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6. Relative impact of three growth conditions on the Escherichia coli protein acetylome.

Author

Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Biomolecular Mass Spectrometry and Proteomics, Lozano-Terol, Gema, Chiozzi, Riccardo Zenezini, Gallego-Jara, Julia, Sola-Martínez, Rosa Alba, Vivancos, Adrián Martínez, Ortega, Álvaro, Heck, Albert J R, Díaz, Manuel Cánovas, de Diego Puente, Teresa, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Biomolecular Mass Spectrometry and Proteomics, Lozano-Terol, Gema, Chiozzi, Riccardo Zenezini, Gallego-Jara, Julia, Sola-Martínez, Rosa Alba, Vivancos, Adrián Martínez, Ortega, Álvaro, Heck, Albert J R, Díaz, Manuel Cánovas, and de Diego Puente, Teresa

Published
2024

8. Adipocyte p53 coordinates the response to cyclic fasting by regulating adipose tissue immune cell landscape

Author

Prokesch, Andreas, primary, Reinisch, Isabel, additional, Michenthaler, Helene, additional, Moyschewitz, Elisabeth, additional, Krstic, Jelena, additional, Galhuber, Markus, additional, Wang, Tongtong, additional, Vujic, Nemanja, additional, Amor, Melina, additional, Chiozzi, Riccardo Zenezini, additional, Wabitsch, Martin, additional, Kolb, Dagmar, additional, Georgiadi, Anastasia, additional, Glawitsch, Lisa, additional, Heitzer, Ellen, additional, Schulz, Tim, additional, Schupp, Michael, additional, Sun, Wenfei, additional, Dong, Hua, additional, Ghosh, Adhideb, additional, Kratky, Dagmar, additional, Heck, Albert, additional, Sulaj, Alba, additional, Blüher, Matthias, additional, Hoffmann, Anne, additional, Herzig, Stephan, additional, and Wolfrum, Christian, additional

Published
2023
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11. Characterization of acrosin and acrosin binding protein as novel CRISP2 interacting proteins in boar spermatozoa

Author

Zhang, Min, Chiozzi, Riccardo Zenezini, Bromfield, Elizabeth G, Heck, Albert Jr, Helms, J Bernd, Gadella, Bart M, Zhang, Min, Chiozzi, Riccardo Zenezini, Bromfield, Elizabeth G, Heck, Albert Jr, Helms, J Bernd, and Gadella, Bart M

Abstract

Background: Previously, we reported that cysteine-rich secretory protein 2 is involved in high molecular weight complexes in boar spermatozoa. These cysteine-rich secretory protein 2protein complexes are formed at the last phase of sperm formation in the testis and play a role in sperm shaping and functioning. Objectives: This study aimed to identify cysteine-rich secretory protein 2 interacting partners. These binding partner interactions were investigated under different conditions, namely, non-capacitating conditions, after the induction of in vitro sperm capacitation and subsequently during an ionophore A23187-induced acrosome reaction. Materials and Methods: The incubated pig sperm samples were subjected to protein extraction. Extracted proteins were subjected to blue native gel electrophoresis and native immunoblots. Immunoreactive gel bands were excised and subjected to liquid chromatography–mass spectrometry (LC-MS) analysis for protein identification. Protein extracts were also subjected to CRISP2 immunoprecipitation and analyzed by LC-MS for protein identification. The most prominent cystein-rich secretory protein 2 interacting proteins that appeared in both independent LC-MS analyses were studied with a functional in situ proximity interaction assay to validate their property to interact with cystein-rich secretory protein 2 in pig sperm. Results: Blue native gel electrophoresis and native immunoblots revealed that cystein-rich secretory protein 2 was present within a ∼150 kDa protein complex under all three conditions. Interrogation of cystein-rich secretory-protein 2-immunoreactive bands from blue native gels as well as cystein-rich secretory protein 2 immunoprecipitated products using mass spectrometry consistently revealed that, beyond cystein-rich secretory protein 2, acrosin and acrosin binding protein were among the most abundant interacting proteins and did interact under all three conditions. Co-immunoprecipitation and immunoblotting indicated

Published
2023

12. Characterization of acrosin and acrosin binding protein as novel CRISP2 interacting proteins in boar spermatozoa

Author

Veterinaire biochemie, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, FAH klinische reproductie, Cell Biology, Metabolism & Cancer - Metabolomics, FAH – Sustainable Ruminant Health, Zhang, Min, Chiozzi, Riccardo Zenezini, Bromfield, Elizabeth G, Heck, Albert Jr, Helms, J Bernd, Gadella, Bart M, Veterinaire biochemie, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, FAH klinische reproductie, Cell Biology, Metabolism & Cancer - Metabolomics, FAH – Sustainable Ruminant Health, Zhang, Min, Chiozzi, Riccardo Zenezini, Bromfield, Elizabeth G, Heck, Albert Jr, Helms, J Bernd, and Gadella, Bart M

Published
2023

13. Genomic investigations of unexplained acute hepatitis in children

Author

Morfopoulou, Sofia; https://orcid.org/0000-0001-8181-4548, Buddle, Sarah; https://orcid.org/0000-0002-4738-9469, Montaguth, Oscar Enrique Torres, Atkinson, Laura, Guerra-Assunção, José Afonso; https://orcid.org/0000-0001-6593-403X, Marjaneh, Mahdi Moradi; https://orcid.org/0000-0002-9412-9029, Chiozzi, Riccardo Zenezini, Storey, Nathaniel; https://orcid.org/0000-0001-5942-4674, Campos, Luis; https://orcid.org/0000-0002-4317-0013, Hutchinson, J Ciaran, Counsell, John R; https://orcid.org/0000-0001-9208-101X, Pollara, Gabriele; https://orcid.org/0000-0001-5772-0322, Roy, Sunando, Venturini, Cristina, Antinao Diaz, Juan F, Siam, Ala'a, Tappouni, Luke J; https://orcid.org/0000-0003-2397-0512, Asgarian, Zeinab, Ng, Joanne, Hanlon, Killian S, Lennon, Alexander; https://orcid.org/0000-0002-3363-0637, McArdle, Andrew; https://orcid.org/0000-0001-7448-0869, Czap, Agata, Rosenheim, Joshua; https://orcid.org/0000-0003-0171-2053, Andrade, Catarina, Anderson, Glenn, Lee, Jack C D; https://orcid.org/0000-0002-9866-2808, Williams, Rachel, Williams, Charlotte A, Tutill, Helena; https://orcid.org/0000-0002-9977-9012, et al, Morfopoulou, Sofia; https://orcid.org/0000-0001-8181-4548, Buddle, Sarah; https://orcid.org/0000-0002-4738-9469, Montaguth, Oscar Enrique Torres, Atkinson, Laura, Guerra-Assunção, José Afonso; https://orcid.org/0000-0001-6593-403X, Marjaneh, Mahdi Moradi; https://orcid.org/0000-0002-9412-9029, Chiozzi, Riccardo Zenezini, Storey, Nathaniel; https://orcid.org/0000-0001-5942-4674, Campos, Luis; https://orcid.org/0000-0002-4317-0013, Hutchinson, J Ciaran, Counsell, John R; https://orcid.org/0000-0001-9208-101X, Pollara, Gabriele; https://orcid.org/0000-0001-5772-0322, Roy, Sunando, Venturini, Cristina, Antinao Diaz, Juan F, Siam, Ala'a, Tappouni, Luke J; https://orcid.org/0000-0003-2397-0512, Asgarian, Zeinab, Ng, Joanne, Hanlon, Killian S, Lennon, Alexander; https://orcid.org/0000-0002-3363-0637, McArdle, Andrew; https://orcid.org/0000-0001-7448-0869, Czap, Agata, Rosenheim, Joshua; https://orcid.org/0000-0003-0171-2053, Andrade, Catarina, Anderson, Glenn, Lee, Jack C D; https://orcid.org/0000-0002-9866-2808, Williams, Rachel, Williams, Charlotte A, Tutill, Helena; https://orcid.org/0000-0002-9977-9012, and et al

Abstract

Since its first identification in Scotland, over 1000 cases of unexplained pediatric hepatitis in children have been reported worldwide, including 278 cases in the UK. Here we report investigation of 38 cases, 66 age-matched immunocompetent controls and 21 immunocompromised comparator subjects, using a combination of genomic, transcriptomic, proteomic and immunohistochemical methods. We detected high levels of adeno-associated virus 2 (AAV2) DNA in liver, blood, plasma or stool from 27/28 cases. We found low levels of Adenovirus (HAdV) and Human Herpesvirus 6B (HHV-6B), in 23/31 and 16/23 respectively of the cases tested. In contrast, AAV2 was infrequently detected at low titre in blood or liver from control children with HAdV, even when profoundly immunosuppressed. AAV2, HAdV and HHV-6 phylogeny excluded emergence of novel strains in cases. Histological analyses of explanted livers showed enrichment for T-cells and B-lineage cells. Proteomic comparison of liver tissue from cases and healthy controls, identified increased expression of HLA class 2, immunoglobulin variable regions and complement proteins. HAdV and AAV2 proteins were not detected in the livers. Instead, we identified AAV2 DNA complexes reflecting both HAdV and HHV-6B-mediated replication. We hypothesize that high levels of abnormal AAV2 replication products aided by HAdV and in severe cases HHV-6B, may have triggered immune-mediated hepatic disease in genetically and immunologically predisposed children.

Published
2023

14. Genomic investigations of unexplained acute hepatitis in children

Author

Morfopoulou, Sofia, Buddle, Sarah, Montaguth, Oscar Enrique Torres, Atkinson, Laura, Guerra-Assunção, José Afonso, Marjaneh, Mahdi Moradi, Chiozzi, Riccardo Zenezini, Storey, Nathaniel, Campos, Luis, Hutchinson, J. Ciaran, Counsell, John R., Pollara, Gabriele, Roy, Sunando, Venturini, Cristina, Antinao Diaz, Juan F., Siam, Ala’a, Tappouni, Luke J., Asgarian, Zeinab, Ng, Joanne, Hanlon, Killian S., Lennon, Alexander, McArdle, Andrew, Czap, Agata, Rosenheim, Joshua, Andrade, Catarina, Anderson, Glenn, Lee, Jack C. D., Williams, Rachel, Williams, Charlotte A., Tutill, Helena, Bayzid, Nadua, Bernal, Luz Marina Martin, Macpherson, Hannah, Montgomery, Kylie-Ann, Moore, Catherine, Templeton, Kate, Neill, Claire, Holden, Matt, Gunson, Rory, Shepherd, Samantha J., Shah, Priyen, Cooray, Samantha, Voice, Marie, Steele, Michael, Fink, Colin, Whittaker, Thomas E., Santilli, Giorgia, Gissen, Paul, Kaufer, Benedikt B., Reich, Jana, DIAMONDS consortium, ISARIC 4C Investigators, PERFORM Consortium, Breuer, Judith, University of St Andrews. St Andrews Bioinformatics Unit, University of St Andrews. Infection and Global Health Division, University of St Andrews. Biomedical Sciences Research Complex, and University of St Andrews. School of Medicine

Subjects
MCC, SDG 3 - Good Health and Well-being, RJ, RJ Pediatrics, DAS, QH426 Genetics, QH426
Abstract

Funding: UKHSA funded the metagenomics and HAdV sequencing. The work was part funded by the NIHR Blood and Transplant Research Unit in Genomics to Enhance Microbiology Screening (GEMS), the National Institute for Health and Care Research (CO-CIN-01) or jointly by NIHR and UK Research and Innovation (CV220-169, MC_PC_19059). S. Morfopoulou is funded by a W.T. Henry Wellcome fellowship (206478/Z/17/Z). S.B. and O.E.T.M. are funded by the NIHR Blood and Transplant Research Unit (GEMS). M.M.M. and M.L. are supported in part by the NIHR Biomedical Research Centre of Imperial College NHS Trust. J.B. receives NIHR Senior Investigator Funding. M.N. and J.B. are supported by the Wellcome Trust (207511/Z/17/Z and 203268/Z/16/Z). M.N., J.B. and G.P. are supported by the NIHR University College London Hospitals Biomedical Research Centre. P. Simmonds is supported by the NIHR (NIHR203338). T.S.J. is grateful for funding from the Brain Tumour Charity, Children with Cancer UK, GOSH Children’s Charity, Olivia Hodson Cancer Fund, Cancer Research UK and the NIHR. DIAMONDS is funded by the European Union (Horizon 2020; grant 848196). PERFORM was funded by the European Union (Horizon 2020; grant 668303). Since its first identification in Scotland, over 1000 cases of unexplained pediatric hepatitis in children have been reported worldwide, including 278 cases in the UK1. Here we report investigation of 38 cases, 66 age-matched immunocompetent controls and 21 immunocompromised comparator subjects, using a combination of genomic, transcriptomic, proteomic and immunohistochemical methods. We detected high levels of adeno-associated virus 2 (AAV2) DNA in liver, blood, plasma or stool from 27/28 cases. We found low levels of Adenovirus (HAdV) and Human Herpesvirus 6B (HHV-6B), in 23/31 and 16/23 respectively of the cases tested. In contrast, AAV2 was infrequently detected at low titre in blood or liver from control children with HAdV, even when profoundly immunosuppressed. AAV2, HAdV and HHV-6 phylogeny excluded emergence of novel strains in cases. Histological analyses of explanted livers showed enrichment for T-cells and B-lineage cells. Proteomic comparison of liver tissue from cases and healthy controls, identified increased expression of HLA class 2, immunoglobulin variable regions and complement proteins. HAdV and AAV2 proteins were not detected in the livers. Instead, we identified AAV2 DNA complexes reflecting both HAdV and HHV-6B-mediated replication. We hypothesize that high levels of abnormal AAV2 replication products aided by HAdV and in severe cases HHV-6B, may have triggered immune-mediated hepatic disease in genetically and immunologically predisposed children. Publisher PDF

Published
2023

16. Formation of ER-lumenal intermediates during export of Plasmodium proteins containing transmembrane-like hydrophobic sequences

Author

Levray, Yvette S., primary, Bana, Bianca, additional, Tarr, Sarah J., additional, McLaughlin, Emilia J., additional, Rossi-Smith, Peter, additional, Waltho, Anita, additional, Charlton, Georgina H., additional, Chiozzi, Riccardo Zenezini, additional, Straton, Colin R., additional, Thalassinos, Konstantinos, additional, and Osborne, Andrew R., additional

Published
2023
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20. High Resolution Proteomic Analysis of Subcellular Fractionated Boar Spermatozoa Provides Comprehensive Insights Into Perinuclear Theca-Residing Proteins

Author

Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, University, University Medical Center Utrecht, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, Bromfield, Elizabeth G, Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, University, University Medical Center Utrecht, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, and Bromfield, Elizabeth G

Published
2022

21. Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergism

Author

Krstic, Jelena, Reinisch, Isabel, Schindlmaier, Katharina, Galhuber, Markus, Riahi, Zina, Berger, Natascha, Kupper, Nadja, Moyschewitz, Elisabeth, Auer, Martina, Michenthaler, Helene, Nössing, Christoph, Depaoli, Maria R, Ramadani-Muja, Jeta, Usluer, Sinem, Stryeck, Sarah, Pichler, Martin, Rinner, Beate, Deutsch, Alexander J A, Reinisch, Andreas, Madl, Tobias, Chiozzi, Riccardo Zenezini, Heck, Albert J R, Huch, Meritxell, Malli, Roland, Prokesch, Andreas, Krstic, Jelena, Reinisch, Isabel, Schindlmaier, Katharina, Galhuber, Markus, Riahi, Zina, Berger, Natascha, Kupper, Nadja, Moyschewitz, Elisabeth, Auer, Martina, Michenthaler, Helene, Nössing, Christoph, Depaoli, Maria R, Ramadani-Muja, Jeta, Usluer, Sinem, Stryeck, Sarah, Pichler, Martin, Rinner, Beate, Deutsch, Alexander J A, Reinisch, Andreas, Madl, Tobias, Chiozzi, Riccardo Zenezini, Heck, Albert J R, Huch, Meritxell, Malli, Roland, and Prokesch, Andreas

Abstract

Cancer cells voraciously consume nutrients to support their growth, exposing metabolic vulnerabilities that can be therapeutically exploited. Here, we show in hepatocellular carcinoma (HCC) cells, xenografts, and patient-derived organoids that fasting improves sorafenib efficacy and acts synergistically to sensitize sorafenib-resistant HCC. Mechanistically, sorafenib acts noncanonically as an inhibitor of mitochondrial respiration, causing resistant cells to depend on glycolysis for survival. Fasting, through reduction in glucose and impeded AKT/mTOR signaling, prevents this Warburg shift. Regulating glucose transporter and proapoptotic protein expression, p53 is necessary and sufficient for the sorafenib-sensitizing effect of fasting. p53 is also crucial for fasting-mediated improvement of sorafenib efficacy in an orthotopic HCC mouse model. Together, our data suggest fasting and sorafenib as rational combination therapy for HCC with intact p53 signaling. As HCC therapy is currently severely limited by resistance, these results should instigate clinical studies aimed at improving therapy response in advanced-stage HCC.

Published
2022

22. High Resolution Proteomic Analysis of Subcellular Fractionated Boar Spermatozoa Provides Comprehensive Insights Into Perinuclear Theca-Residing Proteins

Author

Veterinaire biochemie, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, dB&C FR-RMSC FR, dB&C FR-RMSC RMSC, FAH klinische reproductie, dES/dFAH FR, Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, University, University Medical Center Utrecht, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, Bromfield, Elizabeth G, Veterinaire biochemie, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, dB&C FR-RMSC FR, dB&C FR-RMSC RMSC, FAH klinische reproductie, dES/dFAH FR, Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, University, University Medical Center Utrecht, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, and Bromfield, Elizabeth G

Published
2022

23. Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergism

Author

Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Biomolecular Mass Spectrometry and Proteomics, Krstic, Jelena, Reinisch, Isabel, Schindlmaier, Katharina, Galhuber, Markus, Riahi, Zina, Berger, Natascha, Kupper, Nadja, Moyschewitz, Elisabeth, Auer, Martina, Michenthaler, Helene, Nössing, Christoph, Depaoli, Maria R, Ramadani-Muja, Jeta, Usluer, Sinem, Stryeck, Sarah, Pichler, Martin, Rinner, Beate, Deutsch, Alexander J A, Reinisch, Andreas, Madl, Tobias, Chiozzi, Riccardo Zenezini, Heck, Albert J R, Huch, Meritxell, Malli, Roland, Prokesch, Andreas, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Biomolecular Mass Spectrometry and Proteomics, Krstic, Jelena, Reinisch, Isabel, Schindlmaier, Katharina, Galhuber, Markus, Riahi, Zina, Berger, Natascha, Kupper, Nadja, Moyschewitz, Elisabeth, Auer, Martina, Michenthaler, Helene, Nössing, Christoph, Depaoli, Maria R, Ramadani-Muja, Jeta, Usluer, Sinem, Stryeck, Sarah, Pichler, Martin, Rinner, Beate, Deutsch, Alexander J A, Reinisch, Andreas, Madl, Tobias, Chiozzi, Riccardo Zenezini, Heck, Albert J R, Huch, Meritxell, Malli, Roland, and Prokesch, Andreas

Published
2022

24. The Q-junction and the inflammatory response are critical pathological and therapeutic factors in CoQ deficiency

Author

Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Veterinaire biochemie, Biomolecular Mass Spectrometry and Proteomics, González-García, Pilar, Díaz-Casado, María Elena, Hidalgo-Gutiérrez, Agustín, Jiménez-Sánchez, Laura, Bakkali, Mohammed, Barriocanal-Casado, Eliana, Escames, Germaine, Chiozzi, Riccardo Zenezini, Völlmy, Franziska, Zaal, Esther A., Berkers, Celia R., Heck, Albert J.R., López, Luis C., Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Veterinaire biochemie, Biomolecular Mass Spectrometry and Proteomics, González-García, Pilar, Díaz-Casado, María Elena, Hidalgo-Gutiérrez, Agustín, Jiménez-Sánchez, Laura, Bakkali, Mohammed, Barriocanal-Casado, Eliana, Escames, Germaine, Chiozzi, Riccardo Zenezini, Völlmy, Franziska, Zaal, Esther A., Berkers, Celia R., Heck, Albert J.R., and López, Luis C.

Published
2022

25. High Resolution Proteomic Analysis of Subcellular Fractionated Boar Spermatozoa Provides Comprehensive Insights Into Perinuclear Theca-Residing Proteins

Author

CMM Groep Klumperman, Cancer, CMM Sectie Celbiologie, Brain, Regenerative Medicine and Stem Cells, Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, Klumperman, Judith, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, Bromfield, Elizabeth G, CMM Groep Klumperman, Cancer, CMM Sectie Celbiologie, Brain, Regenerative Medicine and Stem Cells, Zhang, Min, Chiozzi, Riccardo Zenezini, Skerrett-Byrne, David A, Veenendaal, Tineke, Klumperman, Judith, Heck, Albert J R, Nixon, Brett, Helms, J Bernd, Gadella, Bart M, and Bromfield, Elizabeth G

Published
2022

26. High Resolution Proteomic Analysis of Subcellular Fractionated Boar Spermatozoa Provides Comprehensive Insights Into Perinuclear Theca-Residing Proteins

Author

Zhang, Min, primary, Chiozzi, Riccardo Zenezini, additional, Skerrett-Byrne, David A., additional, Veenendaal, Tineke, additional, Klumperman, Judith, additional, Heck, Albert J. R., additional, Nixon, Brett, additional, Helms, J. Bernd, additional, Gadella, Bart M., additional, and Bromfield, Elizabeth G., additional

Published
2022
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27. Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergism

Author

Krstic, Jelena, primary, Reinisch, Isabel, additional, Schindlmaier, Katharina, additional, Galhuber, Markus, additional, Riahi, Zina, additional, Berger, Natascha, additional, Kupper, Nadja, additional, Moyschewitz, Elisabeth, additional, Auer, Martina, additional, Michenthaler, Helene, additional, Nössing, Christoph, additional, Depaoli, Maria R., additional, Ramadani-Muja, Jeta, additional, Usluer, Sinem, additional, Stryeck, Sarah, additional, Pichler, Martin, additional, Rinner, Beate, additional, Deutsch, Alexander J. A., additional, Reinisch, Andreas, additional, Madl, Tobias, additional, Chiozzi, Riccardo Zenezini, additional, Heck, Albert J. R., additional, Huch, Meritxell, additional, Malli, Roland, additional, and Prokesch, Andreas, additional

Published
2022
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28. Complementary Omics Strategies to Dissect p53 Signaling Networks Under Nutrient Stress

Author

Galhuber, Markus, primary, Michenthaler, Helene, additional, Heininger, Christoph, additional, Reinisch, Isabel, additional, Nössing, Christoph, additional, Krstic, Jelena, additional, Kupper, Nadja, additional, Moyschewitz, Elisabeth, additional, Auer, Martina, additional, Heitzer, Ellen, additional, Ulz, Peter, additional, Birner-Gruenberger, Ruth, additional, Liesinger, Laura, additional, Lenihan-Geels, Georgia Ngawai, additional, Oster, Moritz, additional, Spreitzer, Emil, additional, Chiozzi, Riccardo Zenezini, additional, Schulz, Tim J., additional, Schupp, Michael, additional, Madl, Tobias, additional, J.R., Albert, additional, and Prokesch, Andreas, additional

Published
2022
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29. Food Proteins and Peptides

Author

Samperi, Roberto, primary, Capriotti, Anna Laura, additional, Cavaliere, Chiara, additional, Colapicchioni, Valentina, additional, Chiozzi, Riccardo Zenezini, additional, and Laganà, Aldo, additional

Published
2015
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31. In-cell structures of a conserved supramolecular array at the mitochondria-cytoskeleton interface in mammalian sperm

Author

Leung, Miguel Ricardo, Chiozzi, Riccardo Zenezini, Roelofs, Marc C, Hevler, Johannes F, Ravi, Ravi Teja, Maitan, Paula, Zhang, Min, Henning, Heiko, Bromfield, Elizabeth G, Howes, Stuart C, Gadella, Bart M, Heck, Albert J R, Zeev-Ben-Mordehai, Tzviya, Leung, Miguel Ricardo, Chiozzi, Riccardo Zenezini, Roelofs, Marc C, Hevler, Johannes F, Ravi, Ravi Teja, Maitan, Paula, Zhang, Min, Henning, Heiko, Bromfield, Elizabeth G, Howes, Stuart C, Gadella, Bart M, Heck, Albert J R, and Zeev-Ben-Mordehai, Tzviya

Abstract

1 Mitochondria-cytoskeleton interactions modulate cellular 2 physiology by regulating mitochondrial transport, position-3 ing, and immobilization. However, there is very little struc-4 tural information defining mitochondria-cytoskeleton inter-5 faces in any cell type. Here, we use cryo-focused ion beam 6 milling-enabled cryo-electron tomography to image mam-7 malian sperm, where mitochondria wrap around the ciliary 8 cytoskeleton. We find that mitochondria are tethered to their 9 neighbors through inter-mitochondrial linkers and are an-10 chored to the cytoskeleton through ordered arrays on the 11 outer mitochondrial membrane. We use subtomogram aver-12 aging to resolve in-cell structures of these arrays from three 13 mammalian species, revealing they are conserved across 14 species despite variations in mitochondrial dimensions and 15 cristae organization. We find that the arrays consist of 16 boat-shaped particles anchored on a network of membrane 17 pores whose arrangement and dimensions are consistent 18 with voltage dependent anion channels. Proteomics and in-19 cell cross-linking mass spectrometry suggest that the con-20 served arrays are composed of glycerol kinase-like proteins. 21 Ordered supramolecular assemblies may serve to stabilize 22 similar contact sites in other cell types where mitochondria 23 need to be immobilized in specific subcellular environments, 24 such as in muscles and neurons. 25 sperm | mitochondria-cytoskeleton contact | cryo-electron tomography | cryo-26 FIB milling | cross-linking mass spectrometry | subtomogram averaging 27

Published
2021

32. In-cell structures of a conserved supramolecular array at the mitochondria-cytoskeleton interface in mammalian sperm

Author

Sub Cryo - EM, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Veterinaire biochemie, dES/dFAH FR, FAH klinische reproductie, dB&C FR-RMSC FR, Cryo-EM, Biomolecular Mass Spectrometry and Proteomics, Leung, Miguel Ricardo, Chiozzi, Riccardo Zenezini, Roelofs, Marc C, Hevler, Johannes F, Ravi, Ravi Teja, Maitan, Paula, Zhang, Min, Henning, Heiko, Bromfield, Elizabeth G, Howes, Stuart C, Gadella, Bart M, Heck, Albert J R, Zeev-Ben-Mordehai, Tzviya, Sub Cryo - EM, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Veterinaire biochemie, dES/dFAH FR, FAH klinische reproductie, dB&C FR-RMSC FR, Cryo-EM, Biomolecular Mass Spectrometry and Proteomics, Leung, Miguel Ricardo, Chiozzi, Riccardo Zenezini, Roelofs, Marc C, Hevler, Johannes F, Ravi, Ravi Teja, Maitan, Paula, Zhang, Min, Henning, Heiko, Bromfield, Elizabeth G, Howes, Stuart C, Gadella, Bart M, Heck, Albert J R, and Zeev-Ben-Mordehai, Tzviya

Published
2021

33. Is there a serum proteome signature to predict mortality in severe COVID-19 patients?

Author

Völlmy, Franziska, primary, van den Toorn, Henk, additional, Chiozzi, Riccardo Zenezini, additional, Zucchetti, Ottavio, additional, Papi, Alberto, additional, Volta, Carlo Alberto, additional, Marracino, Luisa, additional, Vieceli Dalla Sega, Francesco, additional, Fortini, Francesca, additional, Campo, Gianluca, additional, Contoli, Marco, additional, Spadaro, Savino, additional, Rizzo, Paola, additional, and Heck, Albert J.R., additional

Published
2021
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34. In-cell structures of a conserved supramolecular array at the mitochondria-cytoskeleton interface in mammalian sperm

Author

Leung, Miguel Ricardo, primary, Chiozzi, Riccardo Zenezini, additional, Roelofs, Marc C., additional, Hevler, Johannes F., additional, Ravi, Ravi Teja, additional, Maitan, Paula, additional, Zhang, Min, additional, Henning, Heiko, additional, Bromfield, Elizabeth G., additional, Howes, Stuart C., additional, Gadella, Bart M., additional, Heck, Albert J.R., additional, and Zeev-Ben-Mordehai, Tzviya, additional

Published
2021
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35. Fasting reverses drug-resistance in hepatocellular carcinoma through p53-dependent metabolic synergism

Author

Krstic, Jelena, primary, Reinisch, Isabel, additional, Schindlmaier, Katharina, additional, Galhuber, Markus, additional, Berger, Natascha, additional, Kupper, Nadja, additional, Moyschewitz, Elisabeth, additional, Auer, Martina, additional, Michenthaler, Helene, additional, Nössing, Christoph, additional, Depaoli, Maria R., additional, Ramadani-Muja, Jeta, additional, Stryeck, Sarah, additional, Pichler, Martin, additional, Rinner, Beate, additional, Deutsch, Alexander J.A., additional, Reinisch, Andreas, additional, Madl, Tobias, additional, Chiozzi, Riccardo Zenezini, additional, Heck, Albert J.R., additional, Huch, Meritxell, additional, Malli, Roland, additional, and Prokesch, Andreas, additional

Published
2021
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37. Correction: Disease-specific protein corona sensor arrays may have disease detection capacity

Author

Caracciolo, Giulio, primary, Safavi-Sohi, Reihaneh, additional, Malekzadeh, Reza, additional, Poustchi, Hossein, additional, Vasighi, Mahdi, additional, Chiozzi, Riccardo Zenezini, additional, Capriotti, Anna Laura, additional, Laganà, Aldo, additional, Hajipour, Mohammad, additional, Di Domenico, Marina, additional, Di Carlo, Angelina, additional, Caputo, Damiano, additional, Aghaverdi, Haniyeh, additional, Papi, Massimiliano, additional, Palmieri, Valentina, additional, Santoni, Angela, additional, Palchetti, Sara, additional, Digiacomo, Luca, additional, Pozzi, Daniela, additional, Suslick, Kenneth S., additional, and Mahmoudi, Morteza, additional

Published
2020
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38. A serum proteome signature to predict mortality in severe COVID-19 patients.

Author

Völlmy, Franziska, Henk van den Toorn, Chiozzi, Riccardo Zenezini, Zucchetti, Ottavio, Papi, Alberto, Volta, Carlo Alberto, Marracino, Luisa, Sega, Francesco Vieceli Dalla, Fortini, Francesca, Demichev, Vadim, Tober-Lau, Pinkus, Campo, Gianluca, Contoli, Marco, Ralser, Markus, Kurth, Florian, Spadaro, Savino, Rizzo, Paola, and Heck, Albert J. R.

Published
2021
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39. Human Biomolecular Corona of Liposomal Doxorubicin: The Overlooked Factor in Anticancer Drug Delivery

Author

Caracciolo, Giulio, primary, Palchetti, Sara, additional, Digiacomo, Luca, additional, Chiozzi, Riccardo Zenezini, additional, Capriotti, Anna Laura, additional, Amenitsch, Heinz, additional, Tentori, Paolo Maria, additional, Palmieri, Valentina, additional, Papi, Massimiliano, additional, Cardarelli, Francesco, additional, Pozzi, Daniela, additional, and Laganà, Aldo, additional

Published
2018
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41. Disease-specific protein corona sensor arrays may have disease detection capacity.

Author

Caracciolo, Giulio, Safavi-Sohi, Reihaneh, Malekzadeh, Reza, Poustchi, Hossein, Vasighi, Mahdi, Chiozzi, Riccardo Zenezini, Capriotti, Anna Laura, Laganà, Aldo, Hajipour, Mohammad, Di Domenico, Marina, Di Carlo, Angelina, Caputo, Damiano, Aghaverdi, Haniyeh, Papi, Massimiliano, Palmieri, Valentina, Santoni, Angela, Palchetti, Sara, Digiacomo, Luca, Pozzi, Daniela, and Suslick, Kenneth S.

Published
2019
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42. A Rapid Magnetic Solid Phase Extraction Method Followed by Liquid Chromatography-Tandem Mass Spectrometry Analysis for the Determination of Mycotoxins in Cereals.

Author

La Barbera, Giorgia, Capriotti, Anna Laura, Cavaliere, Chiara, Foglia, Patrizia, Montone, Carmela Maria, Chiozzi, Riccardo Zenezini, and Laganà, Aldo

Subjects
MYCOTOXINS, COMPOSITION of grain, SOLID phase extraction, LIQUID chromatography-mass spectrometry, CARBON-black
Abstract

Mycotoxins can contaminate various food commodities, including cereals. Moreover, mycotoxins of different classes can co-contaminate food, increasing human health risk. Several analytical methods have been published in the literature dealing with mycotoxins determination in cereals. Nevertheless, in the present work, the aim was to propose an easy and effective system for the extraction of six of the main mycotoxins from corn meal and durum wheat flour, i.e., the main four aflatoxins, ochratoxin A, and the mycoestrogen zearalenone. The developed method exploited magnetic solid phase extraction (SPE), a technique that is attracting an increasing interest as an alternative to classical SPE. Therefore, the use of magnetic graphitized carbon black as a suitable extracting material was tested. The same magnetic material proved to be effective in the extraction of mycoestrogens from milk, but has never been applied to complex matrices as cereals. Ultra high-performance liquid chromatography tandem mass spectrometry was used for detection. Recoveries were >60% in both cereals, even if the matrix effects were not negligible. The limits of quantification of the method results were comparable to those obtained by other two magnetic SPE-based methods applied to cereals, which were limited to one or two mycotoxins, whereas in this work the investigated mycotoxins belonged to three different chemical classes. [ABSTRACT FROM AUTHOR]

Published
2017
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44. Fasting improves therapeutic response in hepatocellular carcinoma through p53-dependent metabolic synergism

Author

Krstic, Jelena, Reinisch, Isabel, Schindlmaier, Katharina, Galhuber, Markus, Riahi, Zina, Berger, Natascha, Kupper, Nadja, Moyschewitz, Elisabeth, Auer, Martina, Michenthaler, Helene, Nössing, Christoph, Depaoli, Maria R, Ramadani-Muja, Jeta, Usluer, Sinem, Stryeck, Sarah, Pichler, Martin, Rinner, Beate, Deutsch, Alexander J A, Reinisch, Andreas, Madl, Tobias, Chiozzi, Riccardo Zenezini, Heck, Albert J R, Huch, Meritxell, Malli, Roland, Prokesch, Andreas, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, Biomolecular Mass Spectrometry and Proteomics, Sub Biomol.Mass Spectrometry & Proteom., Afd Biomol.Mass Spect. and Proteomics, and Biomolecular Mass Spectrometry and Proteomics

Subjects
Multidisciplinary, SciAdv r-articles, ddc:610, Biomedicine and Life Sciences, Health and Medicine, General, neoplasms, digestive system diseases, Research Article, Cancer
Abstract

Cancer cells voraciously consume nutrients to support their growth, exposing metabolic vulnerabilities that can be therapeutically exploited. Here, we show in hepatocellular carcinoma (HCC) cells, xenografts, and patient-derived organoids that fasting improves sorafenib efficacy and acts synergistically to sensitize sorafenib-resistant HCC. Mechanistically, sorafenib acts noncanonically as an inhibitor of mitochondrial respiration, causing resistant cells to depend on glycolysis for survival. Fasting, through reduction in glucose and impeded AKT/mTOR signaling, prevents this Warburg shift. Regulating glucose transporter and proapoptotic protein expression, p53 is necessary and sufficient for the sorafenib-sensitizing effect of fasting. p53 is also crucial for fasting-mediated improvement of sorafenib efficacy in an orthotopic HCC mouse model. Together, our data suggest fasting and sorafenib as rational combination therapy for HCC with intact p53 signaling. As HCC therapy is currently severely limited by resistance, these results should instigate clinical studies aimed at improving therapy response in advanced-stage HCC., Description, Our preclinical study shows that fasting can improve liver cancer therapy outcome in models with functional tumor suppressor p53.

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45. Correction: Disease-specific protein corona sensor arrays may have disease detection capacity

Author

Damiano Caputo, Giulio Caracciolo, Marina Di Domenico, Morteza Mahmoudi, Daniela Pozzi, Valentina Palmieri, Haniyeh Aghaverdi, Reza Malekzadeh, Mohammad Javad Hajipour, Kenneth S. Suslick, Aldo Laganà, Hossein Poustchi, Massimiliano Papi, Angelina Di Carlo, Angela Santoni, Luca Digiacomo, Riccardo Zenezini Chiozzi, Mahdi Vasighi, Reihaneh Safavi-Sohi, Sara Palchetti, Anna Laura Capriotti, Caracciolo, Giulio, Safavi-Sohi, Reihaneh, Malekzadeh, Reza, Poustchi, Hossein, Vasighi, Mahdi, Chiozzi, Riccardo Zenezini, Capriotti, Anna Laura, Laganà, Aldo, Hajipour, Mohammad, Di Domenico, Marina, Di Carlo, Angelina, Caputo, Damiano, Aghaverdi, Haniyeh, Papi, Massimiliano, Palmieri, Valentina, Santoni, Angela, Palchetti, Sara, Digiacomo, Luca, Pozzi, Daniela, Suslick, Kenneth S., and Mahmoudi, Morteza

Subjects
Disease specific, Materials science, Disease detection, business.industry, Optoelectronics, General Materials Science, Protein Corona, business
Abstract

Correction for ‘Disease-specific protein corona sensor arrays may have disease detection capacity’ by Giulio Caracciolo et al., Nanoscale Horiz., 2019, 4, 1063–1076.

Published
2020
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46. Hydrophilic Strong Anion Exchange (hSAX) Chromatography Enables Deep Fractionation of Tissue Proteomes.

Author

Ruprecht B, Wang D, Chiozzi RZ, Li LH, Hahne H, and Kuster B

Subjects
Chromatography, Liquid, Humans, Hydrophobic and Hydrophilic Interactions, Software, Statistics as Topic, Tandem Mass Spectrometry, Chemical Fractionation methods, Chromatography, Ion Exchange methods, Proteome, Proteomics methods
Abstract

The bottom-up proteomic analysis of cell line and tissue samples to a depth > 10,000 proteins still represents a considerable challenge because of the sheer number of peptides generated by proteolytic digestions and the high dynamic range of protein expression. As a result, comprehensive protein coverage requires multidimensional peptide separation. Recently, off-line hydrophilic strong cation exchange (hSAX) chromatography has proven its merits for high resolution separation of peptides due to its high degree of orthogonality to reversed-phase liquid chromatography. Here we describe the use of hSAX for the deep analysis of tissue proteomes. The protocol includes optimized sample preparation steps (lysis with the aid of mechanical disruption, one-step disulfide bridge reduction and alkylation), setup and operation of hSAX columns and gradients, desalting of hSAX fractions prior to LC-MS/MS analysis, and suggestions for the choice of data acquisition parameters and data analysis using MaxQuant. Application of the protocol to the fractionation of 300 μg human brain tissue digest led to the identification of more than 100,000 unique peptide sequences representing over 10,195 proteins and 9,500 genes in 3 days of measurement time on a Q Exactive Plus mass spectrometer.

Published
2017
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