Manually curated list
Ladejobi, O., Elderfield, J., Gardner, K.A., Gaynor, R.C., Hickey, J., Hibberd, J.M., Mackay, I.J., Bentley, A.R. (2016) Maximizing the potential of multi-parental crop populations. Applied & Translational Genomics 11, 9–17.
Burgess, S.J., Granero-Moya, I., Grangé-Guermente, M.J., Boursnell, C., Terry, M.J. and Hibberd J.M. (2016) Ancestral light and chloroplast regulation form the foundations for C4 gene expression. Nature Plants, doi: 10.1038/NPLANTS.2016.161
Smith-Unna, R., Boursnell, C., Patro, R.,Hibberd, J.M., Kelly, S. (2016). TransRate: reference free quality assessment of de-novo transcriptome assemblies. Genome Research, doi: 10.1101/gr.196469.115.
Aubry, S., Aresheva, O., Reyna-Llorens, I., Smith-Unna, R.D., Hibberd, J.M., Genty, B. (2016) A specific transcriptome signature for guard cells from the C4 plant Gynandropsis gynandra. Plant Physiology doi:10.1104/pp.15.01203
Williams, B., Burgess, S.J., Reyna-Llorens, I., Knerova, J., Aubry, S., Stanley, S., Hibberd, J.M. (2016) An untranslated cis-element regulates the accumulation of multiple C4 enzymes in Gynandropsis gynandra mesophyll cells. Plant Cell. doi:10.1105/tpc.15.00570. *
* We report the first regulon that acts on multiple genes expressed preferentially in mesophyll cells of C4 plants. The sequence is found in untranslated regions of CA and PPDK genes, and interestingly is found in ancestral C3 genes.
Covshoff, S., Szecowka, M., Hughes, T.E, Smith-Unna, R., Kelly, S., Bailey, K.J., Sage, T.L., Pachebat, J.A., Leegood, R., Hibberd, J.M. (2015) C4 photosynthesis in the rice paddy: insights from the noxious weed Echinochloa glabrescens Plant Physiology, doi: 10.1104/pp.15.00889.
Ort, D.R. Merchant, S.S., Alric, J., Barkan, A., Blankenship, R.E., Bock, R. Croce, R., Hanson, M.R., Hibberd, J.M., Long, S.P., Moore, T.A., Moroney, J., Niyogi, K.K., Parry, M.A.J., Peralta-Yahya, P.P., Prince, R.C., Redding, K.E., Spalding, M., van Wijk, K.J., Vermaas, W.F.J., von Caemmerer, S., Weber, A.P.M., Yeates, T., Yuan, J.S., and Zhu, X.G. (2015) Redesigning photosynthesis to sustainably meet global food and bioenergy demand PNAS doi:10.1073/pnas.1424031112
Eastmond, P.J., Astley, H.M. Parsley, K., Aubry, S., Williams, B.P., Menard, G.N., Craddock, C.P., Nunes-Nesi, A., Fernie, A.R., Hibberd, J.M. (2015) Arabidopsis uses two gluconeogenic gateways for organic acids to fuel seedling establishment. Nature Communications doi:10.1038/ncomms7659.*
* A modified view of gluconeogenesis, a ubiquitous metabolic pathway that was defined in the 1960s. Using genetics we identify an additional component of this pathway and a route that is important for mobilisation of seed protein
- Aubry, S., Kelly, S., Kümpers, B.M.C., Smith-Unna, R.D., Hibberd, J.M. (2014) Deep evolutionary comparison of gene expression identifies parallel recruitment of trans-factors in two independent origins of C4 photosynthesis. PLOS Genetics doi:10.1371/journal.pgen.1004365 *
- John, C.R., Smith-Unna, R.D., Woodfield, H., Hibberd, J.M. (2014) Evolutionary convergence of cell specific gene expression in independent lineages of C4 grasses. Plant Physiology, doi:10.1104/pp.114.238667
- Aubry, S., Smith-Unna, R., Boursnell, C, Kopriva, S., Hibberd, J.M. (2014) Transcript residency on ribosomes reveals a key role for the Arabidopsis thaliana bundle sheath in sulphur and glucosinolate metabolism. Plant Journal doi:10.1111/tpj.12502.**
- Bellasio, C., Burgess, S.J, Griffiths, H., Hibberd, J.M. (2014) A high throughput gas exchange screen for determining rates of photorespiration or regulation of C4 activity. Journal of Experimental Botany, doi: 10.1093/jxb/eru238
- Christin, P-A., Arakaki, M., Osborne, C.P., Bräutigam, A., Sage, R.F., Hibberd, J.M., Kelly, S., Covshoff, S., Wong, G.K-S., Hancock, L., Edwards, E.J. (2014) Shared origins of a key enzyme during the evolution of C4 and CAM metabolism. J. Exp. Bot. doi:10.1093/jxb/eru087
- van den Bergh, E., Külahoglu, C., Bräutigam, A., Hibberd, J.M., Weber, A.P.M. Zhu, X-G, Schranz, E.M. (2014) Gene and Genome Duplications and the Origin of C4 Photosynthesis: Birth of a Trait in the Cleomaceae
* A new computational method developed by Steve Kelly applied to transcriptomes generated from distantly related species. This approach shows that independent C4 lineages have very likely recruited the same regulatory networks to generate the C4 pathway
** The first unbiased analysis of transcript populations within bundle sheath cells of C3 plants. Insight into the role of these cells and also the extent to which they have altered their role as C4 evolves.
- Aubry, S., Knerova, J., Hibberd, J.M. 2013. Endoreduplication is not involved in bundle-sheath formation in the C4 species Cleome gynandra. Journal of Experimental Botany doi:10.1093/jxb/ert350
- Williams, B.P., Johnston, I.G., Covshoff, S., Hibberd, J.M. 2013. Phenotypic landscape inference reveals multiple evolutionary paths to C4 photosynthesis. eLife 2:e00961. * also at the preprint server Arxiv
- Cheng S, van den Bergh E, Zeng P, Zhong X, Xu J, Liu X, Hofberger J, de Bruijn S, Bhide AS, Kuelahoglu C, Biana C, Chena J, Fana G, Kaufmanne K, Hall JC, Beckerf A, Bräutigam A, Weber APM, Shia C, Zhenga Z, Lia W, Lv M, Taoc Y, Wanga J, Zoua H, Quana Z, Hibberd JM, Zhang G, Zhu XG, Xua X, Schranz ME. 2013. The Tarenaya hassleriana genome provides insight into reproductive trait and genome evolution of crucifers. The Plant Cell Online tpc.113.113480
- Bombelli P, Iyer DMR, Covshoff S, McCormick AJ, Yunus K, Hibberd JM, Fisher AC, Howe CJ. 2013. Comparison of power output by rice (Oryza sativa) and an associated weed (Echinochloa glabrescens) in vascular plant bio-photovoltaic (VP-BPV) systems. Appl Microbiol Biotechnol 97: 429–438.
- Wang P, Fouracre J, Kelly S, Karki S, Gowik U, Aubry S, Shaw MK, Westhoff P, Slamet-Loedin IH, Quick WP, et al.. 2013. Evolution of GOLDEN2-LIKE gene function in C3 and C4 plants. Planta 237: 481–495.
- Covshoff S, Furbank RT, Leegood RC, Hibberd JM. 2013. Leaf rolling allows quantification of mRNA abundance in mesophyll cells of sorghum. J Exp Bot 64: 807–813. **
* A meta-analysis of traits in C3-C4 intermediate species combined with novel Bayesian mathematics predict the steps associated with the phenotypic evolution of C4 photosynthesis. The Editors’ choice.
** A simple approach to extract RNA from either M or BS cells of C4 leaves. This new approach is low tech, does not require incubations that themselves induce alterations in gene expression (such as the production of protoplasts), and gives high quality RNA suitable for deep sequencing.
- Covshoff S, Hibberd JM. 2012. Integrating C4 photosynthesis into C3 crops to increase yield potential. Current Opinion in Biotechnology 23: 209–214.
- Johnson MTJ, Carpenter EJ, Tian Z, Bruskiewich R, Burris JN, Carrigan CT, Chase MW, Clarke ND, Covshoff S, dePamphilis CW, et al.. 2012. Evaluating Methods for Isolating Total RNA and Predicting the Success of Sequencing Phylogenetically Diverse Plant Transcriptomes. PLoS ONE 7: e50226.
- Kajala K, Brown NJ, Williams BP, Borrill P, Taylor LE, Hibberd JM. 2012. Multiple Arabidopsis genes primed for recruitment into C4 photosynthesis. The Plant Journal 69: 47–56. *
- Tolley BJ, Sage TL, Langdale JA, Hibberd JM. 2012. Individual Maize Chromosomes in the C3 Plant Oat Can Increase Bundle Sheath Cell Size and Vein Density. Plant Physiol 159: 1418–1427. **
- Tolley BJ, Woodfield H, Wanchana S, Bruskiewich R, Hibberd JM. 2012. Light-regulated and cell-specific methylation of the maize PEPC promoter. J Exp Bot 63: 1381–1390.
- Williams BP, Aubry S, Hibberd JM. 2012. Molecular evolution of genes recruited into C4 photosynthesis. Trends in Plant Science 17: 213–220.
* Untranslated regions from multiple genes restrict expression to M cells. Surprisingly the orthologous UTRs from C3 also do.
** For C4 rice to be engineered, larger BS cells will be required. Prior to this work it was not clear whether it was possible to alter size of the BS in C3 plants.
- Astley HM, Parsley K, Aubry S, Chastain CJ, Burnell JN, Webb ME, Hibberd JM. 2011. The pyruvate, orthophosphate dikinase regulatory proteins of Arabidopsis are both bifunctional and interact with the catalytic and nucleotide-binding domains of pyruvate, orthophosphate dikinase. The Plant Journal 68: 1070–1080.
- Aubry S, Brown NJ, Hibberd JM. 2011. The role of proteins in C3 plants prior to their recruitment into the C4 pathway. J Exp Bot 62: 3049–3059.
- Bräutigam A, Kajala K, Wullenweber J, Sommer M, Gagneul D, Weber KL, Carr KM, Gowik U, Maß J, Lercher MJ, et al.. 2011. An mRNA Blueprint for C4 Photosynthesis Derived from Comparative Transcriptomics of Closely Related C3 and C4 Species. Plant Physiol 155: 142–156. *
- Brown NJ, Newell CA, Stanley S, Chen JE, Perrin AJ, Kajala K, Hibberd JM. 2011. Independent and Parallel Recruitment of Preexisting Mechanisms Underlying C4 Photosynthesis. Science 331: 1436–1439. **
- Kajala K, Covshoff S, Karki S, Woodfield H, Tolley BJ, Dionora MJA, Mogul RT, Mabilangan AE, Danila FR, Hibberd JM, et al.. 2011. Strategies for engineering a two-celled C4 photosynthetic pathway into rice. J Exp Bot 62: 3001–3010.
* In collaboration with Andreas Weber’s group we report the first estimates of global divergence in gene expression between C3 and C4 leaves.
** Independent lineages of C4 plants use the same mechanism to limit gene expression to BS cells. We also found that the cis elements reponsible were present in genes of C3 species.
- Brown NJ, Palmer BG, Stanley S, Hajaji H, Janacek SH, Astley HM, Parsley K, Kajala K, Quick WP, Trenkamp S, et al.. 2010. C4 acid decarboxylases required for C4 photosynthesis are active in the mid-vein of the C3 species Arabidopsis thaliana, and are important in sugar and amino acid metabolism. The Plant Journal 61: 122–133. *
- Hibberd JM, Covshoff S. 2010. The Regulation of Gene Expression Required for C4 Photosynthesis. Annual Review of Plant Biology 61: 181–207.
- Hibberd JM, Taylor LE, Leiss AE. 2010. Transgenic Plants Comprising Constructs Encoding Phosphoenolpyruvate Carboxykinase and/or Pyruvate,OrthoPhosphate Dikinase.
- Newell CA, Brown NJ, Liu Z, Pflug A, Gowik U, Westhoff P, Hibberd JM. 2010. Agrobacterium tumefaciens-mediated transformation of Cleome gynandra L., a C4 dicotyledon that is closely related to Arabidopsis thaliana. J Exp Bot 61: 1311–1319.
* Characteristics of C4 photosynthesis are found around veins of C3 A. thaliana, and defines which genes are involved as well as the function of the protein in the ancestral C3 system.
- Taylor L, Nunes-Nesi A, Parsley K, Leiss A, Leach G, Coates S, Wingler A, Fernie AR, Hibberd JM. 2010. Cytosolic pyruvate,orthophosphate dikinase functions in nitrogen remobilization during leaf senescence and limits individual seed growth and nitrogen content. The Plant Journal 62: 641-652. *
- Janacek SH, Trenkamp S, Palmer B, Brown NJ, Parsley K, Stanley S, Astley HM, Rolfe SA, Paul Quick W, Fernie AR, et al.. 2009. Photosynthesis in cells around veins of the C3 plant Arabidopsis thaliana is important for both the shikimate pathway and leaf senescence as well as contributing to plant fitness. The Plant Journal 59: 329–343.
- Chastain CJ, Xu W, Parsley K, Sarath G, Hibberd JM, Chollet R. 2008. The pyruvate, orthophosphate dikinase regulatory proteins of Arabidopsis possess a novel, unprecedented Ser/Thr protein kinase primary structure. The Plant Journal 53: 854–863.
- In: Sheehy JE, Mitchell PPL, Hardy B. 2008. Charting New Pathways to C4 Rice. World Scientific
- Truernit E, Hibberd JM. 2007. Immunogenic tagging of chloroplasts allows their isolation from defined cell types. The Plant Journal 50: 926–932. **
- Marshall DM, Muhaidat R, Brown NJ, Liu Z, Stanley S, Griffiths H, Sage RF, Hibberd JM. 2007. Cleome, a genus closely related to Arabidopsis, contains species spanning a developmental progression from C3 to C4 photosynthesis. The Plant Journal 51: 886–896.
- Parsley K, Hibberd JM. 2006. The Arabidopsis PPDK gene is transcribed from two promoters to produce differentially expressed transcripts responsible for cytosolic and plastidic proteins. Plant Mol Biol 62: 339–349.
- Dodd AN, Salathia N, Hall A, Kévei E, Tóth R, Nagy F, Hibberd JM, Millar AJ, Webb AAR. 2005. Plant Circadian Clocks Increase Photosynthesis, Growth, Survival, and Competitive Advantage. Science 309: 630–633.
- Johnson AAT, Hibberd JM, Gay C, Essah PA, Haseloff J, Tester M, Guiderdoni E. 2005. Spatial control of transgene expression in rice (Oryza sativa L.) using the GAL4 enhancer trapping system. The Plant Journal 41: 779–789.
- Brown NJ, Parsley K, Hibberd JM. 2005. The future of C4 research – maize, Flaveria or Cleome? Trends in Plant Science 10: 215–221. ***
- Revill MJW, Stanley S, Hibberd JM. 2005. Plastid genome structure and loss of photosynthetic ability in the parasitic genus Cuscuta. J Exp Bot 56: 2477–2486.
* Despite PPDK having a clear role in the C4 cycle that was first described in the 1968, its role in C3 species had never been defined. We show that it functions in nitrogen cycling during senescence in C3 plants.
** This is a system that allows chloroplasts from specific cells to be isolated.
*** Our first thoughts on why Cleome and Arabidopsis might be an interesting system to study C4 photosynthesis.
- Birch-Machin I, Newell CA, Hibberd JM, Gray JC. 2004. Accumulation of rotavirus VP6 protein in chloroplasts of transplastomic tobacco is limited by protein stability. Plant Biotechnology Journal 2: 261–270.
- Newell CA, Birch-Machin I, Hibberd JM, Gray JC. 2003. Expression of Green Fluorescent Protein from Bacterial and Plastid Promoters in Tobacco Chloroplasts. Transgenic Res 12: 631–634.
- Hibberd JM, Quick WP. 2002. Characteristics of C4 photosynthesis in stems and petioles of C3 flowering plants. Nature 415: 451–454.
- Millen RS, Olmstead RG, Adams KL, Palmer JD, Lao NT, Heggie L, Kavanagh TA, Hibberd JM, Gray JC, Morden CW, et al.. 2001. Many Parallel Losses of infA from Chloroplast DNA during Angiosperm Evolution with Multiple Independent Transfers to the Nucleus. Plant Cell 13: 645–658.
- Drea SC, Mould RM, Hibberd JM, Gray JC, Kavanagh TA. 2001. Tissue-specific and developmental-specific expression of an Arabidopsis thaliana gene encoding the lipoamide dehydrogenase component of the plastid pyruvate dehydrogenase complex. Plant Mol Biol 46: 705–715.
- Gray JC, Sullivan JA, Hibberd JM, Hansen MR. 2001. Stromules: Mobile Protrusions and Interconnections Between Plastids. Plant Biology 3: 223–233.
- Hibberd JM, Jeschke WD. 2001. Solute flux into parasitic plants. J Exp Bot 52: 2043–2049.
- van Bel AJ., Hibberd J, Prüfer D, Knoblauch M. 2001. Novel approach in plastid transformation. Current Opinion in Biotechnology 12: 144–149.
- Bungard RA, Ruban AV, Hibberd JM, Press MC, Horton P, Scholes JD. 1999. Unusual carotenoid composition and a new type of xanthophyll cycle in plants. PNAS 96: 1135–1139.
- Gray JC, Hibberd JM, Linley PJ, Uijtewaal B. 1999. GFP movement between chloroplasts. Nat Biotech 17: 1146–1146.
- Knoblauch M, Hibberd JM, Gray JC, van Bel AJE. 1999. A galinstan expansion femtosyringe for microinjection of eukaryotic organelles and prokaryotes. Nat Biotech 17: 906–909.
- Lao NT, Schoneveld O, Mould RM, Hibberd JM, Gray JC, Kavanagh TA. 1999. An Arabidopsis gene encoding a chloroplast-targeted β-amylase. The Plant Journal 20: 519–527.
- Hibberd JM, Quick WP, Press MC, Scholes JD, Jeschke WD. 1999. Solute fluxes from tobacco to the parasitic angiosperm Orobanche cernua and the influence of infection on host carbon and nitrogen relations. Plant, Cell & Environment 22: 937–947.
- Hibberd JM, Linley PJ, Khan MS, Gray JC. 1998. Transient expression of green fluorescent protein in various plastid types following microprojectile bombardment. The Plant Journal 16: 627 –632.
- Hibberd JM, Quick WP, Press MC, Scholes JD. 1998. Can source–sink relations explain responses of tobacco to infection by the root holoparasitic angiosperm Orobanche cernua? Plant, Cell & Environment 21: 333–340.
- Hibberd JM, Bungard RA, Press MC, Jeschke WD, Scholes JD, Quick WP. 1998. Localization of photosynthetic metabolism in the parasitic angiosperm Cuscuta reflexa. Planta 205: 506–513.
- Bürkle L, Hibberd JM, Quick WP, Kühn C, Hirner B, Frommer WB. 1998. The H+-Sucrose Cotransporter NtSUT1 Is Essential for Sugar Export from Tobacco Leaves. Plant Physiol 118: 59–68.
- Hibberd JM, Barker ER, Scholes JD, Quick WP, Press MC. 1996. How does Orobanche aegyptiaca influence the carbon relations of tobacco and tomato? In Congresos y Jornadas - Junta de Andalucia, Vol. no. 36/96 of, JA, DGIA
- Hibberd JM, Quick WP, Press MC, Scholes JD. 1996. The influence of the parasitic angiosperm Striga gesnerioides on the growth and photosynthesis of its host, Vigna unguiculata. J Exp Bot 47: 507–512.
- Hibberd JM, Richardson P, Whitbread R, Farrar JF. 1996. Effects of Leaf Age, Basal Meristem and Infection with Powdery Mildew on Photosynthesis in Barley Grown in 700 μmol Mol-1 CO2. New Phytologist 134: 317–325.
- Hibberd JM, Whitbread R, Farrar JF. 1996. Carbohydrate metabolism in source leaves of barley grown in 700 μmol mol−1 CO2 and infected with powdery mildew. New Phytologist 133: 659–671.
- Hibberd JM, Whitbread R, Farrar JF. 1996. Effect of 700 μmol mol−1 CO2 and infection with powdery mildew on the growth and carbon partitioning of barley. New Phytologist 134: 309–315.
- Hibberd JM, Whitbread R, Farrar JF. 1996. Effect of elevated concentrations of CO2 on infection of barley by Erysiphe graminis. Physiological and Molecular Plant Pathology 48: 37–53.
- Hibberd JM, Quick WP, Press MC, Scholes JD. 1995. Carbon fixation, partitioning and growth of cowpea parasitised by Striga gesnerioides. Aspects of Applied Biology (no.42) p. 117-124.