Here are the publications that the Department of Plant Sciences has produced since we started keeping a record in late 2015. It is probably not a complete list:
2020
Carr JP, Tungadi T, Donnelly R, Bravo-Cazar A, Rhee S-J, Watt LG, Mutuku M, Wamonje FO, Murphy AM, Arinatwe W, Pate AE, Cunniffe NJ, Gilligan CA. (2020) Modelling and manipulation of aphid-mediated spread of non-persistently transmitted viruses. Virus Research https://doi.org/10.1016/j.virusres.2019.197845
Matthus E, Sun J, Wang L, Bhat MG, Mohammad-Sidik AB, Wilkins KA, Leblanc-Fournier N, Legué V, Moulia B, Stacey G, Davies JM. (2020) DORN1/P2K1 and purino-calcium signalling in plants: making waves with extracellular ATP. Annals of Botany https://doi.org/10.1093/aob/mcz135
Bentley L, Coomes DA. (2020) Partial river flow recovery with forest age is rare in the decades following establishment. Global Change Biology https://doi.org/10.1111/gcb.14954
Pattrick JG, Symington HA, Federle W, Glover BJ. (2020) The mechanics of nectar offloading in the bumblebee Bombus terrestris and implications for optimal concentrations during nectar foraging. Journal of the Royal Society Interface. https://doi.org/10.1098/rsif.2019.0632
Hearn TJ, Webb AAR. (2020) Recent advances in understanding regulation of the Arabidopsis circadian clock by local cellular environment. F1000Research https://doi.org/10.12688/f1000research.21307.1
Wamonje FO, Donnelly R, Tungadi TD, Murphy AM, Pate AE, Woodcock C, Caulfield J, Mutuku M, Bruce TJA, Gilligan CA, Pickett JA, Carr JP. (2020) Different Plant Viruses Induce Changes in Feeding Behavior of Specialist and Generalist Aphids on Common Bean That Are Likely to Enhance Virus Transmission. Frontiers In Plant Science https://doi.org/10.3389/fpls.2019.01811
Urban L, Holzer A, Barona JJ, Hall M, Braeuninger-Weimer P, Scherm MJ, Kunz DJ, Perera SN, Martin-Herranz DE, Tipper ET, Salter SJ, Stammnitz MR. (2020) Freshwater monitoring by nanopore sequencing. bioRxiv https://doi.org/10.1101/2020.02.06.936302
Lambing C, Tock AJ, Topp SD, Choi K, Kuo PC, Zhao X, Osman K, Higgins J, Franklin FCH, Henderson IR. (2020) Interacting genomic landscapes of REC8-cohesin, chromatin and meiotic recombination in Arabidopsis thaliana. The Plant Cell https://doi.org/10.1105/tpc.19.00866
Igea J, Tanentzap AJ. (2020) Angiosperm speciation cools down in the tropics. Ecology Letters https://doi.org/10.1111/ele.13476
Luginbuehl LH, El-Sharnouby S, Wang N, Hibberd JM. (2020) Fluorescent reporters for functional analysis in rice leaves. Plant Direct https://doi.org/10.1002/pld3.188
Chomthong M, Griffiths H. (2020) Model approaches to advance Crassulacean Acid Metabolism system integration. The Plant Journal https://doi.org/10.1111/tpj.14691
Chiu CH, Paszkowski U. (2020) Receptor-like kinases sustain symbiotic scrutiny. Plant Physiology https://doi.org/10.1104/pp.19.01341
Singh P, Reeves G. (2020) Constructing the bundle sheath towards enhanced photosynthesis. Journal of Experimental Botany https://doi.org/10.1093/jxb/erz537
Sauret-Gueto S, Frangedakis E, Silvestri L, Rebmann M, Tomaselli M, Markel K, Delmans M, West A, Patron NJ, Haseloff J. (2020) Systematic tools for reprogramming plant gene expression in a simple model, Marchantia polymorpha. bioRxiv https://doi.org/10.1101/2020.02.29.971002
Shapcott A, James H, Simmons L, Shimizu Y, Gardiner L, Rabehevitra D, Letsara R, Cable S, Dransfield J, Baker WJ, Rakotoarinivo M. (2020) Population modelling and genetics of a critically endangered Madagascan palm Tahina spectabilis. Ecology and Evolution https://doi.org/10.1002/ece3.6137
Bunbury F, Helliwell KE, Mehrshahi P, Davey MP, Salmon D, Holzer A, Smirnoff N, Smith AG. (2020) Physiological and Molecular Responses of a Newly Evolved Auxotroph of Chlamydomonas to B12 Deprivation. Plant Physiology https://doi.org/10.1104/pp.19.01375
McGonigle DF, Noari GR, Phillips RL, Aynekulu E, Estrada-Carmona N, Jones SJ, Koziell I, Luedeling E, Remans R, Shepherd K, Wilberg D, Whitney C, Zhang W. (2020) A Knowledge Brokering Framework for Integrated Landscape Management. Front. Sustain. Food Syst https://doi.org/10.3389/fsufs.2020.00013
Wang Z, Baulcombe DC. (2020) Transposon age and non-CG methylation. Nature Communications https://doi.org/10.1038/s41467-020-14995-6
Pellegrini AFA, Hobbie SE, Reigh PB, Jumpponen A, Brookshire ENJ, Caprio AC, Ccoetsee C, Jakson RB. (2020) Repeated fire shifts carbon and nitrogen cycling by changing plant inputs and soil decomposition across ecosystems. Ecological Monographs https://doi.org/10.1002/ecm.1409
Sauret-Gueto S. (2020) Generating FAIR — Findable, Accessible, Interoperable, Reusable — Resources with Marchantia, a Prototype for Plant Synthetic Biology. Benchtalk https://www.benchling.com/2020/03/09/generating-fair-findable-accessible-interoperable-reusable-resources-with-marchantia-a-prototype-for-plant-synthetic-biology/
Li F, Nishiyama T, Waller M, Frangedakis E. et al. (2020) Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts. Nature Plants https://doi.org/10.1038/s41477-020-0618-2
Donnelly R, Sikazwe GW, Gilligan CA. (2020) Estimating epidemiological parameters from experiments in vector access to host plants, the method of matching gradients. PLOS Computational Biology https://doi.org/10.1371/journal.pcbi.1007724
Bussell EH, Cunniffe NJ. (2020) Applying optimal control theory to a spatial simulation model of sudden oak death: ongoing surveillance protects tanoak while conserving biodiversity. Journal of the Royal Society Interface https://doi.org/10.1098/rsif.2019.0671
Oldroyd GED, Leyser O. (2020) A plant’s diet, surviving in a variable nutrient environment. Science http://dx.doi.org/10.1126/science.aba0196
Fening KO, Forchibe EE, Wamonje FO, Adama I, Afreh-Nuamah K, Carr JP. (2020) First Report and Distribution of the Indian Mustard Aphid, Lipaphis erysimi pseudobrassicae (Hemiptera: Aphididae) . Journal of Economic Entomology https://doi.org/10.1093/jee/toaa057
Corrêa RL, Sanz-Carbonell A, Kogej Z, Müller SY, Ambrós S, López-Gomollón S, Gómez G, Baulcombe DC, Elena SF. (2020) Viral Fitness Determines the Magnitude of Transcriptomic and Epigenomic Reprogramming of Defense Responses in Plants. Molecular Biology and Evolution https://doi.org/10.1093/molbev/msaa091
Müller L, Mombaerts L, Pankin A, Davis SJ, Webb AAR, Goncalves J, von Korff M. (2020) Differential effects of day-night cues and the circadian clock on the barley transcriptome. Plant Physiology https://doi.org/10.1104/pp.19.01411
van de Kerkhof GT, Schertel L, Poon R, Jacucci G, Glover BJ, Vignolini S. (2020) Disordered wax platelets on Tradescantia pallida leaves create golden shine. Faraday Discussions https://doi.org/10.1039/D0FD00024H
Murphy AM, Zhou T, Carr JP. (2020) An update on salicylic acid biosynthesis, its induction and potential exploitation by plant viruses. Current Opinion in Virology https://doi.org/10.1016/j.coviro.2020.02.008
Wangpraseurt D, You S, Azam F, Jacucci G, Gaidarenko O, Hildebrand M, Kühl M, Smith AG, Davey MP, Smith A, Deheyn DD, Chen S, Vignolini S. (2020) Bionic 3D printed corals. Nature Communications https://doi.org/10.1038/s41467-020-15486-4
Thompson RN, Cunniffe NJ. (2020) The probability of detection of SARS-CoV-2 in saliva. Statistical Methods in Medical Research https://doi.org/10.1177/0962280220915049
Smith AG et al (2020) What are Algae?. EABA Position Paper https://www.what-are-algae.com/
Choi J, Lee T, Cho J, Servante EK, Pucker B, Summer W, Bowden S, Rhimi M, An K, An G, Bouwmeester HJ, Wallington EJ, Oldroyd G, Paszkowski U. (2020) The negative regulator SMAX1 controls mycorrhizal symbiosis and strigolactone biosynthesis in rice. Nature Communications https://doi.org/10.1038/s41467-020-16021-1
Ball JGC, Burgman MA, Goldman ED, Lessmann J. (2020) Protecting biodiversity and economic returns in resource‐rich tropical forests. Conservation Biology https://doi.org/10.1111/cobi.13534
Zellweger F, ... Coomes DA, et al. (2020) Forest microclimate dynamics drive plant responses to warming. Science https://dx.doi.org/10.1126/science.aba6880
Holzer A, Newsad S, Tran N-A, Harrison E, Smith A. (2020) Microalgae, bacteria and vitamins: three key players in aquatic microbial communities. Microbiology Society https://microbiologysociety.org/publication/current-issue/why-microbiology-matters/article/new-frontiers-in-microbiology.html
Goudet MMM, Orr DJ, Melkonian M, Müller KH, Meyer MT, Carmo-Silva E, Griffiths H. (2020) Rubisco and carbon‐concentrating mechanism co‐evolution across chlorophyte and streptophyte green algae. New Phytologist https://doi.org/10.1111/nph.16577
Yakimovich KM, Orland C, Emilson EJS, Tanentzap AJ, Basiliko N, Mykytczuk NCS. (2020) Lake characteristics influence how methanogens in littoral sediments respond to terrestrial litter inputs. The ISME Journal https://doi.org/10.1038/s41396-020-0680-9
Valbuena R, O'Connor B, Zellweger F, Simonson W, Vihervaara P, Maltamo M, Silva A, Almeida RAA, Danks F, Morsdorf F, Chirici G, Lucas R, Coomes DA, Coops NC. (2020) Standardizing Ecosystem Morphological Traits from 3D Information Sources. Trends in Ecology and Evolution https://doi.org/10.1016/j.tree.2020.03.006
Gray A, Krolikowski M, Fretwell P, Convey P, Peck LS, Mendelova M, Smith A, Davey MP. (2020) Remote sensing reveals Antarctic green snow algae as important terrestrial carbon sink. Nature Communications https://doi.org/10.1038/s41467-020-16018-w
Wedeux B, Dalponte M, Schlund M, Hagen S, Cochrane M, Graham L, Usup A, Thomas A, Coomes D. (2020) Dynamics of a human‐modified tropical peat swamp forest revealed by repeat lidar surveys. Global Change Biology https://doi.org/10.1111/gcb.15108
Szyniszewska AM. (2020) CassavaMap, a fine-resolution disaggregation of cassava production and harvested area in Africa in 2014. Scientific Data https://doi.org/10.6084/m9.figshare.12279938
Lambing C, Kuo PC, Tock AJ, Topp SD, Henderson IR. (2020) ASY1 acts as a dosage-dependent antagonist of telomere-led recombination and mediates crossover interference in Arabidopsis. PNAS https://doi.org/10.1073/pnas.1921055117
Mehrshahi P, Nguyen GTDT, Gorchs Rovira A, Sayer A, Llavero-Pasquina M, S MLH, Medcalf EJ, Mendoza-Ochoa GI, Scaife MA, Smith AG. (2020) Development of Novel Riboswitches for Synthetic Biology in the Green Alga Chlamydomonas. ACS Synthetic Biology https://doi.org/10.1021/acssynbio.0c00082
Abley K, Formosa-Jordan P, Tavares H, Chan E, Leyser O, Locke J. (2020) An ABA-GA bistable switch can account for natural variation in the variability of Arabidopsis seed germination time. bioRxiv https://doi.org/10.1101/2020.06.05.135681
Stutt ROJH, Retkute R, Bradley NM, Gilligan CA, Colvin J. (2020) A modelling framework to assess the likely effectiveness of facemasks in combination with ‘lock-down’ in managing the COVID-19 pandemic. Proceedings of the Royal Society A https://doi.org/10.1098/rspa.2020.0376
Yan, L., Zhang, H., Goncalves, J. et al. (2020) An interpretable mortality prediction model for COVID-19 patients.. Nature Machine Intelligence. https://doi.org/10.1038/s42256-020-0180-7
Müller SY, Matthews NE, Valli AA, Baulcombe DC. (2020) Mapping the Algal Secret Genome: The small RNA Locus Map for Chlamydomonas reinhardtii. bioRxiv https://doi.org/10.1101/2020.06.16.149575
Donald F, Green S, Searle K, Cunniffe NJ, Purse BV. (2020) Small scale variability in soil moisture drives infection of vulnerable juniper populations by invasive forest pathogen. Forest Ecology and Management https://doi.org/10.1016/j.foreco.2020.118324
Rubio L, García-Pérez D, Davies J, Fernández JA. (2020) Short-term response of cytosolic NO3- to inorganic carbon increase in Posidonia oceanica leaf cells. Frontiers in Plant Science https://doi.org/10.3389/fpls.2020.00955
Singh P, Stevenson SR, Reyna-Llorens I, Reeves G, Schreier TB, Hibberd JM. (2020) Upregulation and cell specificity of C4 genes are derived from ancestral C3 gene regulatory networks. bioRxiv https://doi.org/10.1101/2020.07.03.186395
Dickinson PJ, Kneřová J, Szecówka M, Stevenson SS, Burgess SJ, Mulvey H, Bågman A, Gaudinier A, Brady SM, Hibberd JM. (2020) A bipartite transcription factor module controlling expression in the bundle sheath of Arabidopsis thaliana. bioRxiv https://doi.org/10.1101/380188
Xiong H, Hua L, Shi Y, Chen K, Smirnoff N, Kromdijk W, Hibberd JM. (2020) The rice bundle sheath produces reactive oxygen species during high light stress via NADPH oxidase. bioRxiv https://doi.org/10.1101/2020.07.06.189381
Pokhaer SS, Thrope P, Hedley P, Morris J, Habash SS, Elashry A, Eves-van den Akker S, Grundler FMW, Jones JT. (2020) Signatures of adaptation to a monocot host in the plant‐parasitic cyst nematode Heterodera sacchari. The Plant Journal https://doi.org/10.1111/tpj.14910
Mogdziewicz M, Kelly D, Tanentzap AJ, Thomas PA, Lageard JGA, Hacket-Pain A. (2020) Climate Change Strengthens Selection for Mast Seeding in European Beech. Current Biology https://doi.org/10.1016/j.cub.2020.06.056
Kranse O, Beasley H, Adams S, Pires da Silva A, Bell C, Lilley C, Urwin PE, Bird D, Miska EA, Smant G, Gheysen G, Jones J, Viney M, Abad P, Maier TR, Baum TKJ, Siddique S, Williamson V, Akay A, Eves-van den Akker S. (2020) Towards genetic modification of plant-parasitic nematodes: delivery of macromolecules to adults and expression of exogenous mRNA in second stage juveniles.. bioRxiv https://doi.org/10.1101/2020.07.15.193052
Swarbreck SM, Mohammad-Sidik A, Davies JM. (2020) Common components of the strigolactone and karrikin signaling pathways suppress root branching in Arabidopsis thaliana. Plant Phyiology https://doi.org/10.1104/pp.19.00687
Sales CR, Bernardes da Silva A, Carmo-Silva E. (2020) Measuring Rubisco activity: challenges and opportunities of NADH-linked microtiter plate-based and 14C-based assays. Journal of Experimental Botany https://doi.org/10.1093/jxb/eraa289
Pellegrini AFA, et al. (2020) Decadal changes in fire frequencies shift tree communities and functional traits. bioRxiv https://doi.org/10.1101/2020.07.22.216226
Rhee S-J, Watt LG, Bravo AC, Murphy AM, Carr JP. (2020) Effects of the cucumber mosaic virus 2a protein on aphid–plant interactions in Arabidopsis thaliana. Molecular Plant Pathology https://doi.org/10.1111/mpp.12975
Carr JP, Roossinck MJ. (2020) Immunopathology. Advances in Virus Research https://www.sciencedirect.com/bookseries/advances-in-virus-research/vol/107/suppl/C
Bogdziewicz M, Szymkowiak J, Tanentzap AJ, Calama R, Marino S, Steele MA, Seget B, Piechnik Ł, Żywiec M. (2020) Seed predation selects for reproductive variability and synchrony in perennial plants. New Phytologist. https://doi.org/10.1111/nph.16835
Lopez-Hernandez F, Tryfona T, Rizza A, Yu X, Harris MO, Webb AAR, Kotake T, Dupree P. (2020) Calcium Binding by Arabinogalactan Polysaccharides Is Important for Normal Plant Development. Plant Cell. https://doi.org/10.1105/tpc.20.00027
Midleton R, Sinnott-Armstrong M, Ogawa Y, Jacucci G, Moyroud E, Rudall PJ, Prychid C, Conejero M, Glover BJ, Donoghue MJ, Vignolini S. (2020) Viburnum tinus Fruits Use Lipids to Produce Metallic Blue Structural Color. Current Biology. https://doi.org/10.1016/j.cub.2020.07.005
Kumar A, Yadav G. (2020) Unraveling the evolutionary origins of Histone fold motif (HFM) in plants. Research Square. https://doi.org/10.21203/rs.2.14114/v1
Mahtha SK, Purama RK, Yadav G. (2020) Comparative genomics of StAR-related lipid transfer (START) domains across wild and cultivated rice. bioRxiv. https://doi.org/10.1101/2020.07.20.211607
Sharma M, Jamsheer K M, Shukla BN, Sharma M, Awasthi P, Mahtha SK, Yadav G, Laxmi A. (2020) TOR coordinates with transcriptional and chromatin machinery to regulate thermotolerance and thermomemory. bioRxiv. https://doi.org/10.1101/2020.07.28.224634
Mishra P, Prasad A, Babu S, Yadav G. (2020) Decision Support Systems based on Scientific Evidence: Bibliometric Networks of Invasive Lantana camara. bioRxiv. https://doi.org/10.1101/2020.08.10.240879
Bozsoki Z, Gysel K, Hansen SB, Lironi D, Krönauer C, Feng F, de Jong N, Vinther M, Kamble M, Thygesen MB, Engholm E, Kofoed C, Fort S, Sullivan JT, Ronson CW, Jensen KJ, Blaise M, Oldroyd G, Stougaard J, Andersen KR, Radutoiu S. (2020) Ligand-recognizing motifs in plant LysM receptors are major determinants of specificity. Science. http://dx.doi.org/10.1126/science.abb3377
Airoldi CA, Glover BJ. (2020) Evo-Devo: Tinkering with the Stem Cell Niche to Produce Thorns. Current Biology.
Grubb PJ. (2020) Leaf structure and function. Unsolved Problems in Ecology (ed. by A.P. Dobson, R.D. Holt & G.D. Tilman), pp.124-142. Princeton University Press. https://press.princeton.edu/books/ebook/9780691195322/unsolved-problems-in-ecology
Lopez-Hernandez F, Tryfona T, Rizza A, Yu X, Harris MO, Webb AAR, Kotake T, Dupree P. (2020) Calcium Binding by Arabinogalactan Polysaccharides Is Important for Normal Plant Development. Plant Cell. https://doi.org/10.1105/tpc.20.00027
Shahab RL, Brethauer S, Davey MP, Smith AG, Vignolini S, Luterbacher JS, Studer MH. (2020) A heterogeneous microbial consortium producing short-chain fatty acids from lignocellulose. Science. https://science.sciencemag.org/content/369/6507/eabb1214
Gardiner LM. (2020) Cambridge University Herbarium: rediscovering a botanical treasure trove. Journal of Natural Science Collections. https://www.natsca.org/article/2513
Donnelly R, Gilligan CA. (2020) What is pathogen-mediated insect superabundance? Journal of the Royal Society Interface. https://doi.org/10.1098/rsif.2020.0229
Thompson RN, et al. (2020) Key questions for modelling COVID-19 exit strategies. Proceedings of the Royal Society B. https://doi.org/10.1098/rspb.2020.1405
Foo CC, Burgess AJ, Retkute R, Tree-Intong P, Ruban AV, Murchie EH. (2020) Photoprotective energy dissipation is greater in the lower, not the upper regions of a rice canopy: a 3D analysis. Journal of Experimental Botany. https://doi.org/10.1093/jxb/eraa411
Frangedakis E, Shimamura M, Villarreal JC, Li F-W, Tomaselli M, Waller M, Sakakibara K, Renzaglia KS, Szövényi P. (2020) The Hornworts: Morphology, evolution and development. New Phytologist. https://doi.org/10.1111/nph.16874
Estop‐Aragonés C, Olefeldt D, Abbott BW, Chanton JP, Czimczik CI, Dean JF, Egan JE, Gandois L, Garnett MH, Hartley IP, Hoyt A, Lupascu M, Natali SM, O’Donnell JA, Raymond PA, Tanentzap AJ, Tank SE, Schuur EAG, Turetsky M, Anthony KW. (2020) Assessing the Potential for Mobilization of Old Soil Carbon after Permafrost Thaw: A Synthesis of 14C Measurements from the Northern Permafrost Region. Global Biogeochemical Cycles. https://doi.org/10.1029/2020GB006672
Pucker B, Reiher F, Schilbert HM. (2020) Automatic Identification of Players in the Flavonoid Biosynthesis with Application on the Biomedicinal Plant Croton tiglium. Plants. https://doi.org/10.3390/plants9091103
Verma P, Tandon R, Yadav G, Gaur V. (2020) Structural Aspects of DNA Repair and Recombination in Crop Improvement. Frontiers in Genetics. https://doi.org/10.3389/fgene.2020.574549
Khoury S, Coomes DA. (2020) Resilience of Spanish forests to recent droughts and climate change. Global Change Biology. https://doi.org/10.1111/gcb.15268
Blackwell AR, Dluzewska J, Szymanska-Lejman M, Desjardins S, Tock AJ, Kbiri N, Lambing C, Lawrence EJ, Bieluszewski T, Rowan B, Higgins JD, Ziolkowski PA, Henderson IR. (2020) MSH2 shapes the meiotic crossover landscape in relation to interhomolog polymorphism in Arabidopsis. The EMBO Journal. https://doi.org/10.15252/embj.2020104858
Matthus E, Doddrell NH, Guillaume G, Mohammad-Sidik AB, Wilkins KA, Swarbreck SM, Davies JM. (2020) Phosphate Deprivation Can Impair Mechano-Stimulated Cytosolic Free Calcium Elevation in Arabidopsis Roots. Plants. https://doi.org/10.3390/plants9091205
Sielemann K, Hafner A, Pucker B. (2020) The reuse of public datasets in the life sciences: potential risks and rewards. PeerJ. https://doi.org/10.7717/peerj.9954
Du K, Jiang T, Chen H, Murphy AM, Carr JP, Du Z, Li X, Fan Z, Zhou T. (2020) Viral Perturbation of Alternative Splicing of a Host Transcript Benefits Infection. Plant Physiology. https://doi.org/10.1104/pp.20.00903
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