University of Dundee

2019

Bayer M, Morris JA, Booth C, Booth A, Uzrek N, Russell JR, Waugh R, Hedley PE. 2019. Exome Capture for Variant Discovery and Analysis in Barley. Harwood WA, editor. In Barley: Methods and Protocols. New York: Humana Press. pp. 283-310. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-8944-7_18

Bielska E, Birch PRJ, Buck AH, Abreu-Goodger C, Innes RW, Jin H, Pfaffl MW, Robatzek S, Regev-Rudzki N, Tisserant C, Wang S, Weiberg A. 2019. Highlights of the mini-symposium on extracellular vesicles in inter-organismal communication, held in Munich, Germany, August 2018. Journal of Extracellular Vesicles. 8(1):1-8. https://doi.org/10.1080/20013078.2019.1590116

Bustos-Korts D, Dawson IK, Russell J, Tondelli A, Guerra D, Ferrandi C, Strozzi F, Nicolazzi EL, Molnar-Lang M, Ozkan H, Megyeri M, Miko P, Çakır E, Yakışır E, Trabanco N, Delbono S, Kyriakidis S, Booth A, Cammarano D, Mascher M, Werner P, Cattivelli L, Rossini L, Stein N, Kilian B, Waugh R, van Eeuwijk FA. 2019. Exome sequences and multi-environment field trials elucidate the genetic basis of adaptation in barley. Plant Journal. https://doi.org/10.1111/tpj.14414

Calixto C, Tzioutziou N, James AB, Hornyik C, Guo W, Zhang R, Nimmo HG, Brown J. 2019. Cold-Dependent Expression and Alternative Splicing of Arabidopsis Long Non-coding RNAs. Frontiers in Plant Science. 10:1-16. https://doi.org/10.3389/fpls.2019.00235

Colas I, Barakate A, Macaulay M, Schreiber M, Stephens J, Vivera S, Halpin C, Waugh R, Ramsay L. 2019. desynaptic5 carries a spontaneous semi-dominant mutation affecting Disrupted Meiotic cDNA 1 in barley. Journal of Experimental Botany. 70(10):2683-2698. https://doi.org/10.1093/jxb/erz080

Daly P, McClellan C, Maluk M, Oakey H, Lapierre C, Waugh R, Stephens J, Marshall D, Barakate A, Tsuji Y, Goeminne G, Vanholme R, Boerjan W, Ralph J, Halpin C. 2019. RNAi-suppression of barley caffeic acid O-methyltransferase modifies lignin despite redundancy in the gene family. Plant Biotechnology Journal. 17(3):594-607. https://doi.org/10.1111/pbi.13001

Darrier B, Russell J, Milner SG, Hedley PE, Shaw PD, Macaulay M, Ramsay L, Halpin C, Mascher M, Fleury DL, Langridge P, Stein N, Waugh R. 2019. A comparison of mainstream genotyping platforms for the evaluation and use of barley genetic resources. Frontiers in Plant Science. 10:1-14. https://doi.org/10.3389/fpls.2019.00544

Froussios K, Schurch N, Mackinnon K, Gierlinski M, Duc C, Simpson G, Barton G. 2019. How well do RNA-Seq differential gene expression tools perform in a complex eukaryote? A case study in A. thaliana. Bioinformatics. https://doi.org/10.1093/bioinformatics/btz089

Froussios K, Mourao K, Simpson G, Barton G, Schurch N. 2019. Relative Abundance of Transcripts (RATs): Identifying differential isoform abundance from RNA-seq . F1000 Research. 8:1-20. https://doi.org/10.12688/f1000research.17916.1

Gleason FH, Larkum AWD, Raven JA, Manohar CS, Lilje O. 2019. Ecological implications of recently discovered and poorly studied sources of energy for the growth of true fungi especially in extreme environments. Fungal Ecology. https://doi.org/10.1016/j.funeco.2018.12.011

Godoy Herz MA, Kubaczka MG, Brzyżek G, Servi L, Krzyszton M, Simpson C, Brown J, Swiezewski S, Petrillo E, Kornblihtt AR. 2019. Light Regulates Plant Alternative Splicing through the Control of Transcriptional Elongation. Molecular Cell. 73(5):1066-1074.e3. https://doi.org/10.1016/j.molcel.2018.12.005

Halpin C. 2019. Lignin engineering to improve saccharification and digestibility in grasses. Current Opinion in Biotechnology. 56:223-229. https://doi.org/10.1016/j.copbio.2019.02.013

Hurst CH, Turnbull D, Hemsley PA. 2019. Determination of Protein S-Acylation State by Enhanced Acyl-Switch Methods. Linder ME, editor. In Protein Lipidation: Methods and Protocols. New York: Springer . pp. 3-11. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-9532-5_1

Jones HG, Hutchinson PA, May T, Jamali H, Deery DM. 2019. Corrigendum to “A practical method using a network of fixed infrared sensors for estimating crop canopy conductance and evaporation rate” [Biosystems Engineering 165 (2018) 59–69]. Biosystems Engineering. 179:155-156. https://doi.org/10.1016/j.biosystemseng.2018.12.008

Jouet A, Saunders DGO, McMullan M, Ward B, Furzer O, Jupe F, Cevik V, Hein I, Thilliez GJA, Holub E, Oosterhout CV, Jones JDG. 2019. Albugo candida race diversity, ploidy and host-associated microbes revealed using DNA sequence capture on diseased plants in the field. New Phytologist. 221(3):1529-1543. https://doi.org/10.1111/nph.15417

Langridge P, Waugh R. 2019. Harnessing the potential of germplasm collections. Nature Genetics. 51(2):200-201. https://doi.org/10.1038/s41588-018-0340-4

Leles SG, Mitra A, Flynn KJ, Tillmann U, Stoecker D, Jeong HJ, Burkholder JA, Hansen PJ, Caron DA, Glibert PM, Hallegraeff G, Raven JA, Sanders RW, Zubkov M. 2019. Sampling bias misrepresents the biogeographical significance of constitutive mixotrophs across global oceans. Global Ecology and Biogeography. 28(4):418-428. https://doi.org/10.1111/geb.12853

Lewandowska D, Zhang R, Colas I, Uzrek N, Waugh R. 2019. Application of a Sensitive and Reproducible Label-Free Proteomic Approach to Explore the Proteome of Individual Meiotic-Phase Barley Anthers. Frontiers in Plant Science. 10:1-15. https://doi.org/10.3389/fpls.2019.00393

Leybourne DJ, Valentine TA, Robertson JAH, Pérez-Fernández E, Main AM, Karley AJ, Bos J. 2019. Defence gene expression and phloem quality contribute to mesophyll and phloem resistance against aphids in wild barley. Journal of Experimental Botany. https://doi.org/10.1093/jxb/erz163

McKim S. 2019. How Plants Grow Up. Journal of Integrative Plant Biology . 61(3):257-277. https://doi.org/10.1111/jipb.12786

Mittmann S, Arrieta M, Ramsay L, Waugh R, Colas I. 2019. Preparation of Barley Pollen Mother Cells for Confocal and Super Resolution Microscopy. Harwood WA, editor. In Barley: Methods and Protocols. New York: Humana Press. pp. 167-179. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-8944-7_11

Morera-Margarit P, Bulgarelli D, Pope T, Graham R, Mitchell C, Karley AJ. 2019. The bacterial community associated with adult vine weevil (Otiorhynchus sulcatus) in UK populations growing on strawberry is dominated by Candidatus Nardonella. Entomologia Experimentalis et Applicata. 167(3):186-196. https://doi.org/10.1111/eea.12757

Mourao K, Schurch N, Lukoszek R, Froussios K, Mackinnon K, Duc C, Simpson G, Barton G. 2019. Detection and Mitigation of Spurious Antisense RNA-seq Reads with RoSA. F1000 Research. 8. https://doi.org/10.1101/425900, https://doi.org/10.12688/f1000research.18952.1

Paajanen P, Kettleborough G, Lopez-Girona E, Giolai M, Heavens D, Baker D, Lister A, Wilde G, Hein I, Macaulay I, Bryan GJ, Clark MD. 2019. A critical comparison of technologies for a plant genome sequencing project. Giga Science. 8(3). https://doi.org/10.1093/gigascience/giy163

Patil V, McDermott HI, Mcallister T, Cummins M, Clara Silva J, Mollison E, Meikle R, Morris JA, Hedley PE, Waugh R, Dockter C, Hansson M, McKim S. 2019. APETALA2 control of barley internode elongation. Development. https://doi.org/10.1242/dev.170373

Raven JA, Gobler CS, Hansen PJ. 2019. Dynamic CO 2 and pH levels in coastal, estuarine, and inland waters: Theoretical and observed effects on harmful algal blooms. Harmful Algae. https://doi.org/10.1016/j.hal.2019.03.012

Simpson CG, Fuller J, Rapazote-Flores P, Mayer CD, Calixto CPG, Milne L, Hedley PE, Booth C, Waugh R, Brown JWS. 2019. High-Resolution RT-PCR Analysis of Alternative Barley Transcripts. Harwood WA, editor. In Barley: Methods and Protocols. New York: Humana Press. pp. 269-281. (Methods in Molecular Biology). https://doi.org/10.1007/978-1-4939-8944-7_17

Strachan SM, Armstrong MR, Kaur A, Wright KM, Lim TY, Jones J, Bryan GJ, Blok V, Hein I. 2019. Mapping the H2 resistance effective against Globodera pallida pathotype Pa1 in tetraploid potato. Theoretical and Applied Genetics. 132(4):1283-1294. https://doi.org/10.1007/s00122-019-03278-4

Turnbull D, Wang H, Breen S, Malec M, Naqvi S, Yang L, Welsh L, Hemsley P, Tian Z, Brunner F, Gilroy EM, Birch P. 2019. Effector PiAVR2 targets BSL family members which act as susceptibility factors to suppress immunity. Plant Physiology.

Turnbull D, Wang H, Breen S, Malec M, Naqvi S, Yang L, Welsh L, Hemsley PA, Zhendong T, Brunner F, Gilroy EM, Birch PRJ. 2019. AVR2 targets BSL family members, which act as susceptibility factors to suppress host immunity. Plant Physiology. 180(1):571-581. https://doi.org/10.1104/pp.18.01143

Volk H, Marton K, Flajsman M, Radisek S, Tian H, Hein I, Podlipnik Č, Thomma BPHJ, Kosmelj K, Javornik B, Berne S. 2019. Chitin binding protein of Verticillium nonalfalfae disguises fungus from plant chitinases and supresses chitin-triggered host immunity. Molecular Plant-Microbe Interactions. https://doi.org/10.1094/MPMI-03-19-0079-R

Wang S, McLellan H, Bukharova T, He Q, Murphy F, Shi J, Sun S, van Weymers P, Ren Y, Thilliez G, Wang H, Chen X, Engelhardt S, Vleeshouwers V, Gilroy EM, Whisson SC, Hein I, Wang X, Tian Z, Birch PRJ, Boevink PC. 2019. Phytophthora infestans RXLR effectors act in concert at diverse subcellular locations to enhance host colonization. Journal of Experimental Botany. 70(1):343-356. https://doi.org/10.1093/jxb/ery360

Wang H, He H, Qi Y, McLellan H, Tian Z, Birch PRJ, Tian Z. 2019. The oomycete microbe-associated molecular pattern Pep-13 triggers SERK3/BAK1-independent plant immunity. Plant Cell Reports. 38(2):173-182. https://doi.org/10.1007/s00299-018-2359-5

Wheat and Barley Legacy for Breeding Improvement (WHEALBI) consortium, Pont C, Leroy T, Seidel M, Tondelli A, Duchemin W, Armisen D, Lang D, Bustos-Korts D, Goué N, Balfourier F, Molnár-Láng M, Lage J, Kilian B, Özkan H, Waite D, Dyer S, Letellier T, Alaux M, Russell J, Keller B, van Eeuwijk F, Spannagl M, Mayer KFX, Waugh R, Stein N, Cattivelli L, Haberer G, Charmet G, Salse J. 2019. Tracing the ancestry of modern bread wheats. Nature Genetics. 51(5):905-911. https://doi.org/10.1038/s41588-019-0393-z