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2024 Journal Article Proteomic analysis of natural photoheterotrophic mixed consortium for biohydrogen production under nongrowing conditionsEduardo Hernández-Guisao, Rafael, Axayacatl González-García, Ricardo, McCubbin, Tim, Guerra-Blanco, Pamela, Salgado Manjarrez, Edgar, Aranda-Barradas, Juan, Velasco, Antonio and Inés García-Peña, Elvia (2024). Proteomic analysis of natural photoheterotrophic mixed consortium for biohydrogen production under nongrowing conditions. Bioresource Technology, 419 132023, 132023. doi: 10.1016/j.biortech.2024.132023 |
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2024 Journal Article LowTempGAL: a highly responsive low temperature-inducible GAL system in Saccharomyces cerevisiaeLu, Zeyu, Shen, Qianyi, Bandari, Naga Chandra, Evans, Samuel, Mcdonnell, Liam, Liu, Lian, Jin, Wanli, Luna-Flores, Carlos Horacio, Collier, Thomas, Talbo, Gert, Mccubbin, Tim, Esquirol, Lygie, Myers, Chris, Trau, Matt, Dumsday, Geoff, Speight, Robert, Howard, Christopher B., Vickers, Claudia E. and Peng, Bingyin (2024). LowTempGAL: a highly responsive low temperature-inducible GAL system in Saccharomyces cerevisiae. Nucleic Acids Research, 52 (12) gkae460, 7367-7383. doi: 10.1093/nar/gkae460 |
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2024 Journal Article Adaptive laboratory evolution of Clostridium autoethanogenum to metabolize CO2 and H2 enhances growth rates in chemostat and unravels proteome and metabolome alterationsHeffernan, James, Garcia Gonzalez, R. Axayactl, Mahamkali, Vishnu, McCubbin, Tim, Daygon, Dara, Liu, Lian, Palfreyman, Robin, Harris, Audrey, Koepke, Michael, Valgepea, Kaspar, Nielsen, Lars Keld and Marcellin, Esteban (2024). Adaptive laboratory evolution of Clostridium autoethanogenum to metabolize CO2 and H2 enhances growth rates in chemostat and unravels proteome and metabolome alterations. Microbial Biotechnology, 17 (4) e14452, e14452. doi: 10.1111/1751-7915.14452 |
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2024 Journal Article A universal molecular control for DNA, mRNA and protein expressionGunter, Helen M., Youlten, Scott E., Reis, Andre L. M., McCubbin, Tim, Madala, Bindu Swapna, Wong, Ted, Stevanovski, Igor, Cipponi, Arcadi, Deveson, Ira W., Santini, Nadia S., Kummerfeld, Sarah, Croucher, Peter I., Marcellin, Esteban and Mercer, Tim R. (2024). A universal molecular control for DNA, mRNA and protein expression. Nature Communications, 15 (1) 2480, 1-13. doi: 10.1038/s41467-024-46456-9 |
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2024 Journal Article Amino acid degradation pathway inhibitory by‐products trigger apoptosis in CHO cellsMartínez, Verónica S., Rodriguez, Karen, McCubbin, Timothy, Tong, Junjie, Mahler, Stephen, Shave, Evan, Baker, Kym, Munro, Trent P. and Marcellin, Esteban (2024). Amino acid degradation pathway inhibitory by‐products trigger apoptosis in CHO cells. Biotechnology Journal, 19 (2) e2300338, e2300338. doi: 10.1002/biot.202300338 |
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2023 Journal Article Quantitative subcellular reconstruction reveals a lipid mediated inter-organelle biogenesis networkLee, Richard G., Rudler, Danielle L., Raven, Samuel A., Peng, Liuyu, Chopin, Anaëlle, Moh, Edward S. X., McCubbin, Tim, Siira, Stefan J., Fagan, Samuel V., DeBono, Nicholas J., Stentenbach, Maike, Browne, Jasmin, Rackham, Filip F., Li, Ji, Simpson, Kaylene J., Marcellin, Esteban, Packer, Nicolle H., Reid, Gavin E., Padman, Benjamin S., Rackham, Oliver and Filipovska, Aleksandra (2023). Quantitative subcellular reconstruction reveals a lipid mediated inter-organelle biogenesis network. Nature Cell Biology, 26 (1), 57-71. doi: 10.1038/s41556-023-01297-4 |
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2023 Journal Article Comparative constraint‐based modelling of fruit development across species highlights nitrogen metabolism in the growth‐defence trade‐offColombié, Sophie, Prigent, Sylvain, Cassan, Cédric, Hilbert‐Masson, Ghislaine, Renaud, Christel, Dell'Aversana, Emilia, Carillo, Petronia, Moing, Annick, Beaumont, Chloé, Beauvoit, Bertrand, McCubbin, Tim, Nielsen, Lars Keld and Gibon, Yves (2023). Comparative constraint‐based modelling of fruit development across species highlights nitrogen metabolism in the growth‐defence trade‐off. The Plant Journal, 116 (3), 786-803. doi: 10.1111/tpj.16409 |
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2023 Journal Article An integrated systems biology approach reveals differences in formate metabolism in the genus MethanothermobacterCasini, Isabella, McCubbin, Tim, Esquivel-Elizondo, Sofia, Luque, Guillermo G., Evseeva, Daria, Fink, Christian, Beblawy, Sebastian, Youngblut, Nicholas D., Aristilde, Ludmilla, Huson, Daniel H., Dräger, Andreas, Ley, Ruth E., Marcellin, Esteban, Angenent, Largus T. and Molitor, Bastian (2023). An integrated systems biology approach reveals differences in formate metabolism in the genus Methanothermobacter. iScience, 26 (10) 108016, 1-26. doi: 10.1016/j.isci.2023.108016 |
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2023 Journal Article Multi-omic profiling reveals an RNA processing rheostat that predisposes to prostate cancerStentenbach, Maike, Ermer, Judith A, Rudler, Danielle L, Perks, Kara L, Raven, Samuel A, Lee, Richard G, McCubbin, Tim, Marcellin, Esteban, Siira, Stefan J, Rackham, Oliver and Filipovska, Aleksandra (2023). Multi-omic profiling reveals an RNA processing rheostat that predisposes to prostate cancer. EMBO Molecular Medicine, 15 (6) e17463, 1-22. doi: 10.15252/emmm.202317463 |
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2023 Journal Article Copy number variation in tRNA isodecoder genes impairs mammalian development and balanced translationHughes, Laetitia A., Rudler, Danielle L., Siira, Stefan J., McCubbin, Tim, Raven, Samuel A., Browne, Jasmin M., Ermer, Judith A., Rientjes, Jeanette, Rodger, Jennifer, Marcellin, Esteban, Rackham, Oliver and Filipovska, Aleksandra (2023). Copy number variation in tRNA isodecoder genes impairs mammalian development and balanced translation. Nature Communications, 14 (1) 2210, 1-19. doi: 10.1038/s41467-023-37843-9 |
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2023 Journal Article Dysregulated energy metabolism impairs chondrocyte function in osteoarthritisWu, X., Liyanage, C., Plan, M., Stark, T., McCubbin, T., Barrero, R. A., Batra, J., Crawford, R., Xiao, Y. and Prasadam, I. (2023). Dysregulated energy metabolism impairs chondrocyte function in osteoarthritis. Osteoarthritis and Cartilage, 31 (5), 613-626. doi: 10.1016/j.joca.2022.11.004 |
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2022 Journal Article Deleterious variants in CRLS1 lead to cardiolipin deficiency and cause an autosomal recessive multi-system mitochondrial diseaseLee, Richard G., Balasubramaniam, Shanti, Stentenbach, Maike, Kralj, Tom, McCubbin, Tim, Padman, Benjamin, Smith, Janine, Riley, Lisa G., Priyadarshi, Archana, Peng, Liuyu, Nuske, Madison R., Webster, Richard, Peacock, Ken, Roberts, Philip, Stark, Zornitza, Lemire, Gabrielle, Ito, Yoko A., Boycott, Kym M., Geraghty, Michael T., Klinken, Jan Bert, Ferdinandusse, Sacha, Zhou, Ying, Walsh, Rebecca, Marcellin, Esteban, Thorburn, David R., Rosciolli, Tony, Fletcher, Janice, Rackham, Oliver, Vaz, Frédéric M. ... Care4Rare Canada Consortium (2022). Deleterious variants in CRLS1 lead to cardiolipin deficiency and cause an autosomal recessive multi-system mitochondrial disease. Human Molecular Genetics, 31 (21), 3597-3612. doi: 10.1093/hmg/ddac040 |
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2022 Journal Article A genome-scale metabolic model of Methanoperedens nitroreducens: assessing bioenergetics and thermodynamic feasibilityHe, Bingqing, Cai, Chen, McCubbin, Tim, Muriel, Jorge Carrasco, Sonnenschein, Nikolaus, Hu, Shihu, Yuan, Zhiguo and Marcellin, Esteban (2022). A genome-scale metabolic model of Methanoperedens nitroreducens: assessing bioenergetics and thermodynamic feasibility. Metabolites, 12 (4) 314, 314. doi: 10.3390/metabo12040314 |
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2021 Journal Article multiTFA: a Python package for multi-variate thermodynamics-based flux analysisMahamkali, Vishnuvardhan, McCubbin, Tim, Beber, Moritz Emanuel, Noor, Elad, Marcellin, Esteban and Nielsen, Lars Keld (2021). multiTFA: a Python package for multi-variate thermodynamics-based flux analysis. Bioinformatics, 37 (18), 3064-3066. doi: 10.1093/bioinformatics/btab151 |
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2020 Journal Article A pan-genome guided metabolic network reconstruction of five Propionibacterium species reveals extensive metabolic diversityMcCubbin, Tim, Gonzalez-Garcia, R. Axayacatl, Palfreyman, Robin W., Stowers, Chris, Nielsen, Lars K. and Marcellin, Esteban (2020). A pan-genome guided metabolic network reconstruction of five Propionibacterium species reveals extensive metabolic diversity. Genes, 11 (10) 1115, 1-26. doi: 10.3390/genes11101115 |
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2020 Journal Article Engineering Escherichia coli for propionic acid production through the Wood‐Werkman cycleGonzalez‐Garcia, R. A., McCubbin, T., Turner, M. S., Nielsen, L. K. and Marcellin, E. (2020). Engineering Escherichia coli for propionic acid production through the Wood‐Werkman cycle. Biotechnology and Bioengineering, 117 (1), 167-183. doi: 10.1002/bit.27182 |
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2017 Journal Article Genome-scale model guided design of Propionibacterium for enhanced propionic acid productionNavone, Laura, McCubbin, Tim, Gonzalez-Garcia, Ricardo A., Nielsen, Lars K. and Marcellin, Esteban (2017). Genome-scale model guided design of Propionibacterium for enhanced propionic acid production. Metabolic Engineering Communications, 6, 1-12. doi: 10.1016/j.meteno.2017.11.001 |
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2017 Journal Article Awakening sleeping beauty: production of propionic acid in Escherichia coli through the sbm operon requires the activity of a methylmalonyl-CoA epimeraseGonzalez-Garcia, Ricardo Axayacatl, McCubbin, Tim, Wille, Annalena, Plan, Manuel, Nielsen, Lars Keld and Marcellin, Esteban (2017). Awakening sleeping beauty: production of propionic acid in Escherichia coli through the sbm operon requires the activity of a methylmalonyl-CoA epimerase. Microbial Cell Factories, 16 (1) 121, 121. doi: 10.1186/s12934-017-0735-4 |
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2017 Journal Article Microbial Propionic Acid ProductionGonzalez Garcia, Ricardo Axayacatl, McCubbin, Timothy, Navone, Laura, Stowers, Chris, Nielsen, Lars K. and Marcellin Saldana, Esteban Stefane (2017). Microbial Propionic Acid Production. Fermentation, 3 (2) 3020021, 1-20. doi: 10.3390/fermentation3020021 |
