10.3390/ijms21072459</a>","short":"A. Martín-Belmonte, C. Aguado, R. Alfaro-Ruíz, A.E. Moreno-Martínez, L. De La Ossa, J. Martínez-Hernández, A. Buisson, R. Shigemoto, Y. Fukazawa, R. Luján, International Journal of Molecular Sciences 21 (2020).","ista":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, Moreno-Martínez AE, De La Ossa L, Martínez-Hernández J, Buisson A, Shigemoto R, Fukazawa Y, Luján R. 2020. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. International journal of molecular sciences. 21(7), 2459.","mla":"Martín-Belmonte, Alejandro, et al. “Density of GABAB Receptors Is Reduced in Granule Cells of the Hippocampus in a Mouse Model of Alzheimer’s Disease.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 7, 2459, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>.","ama":"Martín-Belmonte A, Aguado C, Alfaro-Ruíz R, et al. Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer’s disease. <i>International journal of molecular sciences</i>. 2020;21(7). doi:<a href=\"https://doi.org/10.3390/ijms21072459\">10.3390/ijms21072459</a>"},"quality_controlled":"1","status":"public","oa":1,"file":[{"content_type":"application/pdf","date_created":"2020-04-20T11:43:18Z","file_name":"2020_JournMolecSciences_Martin_Belmonte.pdf","file_size":2941197,"checksum":"b9d2f1657d8c4a74b01a62b474d009b0","file_id":"7669","relation":"main_file","date_updated":"2020-07-14T12:48:01Z","creator":"dernst","access_level":"open_access"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Metabotropic γ-aminobutyric acid (GABAB) receptors contribute to the control of network activity and information processing in hippocampal circuits by regulating neuronal excitability and synaptic transmission. The dysfunction in the dentate gyrus (DG) has been implicated in Alzheimer´s disease (AD). Given the involvement of GABAB receptors in AD, to determine their subcellular localisation and possible alteration in granule cells of the DG in a mouse model of AD at 12 months of age, we used high-resolution immunoelectron microscopic analysis. Immunohistochemistry at the light microscopic level showed that the regional and cellular expression pattern of GABAB1 was similar in an AD model mouse expressing mutated human amyloid precursor protein and presenilin1 (APP/PS1) and in age-matched wild type mice. High-resolution immunoelectron microscopy revealed a distance-dependent gradient of immunolabelling for GABAB receptors, increasing from proximal to distal dendrites in both wild type and APP/PS1 mice. However, the overall density of GABAB receptors at the neuronal surface of these postsynaptic compartments of granule cells was significantly reduced in APP/PS1 mice. Parallel to this reduction in surface receptors, we found a significant increase in GABAB1 at cytoplasmic sites. GABAB receptors were also detected at presynaptic sites in the molecular layer of the DG. We also found a decrease in plasma membrane GABAB receptors in axon terminals contacting dendritic spines of granule cells, which was more pronounced in the outer than in the inner molecular layer. Altogether, our data showing post- and presynaptic reduction in surface GABAB receptors in the DG suggest the alteration of the GABAB-mediated modulation of excitability and synaptic transmission in granule cells, which may contribute to the cognitive dysfunctions in the APP/PS1 model of AD"}],"date_created":"2020-04-19T22:00:55Z","month":"04","title":"Density of GABAB receptors is reduced in granule cells of the hippocampus in a mouse model of Alzheimer's disease","ddc":["570"],"article_number":"2459","article_type":"original","doi":"10.3390/ijms21072459","year":"2020","author":[{"last_name":"Martín-Belmonte","first_name":"Alejandro","full_name":"Martín-Belmonte, Alejandro"},{"full_name":"Aguado, Carolina","last_name":"Aguado","first_name":"Carolina"},{"full_name":"Alfaro-Ruíz, Rocío","last_name":"Alfaro-Ruíz","first_name":"Rocío"},{"first_name":"Ana Esther","last_name":"Moreno-Martínez","full_name":"Moreno-Martínez, Ana Esther"},{"full_name":"De La Ossa, Luis","last_name":"De La Ossa","first_name":"Luis"},{"full_name":"Martínez-Hernández, José","last_name":"Martínez-Hernández","first_name":"José"},{"last_name":"Buisson","first_name":"Alain","full_name":"Buisson, Alain"},{"full_name":"Shigemoto, Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","last_name":"Shigemoto","first_name":"Ryuichi"},{"last_name":"Fukazawa","first_name":"Yugo","full_name":"Fukazawa, Yugo"},{"last_name":"Luján","first_name":"Rafael","full_name":"Luján, Rafael"}],"scopus_import":"1","day":"02"},{"has_accepted_license":"1","language":[{"iso":"eng"}],"external_id":{"isi":["000579945300001"]},"department":[{"_id":"RySh"}],"publication_identifier":{"eissn":["1422-0067"],"issn":["1661-6596"]},"citation":{"ieee":"D. Kleindienst, J.-C. Montanaro-Punzengruber, P. Bhandari, M. J. Case, Y. Fukazawa, and R. Shigemoto, “Deep learning-assisted high-throughput analysis of freeze-fracture replica images applied to glutamate receptors and calcium channels at hippocampal synapses,” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 18. MDPI, 2020.","chicago":"Kleindienst, David, Jacqueline-Claire Montanaro-Punzengruber, Pradeep Bhandari, Matthew J Case, Yugo Fukazawa, and Ryuichi Shigemoto. “Deep Learning-Assisted High-Throughput Analysis of Freeze-Fracture Replica Images Applied to Glutamate Receptors and Calcium Channels at Hippocampal Synapses.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21186737\">https://doi.org/10.3390/ijms21186737</a>.","apa":"Kleindienst, D., Montanaro-Punzengruber, J.-C., Bhandari, P., Case, M. J., Fukazawa, Y., &#38; Shigemoto, R. (2020). Deep learning-assisted high-throughput analysis of freeze-fracture replica images applied to glutamate receptors and calcium channels at hippocampal synapses. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21186737\">https://doi.org/10.3390/ijms21186737</a>","short":"D. Kleindienst, J.-C. Montanaro-Punzengruber, P. Bhandari, M.J. Case, Y. Fukazawa, R. Shigemoto, International Journal of Molecular Sciences 21 (2020).","ista":"Kleindienst D, Montanaro-Punzengruber J-C, Bhandari P, Case MJ, Fukazawa Y, Shigemoto R. 2020. Deep learning-assisted high-throughput analysis of freeze-fracture replica images applied to glutamate receptors and calcium channels at hippocampal synapses. International Journal of Molecular Sciences. 21(18), 6737.","mla":"Kleindienst, David, et al. “Deep Learning-Assisted High-Throughput Analysis of Freeze-Fracture Replica Images Applied to Glutamate Receptors and Calcium Channels at Hippocampal Synapses.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 18, 6737, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21186737\">10.3390/ijms21186737</a>.","ama":"Kleindienst D, Montanaro-Punzengruber J-C, Bhandari P, Case MJ, Fukazawa Y, Shigemoto R. Deep learning-assisted high-throughput analysis of freeze-fracture replica images applied to glutamate receptors and calcium channels at hippocampal synapses. <i>International Journal of Molecular Sciences</i>. 2020;21(18). doi:<a href=\"https://doi.org/10.3390/ijms21186737\">10.3390/ijms21186737</a>"},"article_processing_charge":"No","date_updated":"2026-04-30T22:30:40Z","_id":"8532","issue":"18","isi":1,"acknowledgement":"This research was funded by Austrian Academy of Sciences, DOC fellowship to D.K., European Research\r\nCouncil Advanced Grant 694539 and European Union Human Brain Project (HBP) SGA2 785907 to R.S.\r\nWe acknowledge Elena Hollergschwandtner for technical support.","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"publication":"International Journal of Molecular Sciences","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        21","file_date_updated":"2020-09-21T14:08:58Z","oa_version":"Published Version","ec_funded":1,"volume":21,"date_published":"2020-09-14T00:00:00Z","publisher":"MDPI","publication_status":"published","article_number":"6737","article_type":"original","year":"2020","doi":"10.3390/ijms21186737","author":[{"last_name":"Kleindienst","first_name":"David","full_name":"Kleindienst, David","id":"42E121A4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Montanaro-Punzengruber","first_name":"Jacqueline-Claire","full_name":"Montanaro-Punzengruber, Jacqueline-Claire","id":"3786AB44-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Bhandari, Pradeep","id":"45EDD1BC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0863-4481","last_name":"Bhandari","first_name":"Pradeep"},{"last_name":"Case","first_name":"Matthew J","id":"44B7CA5A-F248-11E8-B48F-1D18A9856A87","full_name":"Case, Matthew J"},{"last_name":"Fukazawa","first_name":"Yugo","full_name":"Fukazawa, Yugo"},{"orcid":"0000-0001-8761-9444","first_name":"Ryuichi","last_name":"Shigemoto","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","full_name":"Shigemoto, Ryuichi"}],"project":[{"name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","call_identifier":"H2020","grant_number":"694539","_id":"25CA28EA-B435-11E9-9278-68D0E5697425"},{"_id":"25D32BC0-B435-11E9-9278-68D0E5697425","name":"Mechanism of formation and maintenance of input side-dependent asymmetry in the hippocampus"},{"_id":"26436750-B435-11E9-9278-68D0E5697425","grant_number":"785907","call_identifier":"H2020","name":"Human Brain Project Specific Grant Agreement 2"}],"scopus_import":"1","day":"14","month":"09","title":"Deep learning-assisted high-throughput analysis of freeze-fracture replica images applied to glutamate receptors and calcium channels at hippocampal synapses","ddc":["570"],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"9562"}]},"oa":1,"file":[{"file_id":"8551","file_size":5748456,"checksum":"2e4f62f3cfe945b7391fc3070e5a289f","date_updated":"2020-09-21T14:08:58Z","creator":"dernst","access_level":"open_access","relation":"main_file","success":1,"content_type":"application/pdf","date_created":"2020-09-21T14:08:58Z","file_name":"2020_JournMolecSciences_Kleindienst.pdf"}],"type":"journal_article","abstract":[{"text":"The molecular anatomy of synapses defines their characteristics in transmission and plasticity. Precise measurements of the number and distribution of synaptic proteins are important for our understanding of synapse heterogeneity within and between brain regions. Freeze–fracture replica immunogold electron microscopy enables us to analyze them quantitatively on a two-dimensional membrane surface. Here, we introduce Darea software, which utilizes deep learning for analysis of replica images and demonstrate its usefulness for quick measurements of the pre- and postsynaptic areas, density and distribution of gold particles at synapses in a reproducible manner. We used Darea for comparing glutamate receptor and calcium channel distributions between hippocampal CA3-CA1 spine synapses on apical and basal dendrites, which differ in signaling pathways involved in synaptic plasticity. We found that apical synapses express a higher density of α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid (AMPA) receptors and a stronger increase of AMPA receptors with synaptic size, while basal synapses show a larger increase in N-methyl-D-aspartate (NMDA) receptors with size. Interestingly, AMPA and NMDA receptors are segregated within postsynaptic sites and negatively correlated in density among both apical and basal synapses. In the presynaptic sites, Cav2.1 voltage-gated calcium channels show similar densities in apical and basal synapses with distributions consistent with an exclusion zone model of calcium channel-release site topography.","lang":"eng"}],"date_created":"2020-09-20T22:01:35Z","quality_controlled":"1","status":"public","corr_author":"1"},{"date_created":"2020-08-24T06:24:03Z","abstract":[{"lang":"eng","text":"Drought and salt stress are the main environmental cues affecting the survival, development, distribution, and yield of crops worldwide. MYB transcription factors play a crucial role in plants’ biological processes, but the function of pineapple MYB genes is still obscure. In this study, one of the pineapple MYB transcription factors, AcoMYB4, was isolated and characterized. The results showed that AcoMYB4 is localized in the cell nucleus, and its expression is induced by low temperature, drought, salt stress, and hormonal stimulation, especially by abscisic acid (ABA). Overexpression of AcoMYB4 in rice and Arabidopsis enhanced plant sensitivity to osmotic stress; it led to an increase in the number stomata on leaf surfaces and lower germination rate under salt and drought stress. Furthermore, in AcoMYB4 OE lines, the membrane oxidation index, free proline, and soluble sugar contents were decreased. In contrast, electrolyte leakage and malondialdehyde (MDA) content increased significantly due to membrane injury, indicating higher sensitivity to drought and salinity stresses. Besides the above, both the expression level and activities of several antioxidant enzymes were decreased, indicating lower antioxidant activity in AcoMYB4 transgenic plants. Moreover, under osmotic stress, overexpression of AcoMYB4 inhibited ABA biosynthesis through a decrease in the transcription of genes responsible for ABA synthesis (ABA1 and ABA2) and ABA signal transduction factor ABI5. These results suggest that AcoMYB4 negatively regulates osmotic stress by attenuating cellular ABA biosynthesis and signal transduction pathways. "}],"type":"journal_article","oa":1,"file":[{"file_size":5718755,"checksum":"03b039244e6ae80580385fd9f577e2b2","file_id":"8292","relation":"main_file","date_updated":"2020-08-25T09:53:50Z","creator":"cziletti","access_level":"open_access","content_type":"application/pdf","date_created":"2020-08-25T09:53:50Z","file_name":"2020_IntMolecSciences_Chen.pdf","success":1}],"status":"public","quality_controlled":"1","day":"10","scopus_import":"1","author":[{"last_name":"Chen","first_name":"Huihuang","full_name":"Chen, Huihuang"},{"first_name":"Linyi","last_name":"Lai","full_name":"Lai, Linyi"},{"first_name":"Lanxin","last_name":"Li","orcid":"0000-0002-5607-272X","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","full_name":"Li, Lanxin"},{"full_name":"Liu, Liping","last_name":"Liu","first_name":"Liping"},{"full_name":"Jakada, Bello Hassan","first_name":"Bello Hassan","last_name":"Jakada"},{"first_name":"Youmei","last_name":"Huang","full_name":"Huang, Youmei"},{"full_name":"He, Qing","last_name":"He","first_name":"Qing"},{"last_name":"Chai","first_name":"Mengnan","full_name":"Chai, Mengnan"},{"first_name":"Xiaoping","last_name":"Niu","full_name":"Niu, Xiaoping"},{"last_name":"Qin","first_name":"Yuan","full_name":"Qin, Yuan"}],"year":"2020","doi":"10.3390/ijms21165727","article_type":"original","article_number":"5272","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10083"}]},"ddc":["570"],"title":"AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling","month":"08","file_date_updated":"2020-08-25T09:53:50Z","intvolume":"        21","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"International Journal of Molecular Sciences","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"acknowledgement":"We would like to thank the reviewers for their helpful comments on the original manuscript. ","isi":1,"publication_status":"published","publisher":"MDPI","date_published":"2020-08-10T00:00:00Z","volume":21,"oa_version":"Published Version","publication_identifier":{"eissn":["1422-0067"],"issn":["1661-6596"]},"citation":{"ieee":"H. Chen <i>et al.</i>, “AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling,” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 16. MDPI, 2020.","chicago":"Chen, Huihuang, Linyi Lai, Lanxin Li, Liping Liu, Bello Hassan Jakada, Youmei Huang, Qing He, Mengnan Chai, Xiaoping Niu, and Yuan Qin. “AcoMYB4, an Ananas Comosus L. MYB Transcription Factor, Functions in Osmotic Stress through Negative Regulation of ABA Signaling.” <i>International Journal of Molecular Sciences</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/ijms21165727\">https://doi.org/10.3390/ijms21165727</a>.","apa":"Chen, H., Lai, L., Li, L., Liu, L., Jakada, B. H., Huang, Y., … Qin, Y. (2020). AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms21165727\">https://doi.org/10.3390/ijms21165727</a>","ista":"Chen H, Lai L, Li L, Liu L, Jakada BH, Huang Y, He Q, Chai M, Niu X, Qin Y. 2020. AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. International Journal of Molecular Sciences. 21(16), 5272.","short":"H. Chen, L. Lai, L. Li, L. Liu, B.H. Jakada, Y. Huang, Q. He, M. Chai, X. Niu, Y. Qin, International Journal of Molecular Sciences 21 (2020).","ama":"Chen H, Lai L, Li L, et al. AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. <i>International Journal of Molecular Sciences</i>. 2020;21(16). doi:<a href=\"https://doi.org/10.3390/ijms21165727\">10.3390/ijms21165727</a>","mla":"Chen, Huihuang, et al. “AcoMYB4, an Ananas Comosus L. MYB Transcription Factor, Functions in Osmotic Stress through Negative Regulation of ABA Signaling.” <i>International Journal of Molecular Sciences</i>, vol. 21, no. 16, 5272, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/ijms21165727\">10.3390/ijms21165727</a>."},"pmid":1,"department":[{"_id":"JiFr"}],"external_id":{"pmid":["32785037"],"isi":["000565090300001"]},"language":[{"iso":"eng"}],"has_accepted_license":"1","issue":"16","_id":"8283","date_updated":"2026-04-30T22:31:06Z","article_processing_charge":"No"},{"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"isi":1,"intvolume":"        20","file_date_updated":"2020-07-14T12:47:34Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication":"International Journal of Molecular Sciences","volume":20,"date_published":"2019-07-07T00:00:00Z","ec_funded":1,"oa_version":"Published Version","publication_status":"published","publisher":"MDPI","language":[{"iso":"eng"}],"has_accepted_license":"1","citation":{"chicago":"Adamowski, Maciek, Lanxin Li, and Jiří Friml. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” <i>International Journal of Molecular Sciences</i>. MDPI, 2019. <a href=\"https://doi.org/10.3390/ijms20133337\">https://doi.org/10.3390/ijms20133337</a>.","ieee":"M. Adamowski, L. Li, and J. Friml, “Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling,” <i>International Journal of Molecular Sciences</i>, vol. 20, no. 13. MDPI, 2019.","ama":"Adamowski M, Li L, Friml J. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. <i>International Journal of Molecular Sciences</i>. 2019;20(13). doi:<a href=\"https://doi.org/10.3390/ijms20133337\">10.3390/ijms20133337</a>","mla":"Adamowski, Maciek, et al. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” <i>International Journal of Molecular Sciences</i>, vol. 20, no. 13, 3337, MDPI, 2019, doi:<a href=\"https://doi.org/10.3390/ijms20133337\">10.3390/ijms20133337</a>.","ista":"Adamowski M, Li L, Friml J. 2019. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. International Journal of Molecular Sciences. 20(13), 3337.","short":"M. Adamowski, L. Li, J. Friml, International Journal of Molecular Sciences 20 (2019).","apa":"Adamowski, M., Li, L., &#38; Friml, J. (2019). Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms20133337\">https://doi.org/10.3390/ijms20133337</a>"},"publication_identifier":{"eissn":["1422-0067"]},"pmid":1,"department":[{"_id":"JiFr"}],"external_id":{"isi":["000477041100221"],"pmid":["31284661"]},"_id":"6627","date_updated":"2026-04-30T22:31:06Z","article_processing_charge":"Yes","issue":"13","type":"journal_article","oa":1,"file":[{"relation":"main_file","date_updated":"2020-07-14T12:47:34Z","creator":"dernst","access_level":"open_access","file_size":3330291,"checksum":"dd9d1cbb933a72ceb666c9667890ac51","file_id":"6645","content_type":"application/pdf","date_created":"2019-07-17T06:17:15Z","file_name":"2019_JournalMolecularScience_Adamowski.pdf"}],"date_created":"2019-07-11T12:00:32Z","abstract":[{"lang":"eng","text":"Cortical microtubule arrays in elongating epidermal cells in both the root and stem of plants have the propensity of dynamic reorientations that are correlated with the activation or inhibition of growth. Factors regulating plant growth, among them the hormone auxin, have been recognized as regulators of microtubule array orientations. Some previous work in the field has aimed at elucidating the causal relationship between cell growth, the signaling of auxin or other growth-regulating factors, and microtubule array reorientations, with various conclusions. Here, we revisit this problem of causality with a comprehensive set of experiments in Arabidopsis thaliana, using the now available pharmacological and genetic tools. We use isolated, auxin-depleted hypocotyls, an experimental system allowing for full control of both growth and auxin signaling. We demonstrate that reorientation of microtubules is not directly triggered by an auxin signal during growth activation. Instead, reorientation is triggered by the activation of the growth process itself and is auxin-independent in its nature. We discuss these findings in the context of previous relevant work, including that on the mechanical regulation of microtubule array orientation."}],"status":"public","quality_controlled":"1","corr_author":"1","article_type":"original","article_number":"3337","day":"07","scopus_import":"1","project":[{"call_identifier":"FP7","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"},{"call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"author":[{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","full_name":"Adamowski, Maciek","orcid":"0000-0001-6463-5257","first_name":"Maciek","last_name":"Adamowski"},{"full_name":"Li, Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","last_name":"Li","first_name":"Lanxin"},{"orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"doi":"10.3390/ijms20133337","year":"2019","title":"Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling","month":"07","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10083"}]},"ddc":["580"]},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":"        19","file_date_updated":"2020-07-14T12:44:50Z","publication":"International Journal of Molecular Sciences","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png"},"isi":1,"acknowledgement":"European Research Council (ERC): 742985 to Jiri Friml; M.A. was supported by the Austrian Science Fund (FWF) (M2379-B28); AJ was supported by the Austria Science Fund (FWF): I03630 to Jiri Friml.","publisher":"MDPI","publication_status":"published","date_published":"2018-11-12T00:00:00Z","volume":19,"oa_version":"Published Version","ec_funded":1,"department":[{"_id":"DaSi"},{"_id":"JiFr"}],"publication_identifier":{"eissn":["1422-0067"]},"citation":{"ieee":"S. Hille, M. Akhmanova, M. Glanc, A. J. Johnson, and J. Friml, “Relative contribution of PIN-containing secretory vesicles and plasma membrane PINs to the directed auxin transport: Theoretical estimation,” <i>International Journal of Molecular Sciences</i>, vol. 19, no. 11. MDPI, 2018.","chicago":"Hille, Sander, Maria Akhmanova, Matous Glanc, Alexander J Johnson, and Jiří Friml. “Relative Contribution of PIN-Containing Secretory Vesicles and Plasma Membrane PINs to the Directed Auxin Transport: Theoretical Estimation.” <i>International Journal of Molecular Sciences</i>. MDPI, 2018. <a href=\"https://doi.org/10.3390/ijms19113566\">https://doi.org/10.3390/ijms19113566</a>.","ista":"Hille S, Akhmanova M, Glanc M, Johnson AJ, Friml J. 2018. Relative contribution of PIN-containing secretory vesicles and plasma membrane PINs to the directed auxin transport: Theoretical estimation. International Journal of Molecular Sciences. 19(11).","short":"S. Hille, M. Akhmanova, M. Glanc, A.J. Johnson, J. Friml, International Journal of Molecular Sciences 19 (2018).","ama":"Hille S, Akhmanova M, Glanc M, Johnson AJ, Friml J. Relative contribution of PIN-containing secretory vesicles and plasma membrane PINs to the directed auxin transport: Theoretical estimation. <i>International Journal of Molecular Sciences</i>. 2018;19(11). doi:<a href=\"https://doi.org/10.3390/ijms19113566\">10.3390/ijms19113566</a>","mla":"Hille, Sander, et al. “Relative Contribution of PIN-Containing Secretory Vesicles and Plasma Membrane PINs to the Directed Auxin Transport: Theoretical Estimation.” <i>International Journal of Molecular Sciences</i>, vol. 19, no. 11, MDPI, 2018, doi:<a href=\"https://doi.org/10.3390/ijms19113566\">10.3390/ijms19113566</a>.","apa":"Hille, S., Akhmanova, M., Glanc, M., Johnson, A. J., &#38; Friml, J. (2018). Relative contribution of PIN-containing secretory vesicles and plasma membrane PINs to the directed auxin transport: Theoretical estimation. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms19113566\">https://doi.org/10.3390/ijms19113566</a>"},"external_id":{"isi":["000451528500282"]},"publist_id":"8042","has_accepted_license":"1","language":[{"iso":"eng"}],"issue":"11","_id":"14","article_processing_charge":"No","date_updated":"2025-04-14T07:45:00Z","date_created":"2018-12-11T11:44:09Z","abstract":[{"lang":"eng","text":"The intercellular transport of auxin is driven by PIN-formed (PIN) auxin efflux carriers. PINs are localized at the plasma membrane (PM) and on constitutively recycling endomembrane vesicles. Therefore, PINs can mediate auxin transport either by direct translocation across the PM or by pumping auxin into secretory vesicles (SVs), leading to its secretory release upon fusion with the PM. Which of these two mechanisms dominates is a matter of debate. Here, we addressed the issue with a mathematical modeling approach. We demonstrate that the efficiency of secretory transport depends on SV size, half-life of PINs on the PM, pH, exocytosis frequency and PIN density. 3D structured illumination microscopy (SIM) was used to determine PIN density on the PM. Combining this data with published values of the other parameters, we show that the transport activity of PINs in SVs would have to be at least 1000× greater than on the PM in order to produce a comparable macroscopic auxin transport. If both transport mechanisms operated simultaneously and PINs were equally active on SVs and PM, the contribution of secretion to the total auxin flux would be negligible. In conclusion, while secretory vesicle-mediated transport of auxin is an intriguing and theoretically possible model, it is unlikely to be a major mechanism of auxin transport inplanta."}],"type":"journal_article","oa":1,"file":[{"file_name":"2018_IJMS_Hille.pdf","content_type":"application/pdf","date_created":"2018-12-17T16:04:11Z","file_id":"5719","checksum":"e4b59c2599b0ca26ebf5b8434bcde94a","file_size":2200593,"access_level":"open_access","creator":"dernst","date_updated":"2020-07-14T12:44:50Z","relation":"main_file"}],"status":"public","quality_controlled":"1","scopus_import":"1","day":"12","doi":"10.3390/ijms19113566","year":"2018","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"author":[{"first_name":"Sander","last_name":"Hille","full_name":"Hille, Sander"},{"id":"3425EC26-F248-11E8-B48F-1D18A9856A87","full_name":"Akhmanova, Maria","orcid":"0000-0003-1522-3162","last_name":"Akhmanova","first_name":"Maria"},{"orcid":"0000-0003-0619-7783","last_name":"Glanc","first_name":"Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","full_name":"Glanc, Matous"},{"orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J"},{"last_name":"Friml","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"article_type":"original","ddc":["580"],"title":"Relative contribution of PIN-containing secretory vesicles and plasma membrane PINs to the directed auxin transport: Theoretical estimation","month":"11"}]