Publications

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Matthews ML, Burgess SJ. How much could improving photosynthesis increase crop yields? A call for systems-level perspectives to guide engineering strategies. Current Opinion in Biotechnology 2024;88:103144. https://doi.org/10.1016/j.copbio.2024.103144. Cite
[1]
He Y, Wang Y, Friedel D, Lang M, Matthews ML. Connecting detailed photosynthetic kinetics to crop growth and yield: a coupled modelling framework. In Silico Plants 2024;6:diae009. https://doi.org/10.1093/insilicoplants/diae009. Cite
[1]
Liang X-Z, Gower D, Kennedy JA, Kenney M, Maddox MC, Gerst M, et al. DAWN: Dashboard for Agricultural Water Use and Nutrient Management—A Predictive Decision Support System to Improve Crop Production in a Changing Climate. Bulletin of the American Meteorological Society 2024;105:E432–41. https://doi.org/10.1175/BAMS-D-22-0221.1. Cite
[1]
He Y, Jaiswal D, Long SP, Liang X-Z, Matthews ML. Biomass yield potential on U.S. marginal land and its contribution to reach net-zero emission. GCB Bioenergy 2024;16:e13128. https://doi.org/10.1111/gcbb.13128. Cite
[1]
Sulis DB, Jiang X, Yang C, Marques BM, Matthews ML, Miller Z, et al. Multiplex CRISPR editing of wood for sustainable fiber production. Science 2023;381:216–21. https://doi.org/10.1126/science.add4514. Cite
[1]
Matthews ML. Engineering photosynthesis, nature’s carbon capture machine. PLOS Biology 2023;21:e3002183. https://doi.org/10.1371/journal.pbio.3002183. Cite
[1]
He Y, Matthews ML. Seasonal climate conditions impact the effectiveness of improving photosynthesis to increase soybean yield. Field Crops Research 2023;296:108907. https://doi.org/10.1016/j.fcr.2023.108907. Cite
[1]
Holland BL, Matthews ML, Bota P, Sweetlove LJ, Long SP, diCenzo GC. A genome-scale metabolic reconstruction of soybean and Bradyrhizobium diazoefficiens reveals the cost–benefit of nitrogen fixation. New Phytologist 2023;240:744–56. https://doi.org/10.1111/nph.19203. Cite
[1]
Consortium IPS. Inclusive collaboration across plant physiology and genomics: Now is the time! Plant Direct 2023;7:e493. https://doi.org/10.1002/pld3.493. Cite
[1]
Matthews ML, Marshall-Colón A, McGrath JM, Lochocki EB, Long SP. Soybean-BioCro: a semi-mechanistic model of soybean growth. In Silico Plants 2022;4:diab032. https://doi.org/10.1093/insilicoplants/diab032. Cite
[1]
Lochocki EB, Rohde S, Jaiswal D, Matthews ML, Miguez F, Long SP, et al. BioCro II: a software package for modular crop growth simulations. In Silico Plants 2022;4:diac003. https://doi.org/10.1093/insilicoplants/diac003. Cite
[1]
Matthews ML, Marshall-Colón A. Multiscale plant modeling: from genome to phenome and beyond. Emerging Topics in Life Sciences 2021;5:231–7. https://doi.org/10.1042/ETLS20200276. Cite
[1]
Matthews ML, Wang JP, Sederoff R, Chiang VL, Williams CM. A multiscale model of lignin biosynthesis for predicting bioenergy traits in Populus trichocarpa. Computational and Structural Biotechnology Journal 2021;19:168–82. https://doi.org/10.1016/j.csbj.2020.11.046. Cite
[1]
Matthews ML, Williams CM. Multiscale Modeling of Cross-Regulatory Transcript and Protein Influences. In: MUKHTAR S, editor. Modeling Transcriptional Regulation: Methods and Protocols, New York, NY: Springer US; 2021, p. 115–38. https://doi.org/10.1007/978-1-0716-1534-8_7. Cite
[1]
Matthews ML, Wang JP, Sederoff R, Chiang VL, Williams CM. Modeling cross-regulatory influences on monolignol transcripts and proteins under single and combinatorial gene knockdowns in Populus trichocarpa. PLOS Computational Biology 2020;16:e1007197. https://doi.org/10.1371/journal.pcbi.1007197. Cite
[1]
Wang JP, Matthews ML, Naik PP, Williams CM, Ducoste JJ, Sederoff RR, et al. Flux modeling for monolignol biosynthesis. Current Opinion in Biotechnology 2019;56:187–92. https://doi.org/10.1016/j.copbio.2018.12.003. Cite
[1]
Wang JP, Matthews ML, Williams CM, Shi R, Yang C, Tunlaya-anukit S, et al. Improving wood properties for wood utilization through multi-omics integration in lignin biosynthesis. Nature Communications 2018;9:1579. https://doi.org/10.1038/s41467-018-03863-z. Cite
[1]
Matthews ML, Williams CM. Region of attraction estimation of biological continuous Boolean models. 2012 IEEE International Conference on Systems, Man, and Cybernetics (SMC), 2012, p. 1700–5. https://doi.org/10.1109/ICSMC.2012.6377982. Cite