Staff profile

For my first degree I read Botany at St. Catherine's College Oxford, and undertook a PhD at Edinburgh University. I carried out post-doc work in Edinburgh and then Rothamsted, before taking up a position as leader of the Plant Molecular Genetics Group at the Leicester Biocentre, and a lectureship at Leicester University (1989). I moved to a Chair in Durham in 1996.

Our research programme is focused on the developmental biology of plants, and in particular on molecular control mechanisms in embryogenesis and root development. We make use of a range of techniques in functional genomics, and exploit the many advantages of Arabidopsis thaliana as a model experimental organism. We developed promoter trap insertional mutagenesis in a forward genetics approach to identify genes required for correct embryogenesis and root development, and also use reverse genetics techniques (RNAi, identification of gene knockouts) to characterize the functions of genes identified by cDNA cloning. We also developed laser-capture microdissection in combination with expression profiling to identify transcription factors and signalling pathway components expressed in subdomains of developing embryos, and in roots. A current feature of our work is the development of predictive mathematical models to describe gene-hormone signalling network interactions, with Junli Liu and with Michael Goldstein and Ian Vernon in the Department of Mathematical Sciences. We are applying this to understand better the mechanisms regulating meristem function, including in response to environmental stresses. We also have a number of other collaborative projects, both with other academic laboratories and with industry, which build upon expertise and materials developed in our basic science programmes. In particular, we work on cotton genetics and biology with Prof. Xianlong Zhang, and on root biology with Prof. Chunli Chen at Huazhong Agricultural University, China, where I have been appointed Visiting Professor.

I am an Editor of the journal New Phytologist and Chair of the Board of Trustees for the New Phytologist Foundation. I was until recently a member of BBSRC Council, the body that determines policy, priorities and strategy for BBSRC; Chair of BBSRC Appointments Board; and a member of the Defra Advisory Committee on Releases to the Environment (ACRE), which advises Government Ministers on GM and related issues. I am former President and Chair of Council of the Society for Experimental Biology. Some of my publications are listed below.

• Plant development
• Plant molecular genetics
• Root development
• Gene and hormone signalling networks

• Durham Centre for Crop Improvement Technology
• Molecular Plant Sciences

• Advisory Committee on Releases to the Environment (ACRE)
• BBSRC
• GARNet
• NASC
• New Phytologist
• New Phytologist Foundation
• Society for Experimental Biology
• The Arabidopsis Information Resource (TAIR)

Authored book

• K. Lindsey & M.G.K. Jones (1989). Plant Biotechnology in Agriculture. Milton Keynes: Open University Press.

Chapter in book

• Lindsey, K. (2015). GM Futures - Perspectives from a plant molecular biologist. In Governing Agricultural Sustainability: Global Lessons from GM Crops. MacNaughten, P. & Carro-Ripalda, S. Routledge.
• Lindsey, K., Mehdi, S., Casson, S.A., Mudge, A.J., Topping, J.F. & Liu, J. (2013). POLARIS. In The Handbook of Biologically Active Peptides, 2nd Edition. Kastin, A.J. Academic Press. 40-45.
• Fonseka, D.L.C.K., Yang, X., Mudge, A., Topping, J.F. & Lindsey, K. (2013). Embryogenesis in Arabidopsis: Signalling, Genes and the Control of Identity. In Seed Genomics. Becraft, P.W. Wiley-Blackwell. 21-42.
• Casson, S.A., Spencer, M.W.B. & Lindsey, K. (2007). Laser-capture microdissection to study global transcriptional changes during plant embryogenesis. In Methods in Molecular Biology: Plant Embryogenesis Methods and Protocols. Suarez, M.F. & Bozhkov, P. New Jersey: Harwood. 427: 111-120.
• Lindsey, K., Casson, S.A. & Chilley, P.M. (2006). The POLARIS peptide. In The Handbook Of Biologically Active Peptides. Kastin, A.J. Academic Press. 23-27.
• Gheysen, G., Abad, P., Bleve, T., Blok, V., Fenoll, C., Gatehouse, J., Grundler, F., Lindsey, K., Ohl, S., Sagen, K., Shields, R. & Helder, H. (2000). Concerted efforts to develop handles for plant parasitic nematode control. In Phytosphere ’99 – Highlights in European Biotechnology. Developments in Plant Genetics and Breeding 6. de Vries, G.E. & Metzlaff, K. Elsevier. 159-167.
• Lindsey, K. & Wei, W. (2000). Arabidopsis tissue culture, transformation and transient gene expression. In Arabidopsis: A Practical Approach. Wilson, Z. Oxford: Oxford University Press. 123-141.

Edited book

• (2004). Polarity in Plants. Oxford: Blackwell.
• (1998). Transgenic Plant Research. Amsterdam: Harwood Academic.
• (1991). Plant Tissue Culture Manual: Fundamentals and Applications. Dordrecht: Kluwer Academic.

Journal Article

• Hu, L., Xu, Z., Fan, R., Wang, G., Wang, F., Qin, X., Yan, L., Ji, X., Meng, M., Sim, S., Chen, W., Hao, C., Wang, Q., Zhu, H., Zhu, S., Xu, P., Zhao, H., Lindsey, K., Daniell, H., Wendel, J. & Jin, S. (2023). The complex genome and adaptive evolution of polyploid Chinese pepper (Zanthoxylum armatum and Zanthoxylum bungeanum). Plant Biotechnology Journal 21(1): 78-96.
• Thompson, Helen L, Shen, Weiran, Matus, Rodrigo, Kakkar, Medhavi, Jones, Carl, Dolan, David, Grellscheid, Sushma, Yang, Xiyan, Zhang, Na, Mozaffari-Jovin, Sina, Chen, Chunli, Zhang, Xianlong, Topping, Jennifer F & Lindsey, Keith (2023). MERISTEM-DEFECTIVE/DEFECTIVELY ORGANIZED TRIBUTARIES2 regulates the balance between stemness and differentiation in the root meristem through RNA splicing control. Development
• Wang, N., Li, Y., Shen, C., Yang, Y., Wang, H., Yao, T., Zhang, X., Lindsey, K. & Lin, Z. (2023). High-resolution sequencing of nine elite upland cotton cultivars uncovers genic variations and breeding improvement targets. The Plant Journal 113(1): 145-159.
• Chen, L., Zhang, B., Xia, L., Yue, D., Han, B., Sun, W., Wang, F., Lindsey, K., Zhang, X. & Yang, X. (2022). The GhMAP3K62-GhMKK16-GhMPK32 kinase cascade regulates drought tolerance by activating GhEDT1-mediated ABA accumulation in cotton. Journal of Advanced Research
• Qin, Y., Sun, M., Li, W., Xu, M., Shao, L., Liu, Y., Zhao, G., Liu, Z., Xu, Z., You, J., Ye, Z., Xu, J., Yang, X., Wang, M., Lindsey, K., Zhang, X. & Tu, L. (2022). Single-cell RNA-seq reveals fate determination control of an individual fiber cell initiation in cotton (Gossypium hirsutum). Plant Biotechnology Journal 20(12): 2372-2388.
• Deng, J., Sun, W., Zhang, B., Sun, S., Xia, L., Miao, Y., He, L., Lindsey, K., Yang, X. & Zhang, X. (2022). GhTCE1-GhTCEE1 dimers regulate transcriptional reprogramming during wound-induced callus formation in cotton. Plant Cell 34(11): 4554–4568.
• Palanivelu, S. D., Armir, N. A. Z., Zulkifli, A., Hair, A. H. A., Salleh, K. M., Lindsey, K., Che-Othman, M. H. & Zakaria, S. (2022). Hydrogel Application in Urban Farming: Potentials and Limitations—A Review. Polymers 14(13): 2590.
• Wu, Y. Li, X., Li, Y., Ma, H., Chi, H., Ma, Y., Yang, J., Xie, S., Zhang, R., Liu, L., Su, X., Lv, R., Khan, A., Kong, J., Xiaoping, G., Lindsey, K., Min, L. & Zhang, X. (2022). Degradation of de-esterified pectin/homogalacturonan by the polygalacturonase GhNSP is necessary for pollen exine formation and male fertility in cotton. Plant Biotechnology Journal 20(6): 1054-1068.
• Wang, G., Xu, Z., Wang, F., Huang, Y., Xin, Y., Liang, S., Li, B., Si, H., Sun, L., Wang, Q., Ding, X., Zhu, X., Chen, L., Yu, L., Lindsey, K., Zhang, X. & Jin, S. (2022). Development of an efficient and precise adenine base editor (ABE) with expanded target range in allotetraploid cotton (Gossypium hirsutum). BMC Biology 20(1): 45.
• Pei, L., Huang, X., Liu, Z., Tian, X., You, J., Li, J., Fang, D. D., Lindsey, K., Zhu, L., Zhang, X. & Wang, M. (2022). Dynamic 3D genome architecture of cotton fiber reveals subgenome-coordinated chromatin topology for 4-staged single-cell differentiation. Genome Biology 23(1): 45.
• Thompson, H.L., Shen, W., Matus, R., Kakkar, M., Jones, C., Dolan, D., Grellscheid, S., Yang, X., Zhang, N., Mozaffari-Jovin, S., Chen, C., Zhang, X., Topping, J.F. & Lindsey, K. (2022). MERISTEM DEFECTIVE/DEFECTIVELY ORGANIZED TRIBUTARIES2 regulates the balance between stemness and differentiation in the root meristem through RNA splicing control. BioRxiv
• Li, J., Yuan, D., Wang, P., Wang, Q., Sun, M., Liu, Z., Si, H., Xu, Z., Ma, Y., Zhang, B., Pei, L., Tu, L., Zhu, L., Chen, L.-L., Lindsey, K., Zhang, X., Jin, S. & Wang, M. (2021). Cotton pan-genome retrieves the lost sequences and genes during domestication and selection. Genome Biology 22: 119.
• Hashem, A.M., Moore, S., Chen, S., Hu, C., Zhao, Q., IE Elasawi, I.E., Feng, Y., Topping, J.F., Liu, J., Lindsey, K. & Chen, C. (2021). Putrescine depletion affects Arabidopsis root meristem size by modulating auxin and cytokinin signaling and ROS accumulation. International Journal of Molecular Sciences 22(8): 4094.
• Ma, Y., Min, L., Wang, J., Li, Y., Wu, Y., Hu, Q., Ding, Y., Wang, M., Liang, Y., Gong, Z., Xie, S., Su, X., Li, Y., Khan, A., Lindsey, K., Zhu, L., Li, X. & Zhang, X. (2021). Combined transcriptome GWAS and TWAS reveal genetic elements leading to male sterility during high temperature stress in cotton. New Phytologist 231(1): 165-181.
• Pei, L., Li, G., Lindsey, K., Zhang, X. & Wang, M. (2021). Plant 3D genomics: the exploration and application of chromatin organization. New Phytologist 230(5): 1772-1786.
• Liu, S., Zhang, X., Xiao, S., Ma, J., Shi, W., Qin, T., Xi, H., Nie, X., You, C., Xu, Z., Wang, T., Wang, Y., Zhang, Z., Li, J., Kong, J., Aierxi, A., Yu, Y., Lindsey, K., Klosterman, S.J., Zhang, X. & Zhu, L. (2021). A single-nucleotide mutation in GLUTAMATE RECEPTOR-LIKE protein gene confers resistance to Fusarium wilt in Gossypium hirsutum. Advanced Science 8(7): 2020723.
• Gu, X., Fonseka, K., Agneessens, J., Casson, S.A., Smertenko, A., Guo, G., Topping, J.F., Hussey, P.J. & Lindsey, K. (2021). The Arabidopsis R-SNARE VAMP714 is essential for polarization of PIN proteins and auxin responses. New Phytologist 230(2): 550-566.
• Jacobsen, A.G.R., Jervis, G., Xu, J., Topping, J.F. & Lindsey, K. (2021). Root growth responses to mechanical impedance are regulated by a network of ROS, ethylene and auxin signalling in Arabidopsis. New Phytologist 231(1): 225-242.
• Hetherington, F.M., Kakkar, M., Topping, J.F. & Lindsey, K. (2021). Gibberellin signaling mediates lateral root inhibition in response to K+-deprivation. Plant Physiology 185(3): 1198-1215.
• Gu, X., Brennan, A., Wei, W. Guo, G. & Lindsey, K. (2020). Vesicle transport in plants: A revised phylogeny of SNARE proteins. Evolutionary Bioinformatics 16: 1-11.
• Li, B., Liang, S., Alariqi, M., Wang, F., Wang, G., Wang, Q., Xu, Z., Yu, L., Zafar, M.N., Sun, L., Si, H., Yuan, D., Guo, W., Wang, Y., Lindsey, K., Zhang, X. & Jin, S. (2020). The application of temperature sensitivity CRISPR/LbCpf1 (LbCas12a) mediated genome editing in allotetraploid cotton (G. hirsutum) and creation of nontransgenic, gossypol‐free cotton. Plant Biotechnology Journal 19(2): 221-223.
• Jackson, S.E., Vernon, I., Liu, J. & Lindsey, K. (2020). Understanding hormonal crosstalk in Arabidopsis root development via emulation and history matching. Statistical Applications in Genetics and Molecular Biology 19(2): 20180053.
• Wang, Q., Alariqi, M., Wang, F., Li, B., Ding, X., Rui, H., Li, Y., Xu, Z., Qin, L., Sun, Lin, Li, J., Zou, J., Lindsey, K., Zhang, X. & Jin, S. (2020). The application of a heat‐inducible CRISPR/Cas12b (C2c1) genome editing system in tetraploid cotton (G.hirsutum) plants. Plant Biotechnology Journal 18(12): 2436-2443.
• Andrews, M., Condron, L.M., Kemp, P.D., Topping, J.F., Lindsey, K., Hodge, S. & Raven, J.A (2020). Will rising atmospheric CO2 concentration inhibit nitrate assimilation in shoots but enhance it in roots of C3 plants? Physiologia Plantarum 170(1): 40-45.
• Li, Z., Wang, P., You, C., Yu, J., Zhang, X., Yan, F., Ye, Z., Shen, C., Li, B., Guo, K., Liu, N., Thyssen, G.N., Fang, D.D., Lindsey, K., Zhang, X., Wang, M. & Tu, L. (2020). Combined GWAS and eQTL analysis uncovers a genetic regulatory network orchestrating the initiation of secondary cell wall development in cotton. New Phytologist 226(6): 1738-1752.
• Manghwar, H., Li, B., Ding, X., Hussain, A., Lindsey, K., Zhang, X. & Jin, S. (2020). CRISPR/Cas systems in genome editing: methodologies and tools for sgRNA design, off-target evaluation and strategies to mitigate off-target effects. Advanced Science 7(6): 1902312.
• Qin, L., Li, J., Wang, Q., Xu, Z., Sun, L., Alariqi, M., Manghwar, H., Wang, G., Li, B., Ding, X., Rui, H., Huang, H., Lu, T., Lindsey, K., Daniell, H., Zhang, X. & Jin, S. (2020). High efficient and precise base editing of C•G to T•A in the allotetraploid cotton (Gossypium hirsutum) genome using a modified CRISPR/Cas9 system. Plant Biotechnology Journal 18(1): 45-56.
• Wang, L., Sun, J., Chen, S., Huang, J., Yuan, H., Lindsey, K., Alenius, H. & Chen, C (2020). Silver nanoparticles regulate Arabidopsis root growth by concentration-dependent modification of reactive oxygen species accumulation and cell division. Ecotoxicology and Environmental Safety 190: 110072.
• Hu, L., Xu, Z., Wang, M., Fan, R., Yuan, D., Wu, B., Wu, H., Qin, X., Yan, L., Tan, L., Sim, S., Li, W., Saski, C.S., Daniell, H., Wendel, J.F., Lindsey, K., Zhang, X., Hao, C. & Jin, S. (2019). The chromosome-scale reference genome of black pepper (Piper nigrum L.) provides further insight into piperine biosynthesis. Nature Communications 10: 4702.
• Li, J., Wang, M., Li, Y., Zhang, Q., Lindsey, K., Daniell, H., Jin, S. & Zhang, X. (2019). Multi‐omics analyses reveal epigenomics basis for cotton somatic embryogenesis through successive regeneration acclimation process. Plant Biotechnology Journal 17(2): 435-450.
• Wang, M., Tu, L., Yuan, D., Zhu, D., Shen, C., Li, J., Liu, F., Pei, L., Wang, P., Zhao, G., Ye, Z., Huang, H., Yan, F., Ma, Y., Zhang, L., Liu, M., You, J., Yang, Y., Liu, Z., Huang, F., Li, B., Qiu, P., Zhang, Q., Zhu, L., Jin, S., Yang, X., Min, L., Li, G., Chen, L.-L., Zheng, H., Lindsey, K., Lin, Z., Udall, J.A. & Zhang, X. (2019). Reference genome sequences of two cultivated allotetraploid cottons, Gossypium hirsutum and Gossypium barbadense. Nature Genetics 51: 224-229.
• Li, J., Manghwar, H., Sun, L., Wang, P., Wang, G., Sheng, H., Zhang, J., Liu,H., Qin,L., Rui, H., Lindsey, K., Daniell, H., Jin, S. & Zhang, X. (2019). Whole genome sequencing reveals rare off-target mutations and considerable inherent genetic and/or somaclonal variations in CRISPR/Cas9-edited cotton plants. Plant Biotechnology Journal 17(5): 858-868.
• Qin, T., Liu, S.M., Zhang, Z.N., Sun, L.Q., He, X., Lindsey, K., Zhu, L.F. & Zhang, X.L. (2019). GhCyp3 improves the resistance of cotton to Verticillium dahliae by inhibiting ubiquitin ligase activity of GhPUB17. Plant Molecular Biology 99: 379-393.
• Manghwar, H., Lindsey, K., Zhang, X. & Jin, S. (2019). CRISPR/Cas system: recent advances and prospects for genome editing. Trends in Plant Science 24(12): 1102-1125.
• Andrews, M., Condron, L.M., Kemp, P.D., Topping, J.F., Lindsey, K., Hodge, S. & Raven, J. (2018). Elevated CO2 effects on nitrogen (N) assimilation and growth of C3 vacular plants are similar regardless of N-form assimilated. Journal of Experimental Botany 70: 683-690.
• Short, E., Pullen, M., Imriz, G., Liu, D., Cope-Selby, N., Hetherington, F., Smertenko, A., Hussey, P.J., Topping, J.F. & Lindsey, K. (2018). Epidermal expression of a sterol biosynthesis gene regulates root growth by a non-cell autonomous mechanism in Arabidopsis. Development 145(10): dev160572.
• Hu, Q., Min, L., Yang, X., Jin, S., Zhang, L., Li, Y., Ma, Y., Qi, X., Li, D., Liu,H., Lindsey, K., Zhu, L. & Zhang, X. (2018). Laccase GhLac1 modulates broad-spectrum biotic stress tolerance via manipulating phenylpropanoid pathway and jasmonic acid synthesis. Plant Physiology 176(2): 1808-1823.
• Vernon, I., Liu, J., Goldstein, M., Rowe, J., Topping, J. & Lindsey, K. (2018). Bayesian uncertainty analysis for complex systems biology models: emulation, global parameter searches and evaluation of gene functions. BMC Systems Biology 12: 1.
• Zhang, L., Wang, M., Li, N., Wang, H., Qiu, P., Hu, Q., Pei, L., Xu, Z., Wang, T., Gao, E., Liu, J., Liu, S., Hu, Q., Miao, Y., Lindsey, K., Tu, L., Zhu, L. & Zhang, X. (2018). Long noncoding RNAs involved in resistance to Verticillium dahliae, a fungal disease in cotton. Plant Biotechnology Journal 16(6): 1172-1185.
• Wang, L., Liu, N., Wang, T., Li, J., Wen, T., Yang, X., Lindsey, K. & Zhang, X. (2018). The GhmiR157a–GhSPL10 regulatory module controls initial cellular dedifferentiation and callus proliferation in cotton by modulating ethylene-mediated flavonoid biosynthesis. Journal of Experimental Botany 69(5): 1081-1093.
• Wang, M., Wang, P., Liang, F., Ye, Z., Li, J., Shen, C., Pei, L., Wang, F., Hu, J., Tu, L., Lindsey, K., He, D. & Zhang, X. (2018). A global survey of alternative splicing in allopolyploid cotton: landscape, complexity and regulation. New Phytologist 217(1): 163-178.
• Liu, J., Moore, S., Chen, C. & Lindsey, K. (2017). Crosstalk complexities between auxin, cytokinin and ethylene in Arabidopsis root development: from experiments to systems modelling, and back again. Molecular Plant 10(12): 1480-1496.
• Liu, J., Moore, S. & Lindsey, K. (2017). Modelling Plant Cell Growth. eLS 1-7.
• Luo, J., Liang, S., Li, J., Xu, Z., Li, L., Zhu, B., Li, Z., Lei, C., Lindsey, K., Chen, L., Jin, S. & Zhang, X. (2017). A transgenic strategy for controlling plant bugs (Adelphocoris suturalis) through expression of double-stranded RNA homologous to fatty acyl-coenzyme A reductase in cotton. New Phytologist 215(3): 1173-1185.
• Wang, M., Tu, L., Lin, M., Lin, Z., Wang, P., Yang, Q., Ye, Z., Shen, C., Zhou, X., Zhang, L., Li, J., Nie, X., Li, Z., Guo, K., Ma, Y., Jin,S., Zhu, L., Yang, X., Min, L., Zhang, Q., Lindsey, K. & Zhang, X. (2017). Asymmetric subgenome selection and cis-regulatory divergence during cotton domestication. Nature Genetics 49(4): 579-587.
• Moore, S., Liu, J., Zhang, X. & Lindsey, K. (2017). A recovery principle provides insight into auxin pattern control in the Arabidopsis root. Scientific Reports 7: 43004.
• Zhou, T., Yang, X., Guo, K., Deng, J., Xu, J., Gao, W., Lindsey, K. & Zhang, X. (2016). ROS homeostasis regulates somatic embryogenesis via the regulation of auxin signaling in cotton. Molecular and Cellular Proteomics 15(6): 2108-2124.
• Rowe, J., Topping, J.F., Liu, J. & Lindsey, K. (2016). Abscisic acid regulates root growth under osmotic stress conditions via an interacting hormonal network with cytokinin, ethylene and auxin. New Phytologist 211(1): 225-239.
• Gao, W., Long, L., Xu, L., Lindsey, K., Zhang, X. & Zhu, L. (2016). Suppression of the homeobox gene HDTF1 enhances resistance to Verticillium dahliae and Botrytis cinerea in cotton. Journal of Integrative Plant Biology 58(5): 503-513.
• Moore, S., Zhang, X., Liu, J. & Lindsey, K. (2015). Modelling plant hormone gradients. eLS 1-10.
• Wang, M., Yuan, D., Tu, L., Gao, W., He, Y., Hu, H., Wang, P., Liu, N., Lindsey, K. & Zhang, X. (2015). Long non-coding RNAs and their proposed functions in fibre development of cotton (Gossypium spp.). New Phytologist 207(4): 1181-1197.
• Moore, S., Zhang, X., Mudge, A., Rowe, J., Topping, J., Liu, J. & Lindsey, K. (2015). Spatiotemporal modelling of hormonal crosstalk explains the level and patterning of hormones and gene expression in Arabidopsis thaliana wildtype and mutant roots. New Phytologist 207(4): 1110-1122.
• Moore, S., Zhang, X., Liu, J. & Lindsey, K. (2015). Some fundamental aspects of modelling auxin patterning in the context of auxin-ethylene-cytokinin crosstalk. Plant Signaling and Behavior 10(10): e1056424.
• Lima, N.B., Trindade, F., da Cunha, M., Oliviera, A.E.A., Lindsey, K., Topping, J. & Fernandes, K.V.S. (2015). Programmed cell death during development of cowpea (Vigna unguiculata L. (Walp.) seed coat. Plant Cell and Environment 38(4): 718-728.
• Liu, N., Tu, L., Tang, W., Gao, W., Lindsey, K. & Zhang, X. (2014). Small RNA and degradome profiling reveals a role for miRNAs and their targets in the developing fibers of Gossypium barbadense. The Plant Journal 80(2): 331-344.
• Liu, Junli, Lindsey, Keith & Hussey, Patrick J. (2014). Elucidating the regulation of complex signalling systems in plant cells. Biochemical Society Transactions 42(1): 219-223.
• Liu, J., Rowe, J. & Lindsey, K. (2014). Hormonal crosstalk for root development: a combined experimental and modeling perspective. Frontiers in Plant Sciences 5: 116.
• Tang, W., Tu, L., Yang, X., Tan, J., Deng, F., Hao, J. Guo, K., Lindsey, K. & Zhang, X. (2014). The calcium sensor GhCaM7 promotes cotton fiber elongation by modulating reactive oxygen species (ROS) production. New Phytologist 202(2): 509-520.
• Portillo, M., Cabrera, J., Lindsey, K., Topping, J., Andrés, M.F., Emiliozzi, M., Oliveros, J.C., García-Casado, G., Solano, R., Koltai, H., Resnick, N., Fenoll, C. & Escobar, C. (2013). Distinct and conserved transcriptomic changes during nematode-induced giant cell development in tomato compared with Arabidopsis: a functional role for gene repression. New Phytologist 197(4): 1276-1290.
• Yang, X., Wang, L., Yuan, D., Lindsey, K. & Zhang, X. (2013). Small RNA and degradome sequencing reveal complex miRNA regulation during cotton somatic embryogenesis. Journal of Experimental Botany 64(6): 1521-1536.
• Ji, H., Kyndt, T., Denil, S., Lindsey, K., Topping, J., Nahar, K., Haegeman, A., Van Criekinge, W., Trooskens, G., De Meyer, T. & Gheysen, G. (2013). Transcriptional analysis through RNA sequencing of giant cells induced by Meloidogyne graminicola in rice roots. Journal of Experimental Botany 64(13): 3885-3898.
• Liu, J.L., Mehdi, S., Topping, J., Friml, J. & Lindsey, K. (2013). Interaction of PLS and PIN and hormonal crosstalk in Arabidopsis root development. Frontiers in Plant Science: Frontiers in Plant Cell Biology 4: 75.
• Zhang, R., Xia, X., Lindsey, K. & Ferreira da Rocha, P.S.C (2012). Functional complementation of the dwf4-102 mutant of Arabidopsis by overexpression of CYP724A1. Journal of Plant Physiology 169: 421-428.
• Osbourn A.E., O'Maille, P.E., Rosser, S.J. & Lindsey, K. (2012). Synthetic Biology. New Phytologist 196: 671-677.
• Chapman, N., Miller, A.J., Lindsey, K. & Whalley, R. (2012). Roots, water, and nutrient acquisition: let’s get physical. Trends in Plant Science 16: 701-710.
• Chapman, N., Whalley, W.R., Lindsey, K. & Miller, A.J. (2011). Water supply and not nitrate concentration determines primary root growth in Arabidopsis. Plant, Cell and Environment 34: 1630-1638.
• Liu, J., Mehdi, S., Topping, J., Tarkowski, P. & Lindsey, K. (2010). Modelling and experimental analysis of hormonal crosstalk in Arabidopsis. Molecular Systems Biology 6(1): 373.
• Barcala, M., Garcia, A., Cabrera, J., Casson, S., Lindsey, K., Favery, B., García-Casado, G., Solano, R., Fenoll, C. & Escobar, C. (2010). Early transcriptomic events in microdissected Arabidopsis nematode-induced giant cells. The Plant Journal 61(4): 698-712.
• Chivasa, S., Simon, J.W., Murphy, A.M., Lindsey, K., Carr, J.P. & Slabas, A.R. (2010). The effects of extracellular adenosine 5'-triphosphate on the tobacco proteome. Proteomics 10(2): 235-244.
• Pullen, M., Clark, N., Zarinkamar, F., Topping, J. & Lindsey, K. (2010). Analysis of vascular development in the hydra sterol biosynthetic mutants of Arabidopsis. PLoS ONE 5(8): e12227.
• K Lindsey & the International Arabidopsis Informatics Consortium (2010). An international bioinformatics infrastructure to underpin the Arabidopsis community. Plant Cell 22: 2530-2536.
• Chivasa, S, Tomé, DF, Murphy, AM, Hamilton, JM, Lindsey, K, Carr, JP & Slabas, AR (2009). Extracellular ATP: a modulator of cell death and pathogen defense in plants. Plant Signaling & Behavior 4(11): 1078-1080.
• Chivasa, S., Murphy, A., Hamilton, J., Lindsey, K., Carr, J. & Slabas, A.R. (2009). Extracellular ATP is a regulator of pathogen defence in plants. The Plant Journal 60(3): 436-448.
• Casson, S.A., Topping, J.F. & Lindsey, K. (2009). MERISTEM-DEFECTIVE, an RS domain protein, is required for the correct meristem patterning and function in Arabidopsis. The Plant Journal 57(5): 857-869.
• Portillo, M., Lindsey, K., Casson, S.A., Fenoll, C. & Escobar, C. (2009). A rapid protocol for laser-capture microdissection of giant cells and root vascular cells from tomato (Solanum lycopersicum). Molecular Plant Pathology 10: 523-535.
• Spencer, M.W.B., Casson, S.A. & Lindsey, K. (2007). Transcriptional profiling of the Arabidopsis embryo. Plant Physiology 143: 924-940.
• Friml, J., Benfey, P., Benkova, E., Bennett, M., Berleth, T., Geldner, N., Grebe, M., Heisler, M., Hejato, J., Juergens, G., Laux, T., Lindsey, K., Lukowitz, W., Luschnig, C., Offringa, R., Scheres, B., Swarup, R., Torres-Ruiz, R., Weijers, D. & Zazimalova, E. (2006). Apical-basal polarity - why plant cells don't stand on their heads. Trends in Plant Science 11: 12-14.
• Vaughan, S.P. James, D.J., Lindsey, K. & Massiah, A.J. (2006). Characterization of FaRB7, a near root-specific gene from strawberry (Fragaria x ananassa Duch.) and promoter activity analysis in homologous and heterologous hosts. Journal of Experimental Botany 57: 3901-3910.
• Chilley, P.M., Casson, S.A. Tarkowski, P., Wang, K.L.-C., Hawkins, N., Hussey, P.J. Beale, M., Ecker, J.R. Sandberg, G.K. & Lindsey, K. (2006). The POLARIS peptide of Arabidopsis regulates auxin transport and root growth via effects on ethylene signaling. Plant Cell 18(11): 3058-3072.
• Chivasa, S., Hamilton, J.M. Pringle, R.S. Ndimba, B.K. Simon, J.W., Lindsey, K. & Slabas, A.R. (2006). Proteomic analysis of differentially expressed proteins in fungal elicitor-treated Arabidopsis cell cultures. Journal of Experimental Botany 57: 1553-1562.
• Casson, S.A. & Lindsey, K. (2006). The turnip mutant of Arabidopsis reveals that LEC1 expression mediates the effects of auxin and sugars to promote embryonic cell identity. Plant Physiology 142: 526-541.
• Chivasa, S, Ndimba, BK, Simon, JW, Lindsey, K & Slabas, AR (2005). Extracellular ATP functions as an endogenous external metabolite regulating plant cell viability. Plant Cell 17(11): 3019-3034.
• Casson, S., Spencer, M., Walker, K. & Lindsey, K. (2005). Laser capture microdissection for the analysis of gene expression during embryogenesis of Arabidopsis. Plant Journal 42(1): 111-123.
• Chivasa, S., Ndimba, B.K., Simon, W., Lindsey, K. & Slabas, A.R. (2005). Extracellular ATP defines a novel endogenous extracellular metabolite regulating plant cell viability. Plant Cell 17: 3019-3034.
• Dean, G., Casson, S.A. & Lindsey, K. (2004). KNAT6 gene of Arabidopsis is expressed in roots and is required for correct lateral root formation. Plant Molecular Biology 54: 71-84.
• Souter, M., Pullen, M.L., Topping, J.F., Zhang, X. & Lindsey, K. (2004). Rescue of defective auxin-mediated gene expression and root meristem function by inhibition of ethylene sugnalling in sterol biosynthesis mutants of Arabidopsis. Planta 219: 773-783.
• Casson, S.A. & Lindsey, K. (2003). Tansley Review: Genes and signalling in root development. New Phytologist 158: 11-38.
• Farrar, K., Evans, I.M., Topping, J.F., Souter, M.A., Nielsen, J.E. & Lindsey, K. (2003). EXORDIUM - a gene expressed in proliferating cells and with a role in meristem function, identified by promoter trapping in Arabidopsis. Plant Journal 61-73.
• Lindsey, K., Topping, J.F. & Pullen, M. (2003). Importance of plant sterols in pattern formation and hormone signalling. Trends in Plant Science 8: 521-525.
• Lindsey, K., Casson, S. & Chilley, P. (2002). Peptides: new signalling molecules in plants. Trends in Plant Science 7: 78-83.
• Casson, S.A., Chilley, P., Topping, J.F., Evans, I.M., Souter, M. & Lindsey, K. (2002). The POLARIS gene of Arabidopsis encodes a predicted peptide required for correct root growth and leaf vascular patterning. Plant Cell 14(8): 1705-1721.
• Souter, M., Topping, J.F., Pullen, M., Friml, J., Palme, K., Hackett, R., Grierson, D. & Lindsey, K. (2002). hydra mutants of Arabidopsis are defective in sterol profiles and auxin and ethylene signaling. Plant Cell 14(5): 1017-1031.
• Topping, J.F. & Lindsey K. (1997). Promoter trap markers differentiate structural and positional components of polar development in Arabidopsis. Plant Cell 9: 1713-1725.
• Wei, W., Twell, D. & Lindsey, K. (1997). A novel nucleic acid helicase gene identified by promoter trapping in Arabidopsis. Plant Journal 11: 1307-1314.
• Topping, J.F., May, V.J., Muskett, P.R. & Lindsey K. (1997). Mutations in the HYDRA1 gene of Arabidopsis perturb cell shape and disrupt embryonic and seedling morphogenesis. Development 124: 4415-4424.
• Barthels, N., van der Lee, F., Klap, J., Goddijn, O.J.M. Karimi, M., Puzio, P., Grundler, F.M.W. Ohl, S.A., Lindsey, K., Robertson, L., Robertson, W.M. Van Montagu, M., Gheysen, G. & Sijmons, P. (1997). Regulatory sequences of Arabidopsis drive reporter gene expression in nematode feeding structures. Plant Cell 9: 2119-2134.
• Fuerst, R.A.U.A., Soni, R., Murray, J.A.H. & Lindsey, K. (1996). Modulation of cyclin transcript levels in cultured cells of Arabidopsis thaliana. Plant Physiology 112: 1023-1033.
• Topping, J.F. & Lindsey, K. (1995). Insertional mutagenesis and promoter trapping in plants for the isolation of genes and the study of development. Transgenic Research 4: 291-305.
• Topping, J.F., Agyeman, F., Henricot, B. & Lindsey, K. (1994). Identification of molecular markers of embryogenesis in Arabidopsis thaliana by promoter trapping. Plant Journal 57: 895-903.
• Lindsey, K. & Topping, J.F. (1993). Embryogenesis: a question of pattern. Journal of Experimental Botany 44: 359-374.
• Goddijn, O.J.M., Lindsey, K., van der Lee, F.M., Klap, J.C. & Sijmons, P. (1993). Differential gene expression in nematode-induced feeding structures of transgenic plants harbouring promoter-gusA fusion constructs. Plant Journal 4: 863-873.
• Lindsey, K., Wei, W., Clarke, M.C., McArdle, H.F., Rooke, L.M. & Topping, J.F. (1993). Tagging genomic sequences that direct transgene expression by activation of a promoter trap in plants. Transgenic Research 2: 33-47.
• Clarke, M.C., Wei, W. & Lindsey, K. (1992). High frequency transformation of Arabidopsis thaliana by Agrobacterium tumefaciens. Plant Molecular Biology Reporter 10: 178-189.
• Topping, J.F., Wei, W. & Lindsey, K. (1991). Functional tagging of regulatory elements in the plant genome. Development 112: 1109-1119.