[{"publication_identifier":{"issn":["1741-7007"]},"keyword":["Biotechnology","Plant Science","General Biochemistry","Genetics and Molecular Biology","Developmental Biology","Cell Biology","Physiology","Ecology","Evolution","Behavior and Systematics","Structural Biology","General Agricultural and Biological Sciences"],"title":"The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments","date_created":"2020-09-17T10:26:53Z","oa_version":"Published Version","OA_type":"gold","publication_status":"published","article_processing_charge":"No","publisher":"Springer Nature","extern":"1","pmid":1,"doi":"10.1186/s12915-019-0733-6","oa":1,"author":[{"full_name":"Rampelt, Heike","last_name":"Rampelt","first_name":"Heike"},{"last_name":"Sucec","full_name":"Sucec, Iva","first_name":"Iva"},{"full_name":"Bersch, Beate","last_name":"Bersch","first_name":"Beate"},{"last_name":"Horten","full_name":"Horten, Patrick","first_name":"Patrick"},{"first_name":"Inge","last_name":"Perschil","full_name":"Perschil, Inge"},{"full_name":"Martinou, Jean-Claude","last_name":"Martinou","first_name":"Jean-Claude"},{"last_name":"van der Laan","full_name":"van der Laan, Martin","first_name":"Martin"},{"last_name":"Wiedemann","full_name":"Wiedemann, Nils","first_name":"Nils"},{"full_name":"Schanda, Paul","last_name":"Schanda","orcid":"0000-0002-9350-7606","id":"7B541462-FAF6-11E9-A490-E8DFE5697425","first_name":"Paul"},{"last_name":"Pfanner","full_name":"Pfanner, Nikolaus","first_name":"Nikolaus"}],"volume":18,"article_type":"original","month":"01","article_number":"2","intvolume":"        18","year":"2020","user_id":"0043cee0-e5fc-11ee-9736-f83bc23afbf0","date_published":"2020-01-06T00:00:00Z","OA_place":"publisher","main_file_link":[{"url":"https://doi.org/10.1186/s12915-019-0733-6","open_access":"1"}],"language":[{"iso":"eng"}],"_id":"8402","abstract":[{"text":"Background: The mitochondrial pyruvate carrier (MPC) plays a central role in energy metabolism by transporting pyruvate across the inner mitochondrial membrane. Its heterodimeric composition and homology to SWEET and semiSWEET transporters set the MPC apart from the canonical mitochondrial carrier family (named MCF or SLC25). The import of the canonical carriers is mediated by the carrier translocase of the inner membrane (TIM22) pathway and is dependent on their structure, which features an even number of transmembrane segments and both termini in the intermembrane space. The import pathway of MPC proteins has not been elucidated. The odd number of transmembrane segments and positioning of the N-terminus in the matrix argues against an import via the TIM22 carrier pathway but favors an import via the flexible presequence pathway.\r\nResults: Here, we systematically analyzed the import pathways of Mpc2 and Mpc3 and report that, contrary to an expected import via the flexible presequence pathway, yeast MPC proteins with an odd number of transmembrane segments and matrix-exposed N-terminus are imported by the carrier pathway, using the receptor Tom70, small TIM chaperones, and the TIM22 complex. The TIM9·10 complex chaperones MPC proteins through the mitochondrial intermembrane space using conserved hydrophobic motifs that are also required for the interaction with canonical carrier proteins.\r\nConclusions: The carrier pathway can import paired and non-paired transmembrane helices and translocate N-termini to either side of the mitochondrial inner membrane, revealing an unexpected versatility of the mitochondrial import pathway for non-cleavable inner membrane proteins.","lang":"eng"}],"external_id":{"pmid":["31907035"]},"type":"journal_article","quality_controlled":"1","day":"06","citation":{"ama":"Rampelt H, Sucec I, Bersch B, et al. The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments. <i>BMC Biology</i>. 2020;18. doi:<a href=\"https://doi.org/10.1186/s12915-019-0733-6\">10.1186/s12915-019-0733-6</a>","ista":"Rampelt H, Sucec I, Bersch B, Horten P, Perschil I, Martinou J-C, van der Laan M, Wiedemann N, Schanda P, Pfanner N. 2020. The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments. BMC Biology. 18, 2.","chicago":"Rampelt, Heike, Iva Sucec, Beate Bersch, Patrick Horten, Inge Perschil, Jean-Claude Martinou, Martin van der Laan, Nils Wiedemann, Paul Schanda, and Nikolaus Pfanner. “The Mitochondrial Carrier Pathway Transports Non-Canonical Substrates with an Odd Number of Transmembrane Segments.” <i>BMC Biology</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1186/s12915-019-0733-6\">https://doi.org/10.1186/s12915-019-0733-6</a>.","mla":"Rampelt, Heike, et al. “The Mitochondrial Carrier Pathway Transports Non-Canonical Substrates with an Odd Number of Transmembrane Segments.” <i>BMC Biology</i>, vol. 18, 2, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1186/s12915-019-0733-6\">10.1186/s12915-019-0733-6</a>.","ieee":"H. Rampelt <i>et al.</i>, “The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments,” <i>BMC Biology</i>, vol. 18. Springer Nature, 2020.","short":"H. Rampelt, I. Sucec, B. Bersch, P. Horten, I. Perschil, J.-C. Martinou, M. van der Laan, N. Wiedemann, P. Schanda, N. Pfanner, BMC Biology 18 (2020).","apa":"Rampelt, H., Sucec, I., Bersch, B., Horten, P., Perschil, I., Martinou, J.-C., … Pfanner, N. (2020). The mitochondrial carrier pathway transports non-canonical substrates with an odd number of transmembrane segments. <i>BMC Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1186/s12915-019-0733-6\">https://doi.org/10.1186/s12915-019-0733-6</a>"},"status":"public","DOAJ_listed":"1","date_updated":"2024-10-15T13:23:11Z","publication":"BMC Biology"},{"file_date_updated":"2020-11-18T07:26:10Z","isi":1,"date_updated":"2025-06-12T07:02:01Z","publication":"PLOS Computational Biology","status":"public","scopus_import":"1","issue":"11","type":"journal_article","quality_controlled":"1","abstract":[{"lang":"eng","text":"Resources are rarely distributed uniformly within a population. Heterogeneity in the concentration of a drug, the quality of breeding sites, or wealth can all affect evolutionary dynamics. In this study, we represent a collection of properties affecting the fitness at a given location using a color. A green node is rich in resources while a red node is poorer. More colors can represent a broader spectrum of resource qualities. For a population evolving according to the birth-death Moran model, the first question we address is which structures, identified by graph connectivity and graph coloring, are evolutionarily equivalent. We prove that all properly two-colored, undirected, regular graphs are evolutionarily equivalent (where “properly colored” means that no two neighbors have the same color). We then compare the effects of background heterogeneity on properly two-colored graphs to those with alternative schemes in which the colors are permuted. Finally, we discuss dynamic coloring as a model for spatiotemporal resource fluctuations, and we illustrate that random dynamic colorings often diminish the effects of background heterogeneity relative to a proper two-coloring."}],"_id":"8767","language":[{"iso":"eng"}],"external_id":{"pmid":["33151935"],"isi":["000591317200004"]},"has_accepted_license":"1","day":"05","citation":{"apa":"Kaveh, K., McAvoy, A., Chatterjee, K., &#38; Nowak, M. A. (2020). The Moran process on 2-chromatic graphs. <i>PLOS Computational Biology</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pcbi.1008402\">https://doi.org/10.1371/journal.pcbi.1008402</a>","short":"K. Kaveh, A. McAvoy, K. Chatterjee, M.A. Nowak, PLOS Computational Biology 16 (2020).","ieee":"K. Kaveh, A. McAvoy, K. Chatterjee, and M. A. Nowak, “The Moran process on 2-chromatic graphs,” <i>PLOS Computational Biology</i>, vol. 16, no. 11. Public Library of Science, 2020.","mla":"Kaveh, Kamran, et al. “The Moran Process on 2-Chromatic Graphs.” <i>PLOS Computational Biology</i>, vol. 16, no. 11, e1008402, Public Library of Science, 2020, doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1008402\">10.1371/journal.pcbi.1008402</a>.","chicago":"Kaveh, Kamran, Alex McAvoy, Krishnendu Chatterjee, and Martin A. Nowak. “The Moran Process on 2-Chromatic Graphs.” <i>PLOS Computational Biology</i>. Public Library of Science, 2020. <a href=\"https://doi.org/10.1371/journal.pcbi.1008402\">https://doi.org/10.1371/journal.pcbi.1008402</a>.","ista":"Kaveh K, McAvoy A, Chatterjee K, Nowak MA. 2020. The Moran process on 2-chromatic graphs. PLOS Computational Biology. 16(11), e1008402.","ama":"Kaveh K, McAvoy A, Chatterjee K, Nowak MA. The Moran process on 2-chromatic graphs. <i>PLOS Computational Biology</i>. 2020;16(11). doi:<a href=\"https://doi.org/10.1371/journal.pcbi.1008402\">10.1371/journal.pcbi.1008402</a>"},"year":"2020","ddc":["000"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        16","article_number":"e1008402","date_published":"2020-11-05T00:00:00Z","acknowledgement":"We thank Igor Erovenko for many helpful comments on an earlier version of this paper. : Army Research Laboratory (grant W911NF-18-2-0265) (M.A.N.); the Bill & Melinda Gates Foundation (grant OPP1148627) (M.A.N.); the NVIDIA Corporation (A.M.). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.","doi":"10.1371/journal.pcbi.1008402","oa":1,"article_type":"original","department":[{"_id":"KrCh"}],"month":"11","volume":16,"author":[{"full_name":"Kaveh, Kamran","last_name":"Kaveh","first_name":"Kamran"},{"first_name":"Alex","full_name":"McAvoy, Alex","last_name":"McAvoy"},{"full_name":"Chatterjee, Krishnendu","last_name":"Chatterjee","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87","first_name":"Krishnendu","orcid":"0000-0002-4561-241X"},{"full_name":"Nowak, Martin A.","last_name":"Nowak","first_name":"Martin A."}],"publisher":"Public Library of Science","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","pmid":1,"publication_status":"published","file":[{"creator":"dernst","file_id":"8768","relation":"main_file","date_updated":"2020-11-18T07:26:10Z","file_name":"2020_PlosCompBio_Kaveh.pdf","checksum":"555456dd0e47bcf9e0994bcb95577e88","file_size":2498594,"date_created":"2020-11-18T07:26:10Z","content_type":"application/pdf","success":1,"access_level":"open_access"}],"publication_identifier":{"issn":["1553-734X"],"eissn":["1553-7358"]},"keyword":["Ecology","Modelling and Simulation","Computational Theory and Mathematics","Genetics","Ecology","Evolution","Behavior and Systematics","Molecular Biology","Cellular and Molecular Neuroscience"],"oa_version":"Published Version","title":"The Moran process on 2-chromatic graphs","date_created":"2020-11-18T07:20:23Z"},{"license":"https://creativecommons.org/licenses/by/3.0/","issue":"4","scopus_import":"1","status":"public","page":"650-675","date_updated":"2024-10-09T21:01:52Z","publication":"Plants","file_date_updated":"2022-03-21T12:12:56Z","date_published":"2013-10-21T00:00:00Z","intvolume":"         2","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["580"],"year":"2013","day":"21","citation":{"mla":"Vanneste, Steffen, and Jiří Friml. “Calcium: The Missing Link in Auxin Action.” <i>Plants</i>, vol. 2, no. 4, MDPI, 2013, pp. 650–75, doi:<a href=\"https://doi.org/10.3390/plants2040650\">10.3390/plants2040650</a>.","ieee":"S. Vanneste and J. Friml, “Calcium: The missing link in auxin action,” <i>Plants</i>, vol. 2, no. 4. MDPI, pp. 650–675, 2013.","short":"S. Vanneste, J. Friml, Plants 2 (2013) 650–675.","apa":"Vanneste, S., &#38; Friml, J. (2013). Calcium: The missing link in auxin action. <i>Plants</i>. MDPI. <a href=\"https://doi.org/10.3390/plants2040650\">https://doi.org/10.3390/plants2040650</a>","ama":"Vanneste S, Friml J. Calcium: The missing link in auxin action. <i>Plants</i>. 2013;2(4):650-675. doi:<a href=\"https://doi.org/10.3390/plants2040650\">10.3390/plants2040650</a>","ista":"Vanneste S, Friml J. 2013. Calcium: The missing link in auxin action. Plants. 2(4), 650–675.","chicago":"Vanneste, Steffen, and Jiří Friml. “Calcium: The Missing Link in Auxin Action.” <i>Plants</i>. MDPI, 2013. <a href=\"https://doi.org/10.3390/plants2040650\">https://doi.org/10.3390/plants2040650</a>."},"has_accepted_license":"1","external_id":{"pmid":["27137397"]},"_id":"10895","abstract":[{"lang":"eng","text":"Due to their sessile lifestyles, plants need to deal with the limitations and stresses imposed by the changing environment. Plants cope with these by a remarkable developmental flexibility, which is embedded in their strategy to survive. Plants can adjust their size, shape and number of organs, bend according to gravity and light, and regenerate tissues that were damaged, utilizing a coordinating, intercellular signal, the plant hormone, auxin. Another versatile signal is the cation, Ca2+, which is a crucial second messenger for many rapid cellular processes during responses to a wide range of endogenous and environmental signals, such as hormones, light, drought stress and others. Auxin is a good candidate for one of these Ca2+-activating signals. However, the role of auxin-induced Ca2+ signaling is poorly understood. Here, we will provide an overview of possible developmental and physiological roles, as well as mechanisms underlying the interconnection of Ca2+ and auxin signaling. "}],"language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","pmid":1,"article_processing_charge":"No","corr_author":"1","tmp":{"name":"Creative Commons Attribution 3.0 Unported (CC BY 3.0)","legal_code_url":"https://creativecommons.org/licenses/by/3.0/legalcode","image":"/images/cc_by.png","short":"CC BY (3.0)"},"publisher":"MDPI","volume":2,"author":[{"full_name":"Vanneste, Steffen","last_name":"Vanneste","first_name":"Steffen"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml"}],"month":"10","department":[{"_id":"JiFr"}],"article_type":"original","oa":1,"doi":"10.3390/plants2040650","date_created":"2022-03-21T07:13:49Z","title":"Calcium: The missing link in auxin action","oa_version":"Published Version","keyword":["Plant Science","Ecology","Ecology","Evolution","Behavior and Systematics"],"publication_identifier":{"issn":["2223-7747"]},"file":[{"file_name":"2013_Plants_Vanneste.pdf","checksum":"fb4ff2e820e344e253c9197544610be6","file_id":"10916","date_updated":"2022-03-21T12:12:56Z","relation":"main_file","creator":"dernst","access_level":"open_access","file_size":670188,"date_created":"2022-03-21T12:12:56Z","success":1,"content_type":"application/pdf"}],"publication_status":"published"},{"publication_status":"published","title":"Dynamic association of NUP98 with the human genome","date_created":"2022-04-07T07:50:59Z","oa_version":"Published Version","keyword":["Cancer Research","Genetics (clinical)","Genetics","Molecular Biology","Ecology","Evolution","Behavior and Systematics"],"publication_identifier":{"issn":["1553-7404"]},"author":[{"first_name":"Yun","last_name":"Liang","full_name":"Liang, Yun"},{"full_name":"Franks, Tobias M.","last_name":"Franks","first_name":"Tobias M."},{"first_name":"Maria C.","full_name":"Marchetto, Maria C.","last_name":"Marchetto"},{"full_name":"Gage, Fred H.","last_name":"Gage","first_name":"Fred H."},{"full_name":"HETZER, Martin W","last_name":"HETZER","id":"86c0d31b-b4eb-11ec-ac5a-eae7b2e135ed","first_name":"Martin W","orcid":"0000-0002-2111-992X"}],"volume":9,"month":"02","article_type":"original","oa":1,"doi":"10.1371/journal.pgen.1003308","extern":"1","pmid":1,"article_processing_charge":"No","publisher":"Public Library of Science","citation":{"chicago":"Liang, Yun, Tobias M. Franks, Maria C. Marchetto, Fred H. Gage, and Martin Hetzer. “Dynamic Association of NUP98 with the Human Genome.” <i>PLoS Genetics</i>. Public Library of Science, 2013. <a href=\"https://doi.org/10.1371/journal.pgen.1003308\">https://doi.org/10.1371/journal.pgen.1003308</a>.","ista":"Liang Y, Franks TM, Marchetto MC, Gage FH, Hetzer M. 2013. Dynamic association of NUP98 with the human genome. PLoS Genetics. 9(2), e1003308.","ama":"Liang Y, Franks TM, Marchetto MC, Gage FH, Hetzer M. Dynamic association of NUP98 with the human genome. <i>PLoS Genetics</i>. 2013;9(2). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1003308\">10.1371/journal.pgen.1003308</a>","apa":"Liang, Y., Franks, T. M., Marchetto, M. C., Gage, F. H., &#38; Hetzer, M. (2013). Dynamic association of NUP98 with the human genome. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1003308\">https://doi.org/10.1371/journal.pgen.1003308</a>","ieee":"Y. Liang, T. M. Franks, M. C. Marchetto, F. H. Gage, and M. Hetzer, “Dynamic association of NUP98 with the human genome,” <i>PLoS Genetics</i>, vol. 9, no. 2. Public Library of Science, 2013.","short":"Y. Liang, T.M. Franks, M.C. Marchetto, F.H. Gage, M. Hetzer, PLoS Genetics 9 (2013).","mla":"Liang, Yun, et al. “Dynamic Association of NUP98 with the Human Genome.” <i>PLoS Genetics</i>, vol. 9, no. 2, e1003308, Public Library of Science, 2013, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1003308\">10.1371/journal.pgen.1003308</a>."},"day":"28","external_id":{"pmid":["23468646"]},"language":[{"iso":"eng"}],"_id":"11086","abstract":[{"text":"Faithful execution of developmental gene expression programs occurs at multiple levels and involves many different components such as transcription factors, histone-modification enzymes, and mRNA processing proteins. Recent evidence suggests that nucleoporins, well known components that control nucleo-cytoplasmic trafficking, have wide-ranging functions in developmental gene regulation that potentially extend beyond their role in nuclear transport. Whether the unexpected role of nuclear pore proteins in transcription regulation, which initially has been described in fungi and flies, also applies to human cells is unknown. Here we show at a genome-wide level that the nuclear pore protein NUP98 associates with developmentally regulated genes active during human embryonic stem cell differentiation. Overexpression of a dominant negative fragment of NUP98 levels decreases expression levels of NUP98-bound genes. In addition, we identify two modes of developmental gene regulation by NUP98 that are differentiated by the spatial localization of NUP98 target genes. Genes in the initial stage of developmental induction can associate with NUP98 that is embedded in the nuclear pores at the nuclear periphery. Alternatively, genes that are highly induced can interact with NUP98 in the nuclear interior, away from the nuclear pores. This work demonstrates for the first time that NUP98 dynamically associates with the human genome during differentiation, revealing a role of a nuclear pore protein in regulating developmental gene expression programs.","lang":"eng"}],"quality_controlled":"1","type":"journal_article","date_published":"2013-02-28T00:00:00Z","main_file_link":[{"url":"https://doi.org/10.1371/journal.pgen.1003308","open_access":"1"}],"intvolume":"         9","article_number":"e1003308","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2013","publication":"PLoS Genetics","date_updated":"2024-10-14T11:24:40Z","issue":"2","scopus_import":"1","status":"public"}]