2022

Ducatti, Karina Renostro, Batista, Thiago Barbosa, Hirai, Welinton Yoshio, Luccas, Daiani Ajala, Moreno, Leticia de Aguila, Guimarães, Cristiane Carvalho, Bassel, George and da Silva, Edvaldo Aparecido Amaral (2022) Transcripts expressed during germination Sensu Stricto are associated with Vigor in soybean seeds. Plants, 11 (10). e1310. doi:10.3390/plants11101310 ISSN 2223-7747. [ 🗎 Public]. [ (✓) hoa:511 ]

(2022) Using positional information to provide context for biological image analysis with MorphoGraphX 2.0. eLife, 11 . e72601. doi:10.7554/elife.72601 ISSN 2050-084X. [ 🗎 Public]. [ (✓) hoa:511 ]

Davis, Gwendolyn V., Smith, Richard S. and Bassel, George (2022) Measuring intercellular interface area in plant tissues using quantitative 3D image analysis. In: Benitez-Alfonso, Y. and Heinlein , M., (eds.) Plasmodesmata. Methods in Molecular Biology, 2457 . Humana Press: New York, NY, pp. 457-464. ISBN 9781071621318

Motte, Hans, Fang, Tao, Parizot, Boris, Smet, Wouter, Yang, Xilan, Poelmans, Ward, Walker, Liam, Njo, Maria, Bassel, George W. and Beeckman, Tom (2022) Cellular and gene expression patterns associated with root bifurcation in Selaginella. Plant Physiology . kiac402. doi:10.1093/plphys/kiac402 ISSN 0032-0889. (In Press)

2021

Graeff, Moritz, Rana, Surbhi, Wendrich, Jos R., Dorier, Julien, Eekhout, Thomas, Aliaga Fandino, Ana Cecilia, Guex, Nicolas, Bassel, George, De Rybel, Bert and Hardtke, Christian S. (2021) A single-cell morpho-transcriptomic map of brassinosteroid action in the Arabidopsis root. Molecular Plant, 14 (12). pp. 1985-1999. doi:10.1016/j.molp.2021.07.021 ISSN 1674-2052. [ 🗎 Public]. [ (✓) hoa:511 ]

Dorone, Yanniv, Boeynaems, Steven, Flores, Eduardo, Jin, Benjamin, Hateley, Shannon, Bossi, Flavia, Lazarus, Elena, Pennington, Janice G., Michiels, Emiel, De Decker, Mathias, Vints, Katlijn, Baatsen, Pieter, Bassel, George, Otegui, Marisa S., Holehouse, Alex S., Exposito-Alonso, Moises, Sukenik, Shahar, Gitler, Aaron D. and Rhee, Seung Y. (2021) A prion-like protein regulator of seed germination undergoes hydration-dependent phase separation. Cell, 184 (16). 4284-4298.e27. doi:10.1016/j.cell.2021.06.009 ISSN 0092-8674. [ (🔓): Yes ].

Chustecki, Joanna M., Gibbs, Daniel J., Bassel, George and Johnston, Iain G. (2021) Network analysis of Arabidopsis mitochondrial dynamics reveals a resolved tradeoff between physical distribution and social connectivity. Cell Systems, 12 (5). 419-431.e4. doi:10.1016/j.cels.2021.04.006 ISSN 2405-4712. [ 🗎 Public]. [ (✓) hoa:511 ]

Mitchell, Jack, Mukhtar, Nur K. and Bassel, George (2021) Low temperature stimulates spatial molecular reprogramming of the Arabidopsis seed germination programme. Seed Science Research, 30 (1). pp. 2-12. doi:10.1017/S0960258519000266 ISSN 0960-2585. [ 🗎 Public]. [ (✓) hoa:511 ]

2020

Xu, Hao, Lantzouni, Ourania, Bruggink, Tonko, Benjamins, Rene, Lanfermeijer, Frank, Denby, Katherine J., Schwechheimer, Claus and Bassel, George (2020) A molecular signal integration network underpinning Arabidopsis seed germination. Current Biology, 30 (19). pp. 3703-3712. doi:10.1016/j.cub.2020.07.012 ISSN 0960-9822. [ 🗎 Public]. [ (✓) hoa:511 ]

(2020) Accurate and versatile 3D segmentation of plant tissues at cellular resolution. eLife, 9 . e57613. doi:10.7554/elife.57613 ISSN 2050-084X. [ 🗎 Public]. [ (✓) hoa:511 ]

(2020) Extensive signal integration by the phytohormone protein network. Nature, 583 (7815). pp. 271-276. doi:10.1038/s41586-020-2460-0 ISSN 0028-0836. [ 🗎 Public]. [ (✓) hoa:12789 ]

Duran-Nebreda, Salva, Johnston, Iain G. and Bassel, George (2020) Efficient vasculature investment in tissues can be determined without global information. Journal of The Royal Society Interface, 17 (165). 20200137. doi:10.1098/rsif.2020.0137 ISSN 1742-5689. [ 🗎 Public]. [ (✓) hoa:511 ]

2019

Hartman, Sjon, Liu, Zeguang, van Veen, Hans, Vicente, Jorge, Reinen, Emilie, Martopawiro, Shanice, Zhang, Hongtao, van Dongen, Nienke, Bosman, Femke, Bassel, George, Visser, Eric J. W., Bailey-Serres, Julia, Theodoulou, Frederica L., Hebelstrup, Kim H., Gibbs, Daniel J., Holdsworth, Michael J., Sasidharan, Rashmi and Voesenek, Laurentius A. C. J. (2019) Ethylene-mediated nitric oxide depletion pre-adapts plants to hypoxia stress. Nature Communications, 10 (1). 4020 . doi:10.1038/s41467-019-12045-4 ISSN 2041-1723. [ 🗎 Public].

Mimault, Matthias, Ptashnyk, Mariya, Bassel, George and Dupuy, Lionel X. (2019) Smoothed particle hydrodynamics for root growth mechanics. Engineering Analysis with Boundary Elements, 105 . pp. 20-30. doi:10.1016/j.enganabound.2019.03.025 ISSN 0955-7997.

Duran-Nebreda, Salva and Bassel, George (2019) Plant behaviour in response to the environment : information processing in the solid state. Philosophical Transactions of the Royal Society B: Biological Sciences, 374 (1774). 20180370. doi:10.1098/rstb.2018.0370 ISSN 0962-8436.

Montenegro-Johnson, Thomas, Strauss, Soeren, Jackson, Matthew D. B., Walker, Liam, Smith, Richard S. and Bassel, George (2019) 3DCellAtlas Meristem : a tool for the global cellular annotation of shoot apical meristems. Plant Methods, 15 (1). 33. doi:10.1186/s13007-019-0413-0 ISSN 1746-4811.

Jackson, Matthew D. B., Duran-Nebreda, Salva, Kierzkowski, Daniel, Strauss, Soeren, Xu, Hao, Landrein, Benoit, Hamant, Olivier, Smith, Richard S., Johnston, Iain G. and Bassel, George (2019) Global topological order emerges through local mechanical control of cell divisions in the arabidopsis shoot apical meristem. Cell Systems, 8 (1). 53-65.e3. doi:10.1016/j.cels.2018.12.009 ISSN 2405-4712. [ (🔓): Yes ].

Sánchez-Montesino, Rocío, Bouza-Morcillo, Laura, Marquez, Julietta, Ghita, Melania, Duran-Nebreda, Salva, Gómez, Luis, Holdsworth, Michael J., Bassel, George and Oñate-Sánchez, Luis (2019) A regulatory module controlling GA-mediated endosperm cell expansion is critical for seed germination in arabidopsis. Molecular Plant, 12 (1). pp. 71-85. doi:10.1016/j.molp.2018.10.009 ISSN 16742052.

Bassel, George (2019) Multicellular systems biology : quantifying cellular patterning and function in plant organs using network science. Molecular Plant, 12 (6). pp. 731-742. doi:10.1016/j.molp.2019.02.004

2018

Bassel, George (2018) Information processing and distributed computation in plant organs. Trends in Plant Science, 23 (11). pp. 994-1005. doi:10.1016/j.tplants.2018.08.006 ISSN 1360-1385.

Johnston, Iain G. and Bassel, George (2018) Identification of a bet-hedging network motif generating noise in hormone concentrations and germination propensity in Arabidopsis. Journal of The Royal Society Interface, 15 (141). 20180042. doi:10.1098/rsif.2018.0042 ISSN 1742-5689.

2017

Jackson, Matthew D. B., Duran-Nebreda, Salva and Bassel, George (2017) Network-based approaches to quantify multicellular development. Journal of The Royal Society Interface, 14 (135). 20170484. doi:10.1098/rsif.2017.0484 ISSN 1742-5689.

Duran-Nebreda, Salva and Bassel, George (2017) Bridging scales in plant biology using network science. Trends in Plant Science, 22 (12). pp. 1001-1003. doi:10.1016/j.tplants.2017.09.017 ISSN 1360-1385.

Jackson, Matthew D. B., Xu, Hao, Duran-Nebreda, Salva, Stamm, Petra and Bassel, George (2017) Topological analysis of multicellular complexity in the plant hypocotyl. eLife, 6 . e26023. doi:10.7554/eLife.26023 ISSN 2050-084X. [ (🔓): Yes ].

Topham, Alexander T., Taylor, Rachel E., Yan, Dawei, Nambara, Eiji, Johnston, Iain G. and Bassel, George (2017) Temperature variability is integrated by a spatially embedded decision-making center to break dormancy in Arabidopsis seeds. Proceedings of the National Academy of Sciences of the United States of America, 114 (25). pp. 6629-6634. doi:10.1073/pnas.1704745114 ISSN 0027-8424. [ (✓) hoa:10545 ]

Souza, Nátali Maidl, Topham, Alexander T. and Bassel, George (2017) Quantitative analysis of the 3D cell shape changes driving soybean germination. Journal of Experimental Botany, 68 (7). pp. 1531-1537. doi:10.1093/jxb/erx048 ISSN 0022-0957.

Mitchell, Jack, Johnston, Iain G. and Bassel, George (2017) Variability in seeds : biological, ecological, and agricultural implications. Journal of Experimental Botany, 68 (4). pp. 809-817. erw397. doi:10.1093/jxb/erw397 ISSN 0022-0957.

2016

Stamm, Petra, Strauss, Soeren, Montenegro-Johnson, Thomas D., Smith, Richard and Bassel, George (2016) In silico methods for cell annotation, quantification of gene expression, and cell geometry at single-cell resolution using 3DCellAtlas. In: Plant Hormones. New York, NY: Humana Press, pp. 99-123. ISBN 9781493964673

Vesty, Eleanor F., Saidi, Younousse, Moody, Laura A., Holloway, Daniel, Whitbread, Amy, Needs, Sarah, Choudhary, Anushree, Burns, Bethany, McLeod, Daniel, Bradshaw, Susan J., Bae, Hansol, King, Brian Christopher, Bassel, George, Simonsen, Henrik Toft and Coates, Juliet C. (2016) The decision to germinate is regulated by divergent molecular networks in spores and seeds. New Phytologist, 211 (3). pp. 952-966. doi:10.1111/nph.14018 ISSN 0028-646X.

Bassel, George (2016) To grow or not to grow? Trends in Plant Science, 21 (6). pp. 498-505. doi:10.1016/j.tplants.2016.02.001 ISSN 1360-1385.

Hossain, Mohammad R., Bassel, George, Pritchard, Jeremy, Sharma, Garima P. and Ford-Lloyd, Brian V. (2016) Trait specific expression profiling of salt stress responsive genes in diverse rice genotypes as determined by modified significance analysis of microarrays. Frontiers in Plant Science, 7 . 567. doi:10.3389/fpls.2016.00567 ISSN 1664-462X.

Nieuwland, Jeroen, Stamm, Petra, Wen, Bo, Randall, Ricardo S., Murray, James A. H. and Bassel, George (2016) Re-induction of the cell cycle in the Arabidopsis post-embryonic root meristem is ABA-insensitive, GA-dependent and repressed by KRP6. Scientific Reports, 6 (1). 23586 . doi:10.1038/srep23586 ISSN 2045-2322.

Bassel, George and Smith, Richard S. (2016) Quantifying morphogenesis in plants in 4D. Current Opinion in Plant Biology, 29 . pp. 87-94. doi:10.1016/j.pbi.2015.11.005 ISSN 1369-5266.

Finch-Savage, William E. and Bassel, George (2016) Seed vigour and crop establishment : extending performance beyond adaptation. Journal of Experimental Botany, 67 (3). pp. 567-591. doi:10.1093/jxb/erv490 ISSN 0022-0957. [ 🗎 Public]. [ (✓) hoa:511 ]

Stamm, Petra, Topham, Alexander T., Mukhtar, Nur Karimah, Jackson, Matthew D. B., Tomé, Daniel F. A., Beynon, Jim L. and Bassel, George (2016) The transcription factor ATHB5 affects GA-mediated plasticity in hypocotyl cell growth during seed germination. Plant Physiology, 173 (1). pp. 907-917. doi:10.1104/pp.16.01099 ISSN 0032-0889.

2015

Bassel, George (2015) Accuracy in quantitative 3D image analysis. The Plant Cell, 27 (4). pp. 950-953. doi:10.1105/tpc.114.135061 ISSN 1040-4651.

Montenegro-Johnson, Thomas D., Stamm, Petra, Strauss, Soeren, Topham, Alexander T., Tsagris, Michail, Wood, Andrew T.A., Smith, Richard S. and Bassel, George (2015) Digital single-cell analysis of plant organ development using 3DCellAtlas. The Plant Cell, 27 (4). pp. 1018-1033. doi:10.1105/tpc.15.00175 ISSN 1040-4651.

(2015) MorphoGraphX : a platform for quantifying morphogenesis in 4D. eLife, 4 . doi:10.7554/eLife.05864 ISSN 2050-084X.

Abbas, Mohamad, Berckhan, Sophie, Rooney, Daniel J., Gibbs, Daniel J., Vicente Conde, Jorge, Sousa Correia, Cristina, Bassel, George, Marín-de la Rosa, Nora, León, José, Alabadí, David, Blázquez, Miguel A. and Holdsworth, Michael J. (2015) Oxygen sensing coordinates photomorphogenesis to facilitate seedling survival. Current Biology, 25 (11). pp. 1483-1488. doi:10.1016/j.cub.2015.03.060 ISSN 0960-9822.

2014

Bassel, George, Stamm, P., Mosca, G., Barbier de Reuille, P., Gibbs, D. J., Winter, R., Janka, A., Holdsworth, M. J. and Smith, R. S. (2014) Mechanical constraints imposed by 3D cellular geometry and arrangement modulate growth patterns in the Arabidopsis embryo. Proceedings of the National Academy of Sciences of the United States of America, 111 (23). pp. 8685-8690. doi:10.1073/pnas.1404616111 ISSN 0027-8424.

(2014) Nitric oxide sensing in plants is mediated by proteolytic control of group VII ERF transcription factors. Molecular Cell, Volume 53 (Number 3). pp. 369-379. doi:10.1016/j.molcel.2013.12.020 ISSN 1097-2765. [ 🗎 Public].

Gibbs, Daniel J., Voß, Ute, Harding, Susan A., Fannon, Jessica, Moody, Laura A., Yamada, Erika, Swarup, Kamal, Nibau, Candida, Bassel, George, Choudhary, Anushree, Lavenus, Julien, Bradshaw, Susan J., Stekel, Dov J., Bennett, Malcolm J. and Coates, Juliet C. (2014) AtMYB93 is a novel negative regulator of lateral root development in Arabidopsis. New Phytologist, 203 (4). pp. 1194-1207. doi:10.1111/nph.12879 ISSN 0028-646X.

Yoshida, Saiko, Barbier de Reuille, Pierre, Lane, Brendan, Bassel, George, Prusinkiewicz, Przemyslaw, Smith, Richard S. and Weijers, Dolf (2014) Genetic control of plant development by overriding a geometric division rule. Developmental Cell, 29 (1). pp. 75-87. doi:10.1016/j.devcel.2014.02.002 ISSN 1534-5807.

(2014) Nitric oxide sensing in plants is mediated by proteolytic control of group VII ERF transcription factors. Molecular Cell, 53 (3). pp. 369-379. doi:10.1016/j.molcel.2013.12.020 ISSN 1097-2765.

2013

Dekkers, Bas J.W., Pearce, Simon, van Bolderen-Veldkamp, R.P., Marshall, Alex, Widera, Paweł, Gilbert, James, Drost, Hajk-Georg, Bassel, George, Müller, Kerstin, King, John R., Wood, Andrew T.A., Grosse, Ivo, Quint, Marcel, Krasnogor, Natalio, Leubner-Metzger, Gerhard, Holdsworth, Michael J. and Bentsink, Leónie (2013) Transcriptional dynamics of two seed compartments with opposing roles in Arabidopsis seed germination. Plant Physiology, 163 (1). pp. 205-215. doi:10.1104/pp.113.223511 ISSN 0032-0889.

2012

Gonzalez-Guzman, Miguel, Pizzio, Gaston A., Antoni, Regina, Vera-Sirera, Francisco, Merilo, Ebe, Bassel, George, Fernández, Maria A., Holdsworth, Michael J., Perez-Amador, Miguel Angel, Kollist, Hannes and Rodriguez, Pedro L. (2012) Arabidopsis PYR/PYL/RCAR receptors play a major role in quantitative regulation of stomatal aperture and transcriptional response to Abscisic Acid. The Plant Cell, 24 (6). pp. 2483-2496. doi:10.1105/tpc.112.098574 ISSN 1040-4651.

Martínez-Andújar, Cristina, Pluskota, Wioletta E., Bassel, George, Asahina, Masashi, Pupel, Piotr, Nguyen, Theresa T., Takeda-Kamiya, Noriko, Toubiana, David, Bai, Bing, Górecki, Ryszard J., Fait, Aaron, Yamaguchi, Shinjiro and Nonogaki, Hiroyuki (2012) Mechanisms of hormonal regulation of endosperm cap-specific gene expression in tomato seeds. The Plant Journal, 71 (4). pp. 575-586. doi:10.1111/j.1365-313X.2012.05010.x ISSN 0960-7412.

Bassel, George, Gaudinier, Allison, Brady, Siobhan M., Hennig, Lars, Rhee, Seung Y. and De Smet, Ive (2012) Systems analysis of plant functional, transcriptional, physical interaction, and metabolic networks. The Plant Cell, 24 (10). pp. 3859-3875. doi:10.1105/tpc.112.100776 ISSN 1040-4651.

2011

Bassel, George, Glaab, Enrico, Marquez, Julietta, Holdsworth, Michael J. and Bacardit, Jaume (2011) Functional network construction in Arabidopsis using rule-based machine learning on large-scale data sets. The Plant Cell, 23 (9). pp. 3101-3116. doi:10.1105/tpc.111.088153 ISSN 1040-4651.

Bassel, George, Lan, H., Glaab, E., Gibbs, D. J., Gerjets, T., Krasnogor, N., Bonner, A. J., Holdsworth, M. J. and Provart, N. J. (2011) Genome-wide network model capturing seed germination reveals coordinated regulation of plant cellular phase transitions. Proceedings of the National Academy of Sciences of the United States of America, 108 (23). pp. 9709-9714. doi:10.1073/pnas.1100958108 ISSN 0027-8424.

Gibbs, Daniel J., Lee, Seung Cho, Md Isa, Nurulhikma, Gramuglia, Silvia, Fukao, Takeshi, Bassel, George, Correia, Cristina Sousa, Corbineau, Françoise, Theodoulou, Frederica L., Bailey-Serres, Julia and Holdsworth, Michael J. (2011) Homeostatic response to hypoxia is regulated by the N-end rule pathway in plants. Nature, 479 (7373). pp. 415-418. doi:10.1038/nature10534 ISSN 0028-0836.

Dekkers, Bas J. W., Willems, Leo, Bassel, George, van Bolderen-Veldkamp, R. P. (Marieke), Ligterink, Wilco, Hilhorst, Henk W. M. and Bentsink, Leónie (2011) Identification of reference genes for RT–qPCR expression analysis in Arabidopsis and tomato seeds. Plant and Cell Physiology, 53 (1). pp. 28-37. doi:10.1093/pcp/pcr113 ISSN 0032-0781.

Bassel, George, Holdsworth, Michael J. and Provart, Nicholas J. (2011) Seed bioinformatics. In: Kermode, A., (ed.) Seed Dormancy. Methods in Molecular Biology, 773 . Humana Press, pp. 403-419. ISBN 9781617792304

2010

Nonogaki, Hiroyuki, Bassel, George and Bewley, J. Derek (2010) Germination—still a mystery. Plant Science, 179 (6). pp. 574-581. doi:10.1016/j.plantsci.2010.02.010 ISSN 0168-9452.

Martin, Ruth C., Asahina, Masashi, Liu, Po-Pu, Kristof, Jessica R., Coppersmith, Jennifer L., Pluskota, Wioletta E., Bassel, George, Goloviznina, Natalya A., Nguyen, Theresa T., Martínez-Andújar, Cristina, Arun Kumar, M.B., Pupel, Piotr and Nonogaki, Hiroyuki (2010) The microRNA156 and microRNA172 gene regulation cascades at post-germinative stages in Arabidopsis. Seed Science Research, 20 (2). pp. 79-87. doi:10.1017/S0960258510000085 ISSN 0960-2585.

Martin, Ruth C., Asahina, Masashi, Liu, Po-Pu, Kristof, Jessica R., Coppersmith, Jennifer L., Pluskota, Wioletta E., Bassel, George, Goloviznina, Natalya A., Nguyen, Theresa T., Martínez-Andújar, Cristina, Arun Kumar, M.B., Pupel, Piotr and Nonogaki, Hiroyuki (2010) The regulation of post-germinative transition from the cotyledon- to vegetative-leaf stages by microRNA-targeted SQUAMOSA PROMOTER-BINDING PROTEIN LIKE13 in Arabidopsis. Seed Science Research, 20 (2). pp. 89-96. doi:10.1017/S0960258510000073 ISSN 0960-2585.

2009

Usadel, Bjorn, Obayashi, Takeshi, Mutwil, Marel, Giorgi, Federico M., Bassel, George, Tanimoto, Mimi, Chow, Amanda, Steinhauser, Dirk, Persson, Staffen and Provart, Nicholas J. (2009) Co-expression tools for plant biology : opportunities for hypothesis generation and caveats. Plant, Cell & Environment, 32 (12). pp. 1633-1651. doi:10.1111/j.1365-3040.2009.02040.x ISSN 0140-7791.

Sliwinska, Elwira, Bassel, George and Bewley, J. Derek (2009) Germination of Arabidopsis thaliana seeds is not completed as a result of elongation of the radicle but of the adjacent transition zone and lower hypocotyl. Journal of Experimental Botany, 60 (12). pp. 3587-3594. doi:10.1093/jxb/erp203 ISSN 0022-0957.

2008

Bassel, George, Fung, Pauline, Chow, Tsz-fung Freeman, Foong, Justin A., Provart, Nicholas J. and Cutler, Sean R. (2008) Elucidating the germination transcriptional program using small molecules. Plant Physiology, 147 (1). pp. 143-155. doi:10.1104/pp.107.110841 ISSN 0032-0889.

Bassel, George and Provart, Nicholas J. (2008) Gene expression analyses for elucidating mechanisms of hormonal action in plants. In: Cutler, S. and Bonetta , D., (eds.) Plant Hormones. Totowa, NJ: Humana Press, pp. 21-37. ISBN 9781934115329

2006

Bassel, George, Mullen, Robert T. and Bewley, J. Derek (2006) ABI3 expression ceases following, but not during, germination of tomato and Arabidopsis seeds. Journal of Experimental Botany, 57 (6). pp. 1291-1297. doi:10.1093/jxb/erj101 ISSN 0022-0957.

2005

Gong, Xuemei, Bassel, George, Wang, Aoxue, Greenway, John S. and Bewley, J. Derek (2005) The emergence of embryos from hard seeds is related to the structure of the cell walls of the micropylar endosperm, and not to Endo-β-mannanase activity. Annals of Botany, 96 (7). pp. 1165-1173. doi:10.1093/aob/mci269 ISSN 0305-7364.

2004

Bassel, George, Zielinska, Elzbieta, Mullen, Robert T. and Bewley, J. Derek (2004) Down-regulation of DELLA genes is not essential for germination of tomato, soybean, and Arabidopsis seeds. Plant Physiology, 136 (1). pp. 2782-2789. doi:10.1104/pp.103.034876 ISSN 0032-0889.

2001

Bassel, George, Mullen, Robert T. and Bewley, J. Derek (2001) α-Galactosidase is synthesized in tomato seeds during development and is localized in the protein storage vacuoles. Canadian Journal of Botany, 79 (12). pp. 1417-1424. doi:10.1139/b01-122 ISSN 0008-4026.