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Elementary effects for models with dimensional inputs of arbitrary type and range: Scaling and trajectory generation (2023)
Journal Article
Rutjens, R. J., Band, L. R., Jones, M. D., & Owen, M. R. (2023). Elementary effects for models with dimensional inputs of arbitrary type and range: Scaling and trajectory generation. PLoS ONE, 18(10), Article e0293344. https://doi.org/10.1371/journal.pone.0293344

The Elementary Effects method is a global sensitivity analysis approach for identifying (un)important parameters in a model. However, it has almost exclusively been used where inputs are dimensionless and take values on [0, 1]. Here, we consider mode... Read More about Elementary effects for models with dimensional inputs of arbitrary type and range: Scaling and trajectory generation.

Modelling how plant cell-cycle progression leads to cell size regulation (2023)
Journal Article
Williamson, D., Tasker-Brown, W., Murray, J., Jones, A. R., & Band, L. R. (2023). Modelling how plant cell-cycle progression leads to cell size regulation. PLoS Computational Biology, 19(10), Article e1011503. https://doi.org/10.1371/journal.pcbi.1011503

Populations of cells typically maintain a consistent size, despite cell division rarely being precisely symmetrical. Therefore, cells must possess a mechanism of “size control”, whereby the cell volume at birth affects cell-cycle progression. While s... Read More about Modelling how plant cell-cycle progression leads to cell size regulation.

Multiscale asymptotic analysis reveals how cell growth and subcellular compartments affect tissue-scale hormone transport (2023)
Journal Article
Kiradjiev, K. B., & Band, L. R. (2023). Multiscale asymptotic analysis reveals how cell growth and subcellular compartments affect tissue-scale hormone transport. Bulletin of Mathematical Biology, 85, Article 101. https://doi.org/10.1007/s11538-023-01199-4

Determining how cell-scale processes lead to tissue-scale patterns is key to understanding how hormones and morphogens are distributed within biological tissues and control developmental processes. In this article, we use multiscale asymptotic analys... Read More about Multiscale asymptotic analysis reveals how cell growth and subcellular compartments affect tissue-scale hormone transport.

Gibberellin and abscisic acid transporters facilitate endodermal suberin formation in Arabidopsis (2023)
Journal Article
Binenbaum, J., Wulff, N., Camut, L., Kiradjiev, K., Anfang, M., Tal, I., …Shani, E. (2023). Gibberellin and abscisic acid transporters facilitate endodermal suberin formation in Arabidopsis. Nature Plants, 9, 785-802. https://doi.org/10.1038/s41477-023-01391-3

The plant hormone gibberellin (GA) regulates multiple developmental processes. It accumulates in the root elongating endodermis, but how it moves into this cell file and the significance of this accumulation are unclear. Here we identify three NITRAT... Read More about Gibberellin and abscisic acid transporters facilitate endodermal suberin formation in Arabidopsis.

Long-distance hormone transport via the phloem (2023)
Journal Article
Collis, H. L., Owen, M. R., & Band, L. R. (2023). Long-distance hormone transport via the phloem. Journal of Theoretical Biology, 562, Article 111415. https://doi.org/10.1016/j.jtbi.2023.111415

Several key plant hormones are synthesised in the shoot and are advected within the phloem to the root tip. In the root tip, these hormones regulate growth and developmental processes, and responses to environmental cues. However, we lack understandi... Read More about Long-distance hormone transport via the phloem.

In silico evidence for the utility of parsimonious root phenotypes for improved vegetative growth and carbon sequestration under drought (2022)
Journal Article
Schäfer, E. D., Ajmera, I., Farcot, E., Owen, M. R., Band, L. R., & Lynch, J. P. (2022). In silico evidence for the utility of parsimonious root phenotypes for improved vegetative growth and carbon sequestration under drought. Frontiers in Plant Science, 13, Article 1010165. https://doi.org/10.3389/fpls.2022.1010165

Drought is a primary constraint to crop yields and climate change is expected to increase the frequency and severity of drought stress in the future. It has been hypothesized that crops can be made more resistant to drought and better able to sequest... Read More about In silico evidence for the utility of parsimonious root phenotypes for improved vegetative growth and carbon sequestration under drought.

Modeling root loss reveals impacts on nutrient uptake and crop development (2022)
Journal Article
Schäfer, E. D., Owen, M. R., Band, L. R., Farcot, E., Bennett, M. J., & Lynch, J. P. (2022). Modeling root loss reveals impacts on nutrient uptake and crop development. Plant Physiology, 190(4), 2260-2278. https://doi.org/10.1093/plphys/kiac405

Abstract Despite the widespread prevalence of root loss in plants, its effects on crop productivity are not fully understood. While root loss reduces the capacity of plants to take up water and nutrients from the soil, it may provide benefits by decr... Read More about Modeling root loss reveals impacts on nutrient uptake and crop development.

Modelling reveals post-transcriptional regulation of GA metabolism enzymes in response to drought and cold (2022)
Journal Article
Band, L. R., Nelissen, H., Preston, S. P., Rymen, B., Prinsen, E., Abd Elgawad, H., & Beemster, G. T. S. (2022). Modelling reveals post-transcriptional regulation of GA metabolism enzymes in response to drought and cold. Proceedings of the National Academy of Sciences, 119(31), Article e2121288119. https://doi.org/10.1073/pnas.2121288119

The hormone gibberellin (GA) controls plant growth and regulates growth responses to environmental stress. In monocotyledonous leaves, GA controls growth by regulating division-zone size. We used a systems approach to investigate the establishment of... Read More about Modelling reveals post-transcriptional regulation of GA metabolism enzymes in response to drought and cold.

Systems approaches reveal that ABCB and PIN proteins mediate co-dependent auxin efflux (2022)
Journal Article
Mellor, N. L., Voß, U., Ware, A., Janes, G., Barrack, D., Bishopp, A., …Band, L. R. (2022). Systems approaches reveal that ABCB and PIN proteins mediate co-dependent auxin efflux. Plant Cell, 34(6), 2309–2327. https://doi.org/10.1093/plcell/koac086

Members of the B family of membrane-bound ATP-binding cassette (ABC) transporters represent key components of the auxin-efflux machinery in plants. Over the last two decades experimental studies have shown that modifying ABCB expression affects auxin... Read More about Systems approaches reveal that ABCB and PIN proteins mediate co-dependent auxin efflux.

Integrated root phenotypes for improved rice performance under low nitrogen availability (2022)
Journal Article
Ajmera, I., Henry, A., Radanielson, A. M., Klein, S. P., Ianevski, A., Bennett, M. J., …Lynch, J. P. (2022). Integrated root phenotypes for improved rice performance under low nitrogen availability. Plant, Cell and Environment, 45(3), 805-822. https://doi.org/10.1111/pce.14284

Greater nitrogen efficiency would substantially reduce the economic, energy and environmental costs of rice production. We hypothesized that synergistic balancing of the costs and benefits for soil exploration among root architectural phenes is benef... Read More about Integrated root phenotypes for improved rice performance under low nitrogen availability.

Differential biosynthesis and cellular permeability explain longitudinal gibberellin gradients in growing roots (2021)
Journal Article
Rizza, A., Tang, B., Stanley, C. E., Grossmann, G., Owen, M. R., Jones, A. M., & Band, L. R. (2021). Differential biosynthesis and cellular permeability explain longitudinal gibberellin gradients in growing roots. Proceedings of the National Academy of Sciences, 118(8), Article e1921960118. https://doi.org/10.1073/pnas.1921960118

Control over cell growth by mobile regulators underlies much of eukaryotic morphogenesis. In plant roots, cell division and elongation are separated into distinct longitudinal zones and both division and elongation are influenced by the growth regula... Read More about Differential biosynthesis and cellular permeability explain longitudinal gibberellin gradients in growing roots.

Auxin fluxes through plasmodesmata modify root-tip auxin distribution (2020)
Journal Article
Mellor, N. L., Voß, U., Janes, G., Bennett, M. J., Wells, D. M., & Band, L. R. (2020). Auxin fluxes through plasmodesmata modify root-tip auxin distribution. Development, 147(6), Article dev181669. https://doi.org/10.1242/dev.181669

© 2020. Published by The Company of Biologists Ltd. Auxin is a key signal regulating plant growth and development. It is well established that auxin dynamics depend on the spatial distribution of efflux and influx carriers on the cell membranes. In t... Read More about Auxin fluxes through plasmodesmata modify root-tip auxin distribution.

Coordination of meristem and boundary functions by transcription factors in the SHOOT MERISTEMLESS regulatory network (2018)
Journal Article
Scofield, S., Murison, A., Jones, A., Fozard, J., Aida, M., Band, L. R., …Murray, J. A. (2018). Coordination of meristem and boundary functions by transcription factors in the SHOOT MERISTEMLESS regulatory network. Development, 145(9), Article dev157081. https://doi.org/10.1242/dev.157081

© 2018. Published by The Company of Biologists Ltd. The Arabidopsis homeodomain transcription factor SHOOT MERISTEMLESS (STM) is crucial for shoot apical meristem (SAM) function, yet the components and structure of the STM gene regulatory network (GR... Read More about Coordination of meristem and boundary functions by transcription factors in the SHOOT MERISTEMLESS regulatory network.

Root hydrotropism is controlled via a cortex-specific growth mechanism (2017)
Journal Article
Dietrich, D., Pang, L., Kobayashi, A., Fozard, J. A., Boudolf, V., Bhosale, R., …Bennett, M. J. (2017). Root hydrotropism is controlled via a cortex-specific growth mechanism. Nature Plants, 3(6), Article 17057. https://doi.org/10.1038/nplants.2017.57

Plants can acclimate by using tropisms to link the direction of growth to environmental conditions. Hydrotropism allows roots to forage for water, a process known to depend on abscisic acid (ABA) but whose molecular and cellular basis remains unclear... Read More about Root hydrotropism is controlled via a cortex-specific growth mechanism.

Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis (2016)
Journal Article
Mellor, N. L., Band, L. R., Pěnčík, A., Novak, O., Rashed, A., Holman, T., …Owen, M. R. (2016). Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis. Proceedings of the National Academy of Sciences, 113(39), 11022-11027. https://doi.org/10.1073/pnas.1604458113

Auxin is a key hormone regulating plant growth and development. We combine experiments and mathematical modeling to reveal how auxin levels are maintained via feedback regulation of genes encoding key metabolic enzymes. We describe how regulation of... Read More about Dynamic regulation of auxin oxidase and conjugating enzymes AtDAO1 and GH3 modulates auxin homeostasis.

Systems Analysis of Auxin Transport in the Arabidopsis Root Apex (2014)
Journal Article
Band, L. R., Wells, D. M., Fozard, J. A., Ghetiu, T., French, A. P., Pound, M. P., …Bennett, M. J. (2014). Systems Analysis of Auxin Transport in the Arabidopsis Root Apex. Plant Cell, 26(3), 862-875. https://doi.org/10.1105/tpc.113.119495

Auxin is a key regulator of plant growth and development. Within the root tip, auxin distribution plays a crucial role specifying developmental zones and coordinating tropic responses. Determining how the organ-scale auxin pattern is regulated at the... Read More about Systems Analysis of Auxin Transport in the Arabidopsis Root Apex.

Mechanical modelling quantifies the functional importance of outer tissue layers during root elongation and bending (2014)
Journal Article
Dyson, R. J., Vizcay-Barrena, G., Band, L. R., Fernandes, A. N., French, A. P., Fozard, J. A., …Jensen, O. E. (2014). Mechanical modelling quantifies the functional importance of outer tissue layers during root elongation and bending. New Phytologist, 202(4), 1212-1222. https://doi.org/10.1111/nph.12764

Root elongation and bending require the coordinated expansion of multiple cells of different types. These processes are regulated by the action of hormones that can target distinct cell layers. We use a mathematical model to characterise the influenc... Read More about Mechanical modelling quantifies the functional importance of outer tissue layers during root elongation and bending.

Stochastic and deterministic multiscale models for systems biology: An auxin-transport case study (2010)
Journal Article
Twycross, J., Band, L. R., Bennett, M. J., King, J. R., & Krasnogor, N. (2010). Stochastic and deterministic multiscale models for systems biology: An auxin-transport case study. BMC Systems Biology, 4, https://doi.org/10.1186/1752-0509-4-34

Background: Stochastic and asymptotic methods are powerful tools in developing multiscale systems biology models; however, little has been done in this context to compare the efficacy of these methods. The majority of current systems biology modellin... Read More about Stochastic and deterministic multiscale models for systems biology: An auxin-transport case study.