Robbie Waugh
Current positions
-
2011 - Research Leader (PC2), James Hutton Institute (80%)
- 2012 - Professor, Div. Plant Sciences, University of Dundee (20%)
- 2008 - Honorary Professor, University of Glasgow
- 2013 - Trustee Director of ‘The Genome Analysis Centre’, Norwich
- 2014 - Adjunct Professor, University of Adelaide
- 2016 – Adjunct Professor, University of Minneapolis (pending)
- 2014 – Co-Director, Scottish Food Security Alliance (Crops)
- 2010 – Board Member, ARC Centre of Excellence in Plant Cell Walls, Adelaide
Awards
Fellow of the Royal Society of Biology (2015 onwards)
Fellow of the Royal Society of Edinburgh (2013 onwards)
Honorary Professor, University of Glasgow (2008 onwards)
Education
- BSc (hons), Strathclyde University (1981)
- PhD, University of Dundee (1987)
Current research interests
In late 2015 I was awarded a 5-year ERC advanced grant to extend our work on meiosis and recombination in large genome crop plants. This complements ongoing interests in inflorescence development and architecture and the development and application of genetic (e.g. GWAS) and genomic technologies (e.g. exome sequencing) to explore, largely through collaboration, a range of issues in plant biology (e.g. cell wall biology). Common themes include the impact of natural (e.g. crop wild relatives and landraces) and induced (e.g. mutants, genome editing) diversity, how these can be assessed, generated, captured efficiently and exploited for both discovery science and crop improvement. In future, while maintaining a focus on gene identification we will also conduct more mechanistic studies in order to understand the individual genes and networks of interaction that condition certain biological responses (e.g. inflorescence architecture). Translating research into tangible outcomes remains an important driver and we have had considerable success over an extended period in identifying genes that control a broad range of phenotypic traits. We therefore actively collaborate with the commercial sector, who generally deploy technologies that we have developed, or discoveries we have made, in practical crop improvement programmes.
Bibliography
- Colas, I.; Barakate, A.; Macaulay, M.; Schreiber, M.; Stephens, J.; Vivera, S.; Halpin, C.; Waugh, R.; Ramsay, L. (In press) Desynaptic5 is a spontaneous semi-dominant mutation affecting Disrupted Meiotic cDNA 1 (DMC1) in barley., Journal of Experimental Botany.
- Mittmann, S.; Arrieta, M.; Ramsay, L.; Waugh, R.; Colas, I. (In press) Preparation of barley pollen mother cells for confocal and super resolution microscopy., In: Harwood, W.A. (ed.). Barley: Methods and Protocols. Methods Molecular Biology, Volume 1900, Humana Press, Chapter 11.
- Comadran, J.; Waugh, R. (In press) Introduccion al mapeo por asociacion genetica., La genetica de los caracteres cuantitativos en la mejora vegetal del siglo XXI (eds. J. Comadran, J. Moreno, A. Torres, J. Canizares, R. Giraldez, B. Ordas, I. Romagosa, R. Lozano.). Spanish Society of Genetics, Gijon, Chapter 9.
- 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, Article No. 393.
- Zwirek, M.; Waugh, R.W.; McKim, S.M. (2019) Interaction between row-type genes in barley controls meristem determinacy and reveals novel routes to improved grain., New Phytologist, 221, 1950-1965.
- 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, 594-607.
- Bayer, M.; Morris, J.; Booth, C.; Booth, A.; Uzrek, N.; Russell, J.R.; Waugh, R.; Hedley, P.E. (2019) Exome capture for variant discovery and analysis in barley., In: Harwood, W.A. (ed.). Barley: Methods and Protocols. Methods in Molecular Biology, Humana Press, New York, Volume 1900, Chapter 18, pp283-310.
- Mittmann, S.U.; Arrieta, M.; Ramsay, L.; Waugh, R.; Colas, I. (2019) Preparation of barley pollen mother cells for confocal and super resolution microscopy., In: Harwood, W.A. (ed.). Barley: Methods and Protocols. Methods in Molecular Biology, Humana Press, New York, Volume 1900, Chapter 11, pp167-179.
- Simpson, C.G.; Fuller, J.; Flores, J.; Mayer, C-D.; Calixto, C.P.G.; Milne, L.; Hedley, P.E.; Booth, C.; Waugh, R.; Brown, J.W.S. (2019) High resolution RT-PCR analysis of alternative barley transcripts., In: Harwood, W.A. (ed.). Barley: Methods and Protocols. Methods in Molecular Biology, Humana Press, New York, Volume 1900, Chapter 17, pp269-281.
- De la Fuente Cantó, C.; Russell, J.; Hackett, C.A.; Booth, A.; Dancey, S.; George, T.S.; Waugh, R. (2018) Genetic dissection of quantitative and qualitative traits using a minimum set of barley recombinant chromosome substitution lines., BMC Plant Biology, 18, Article No. 340.
- De La Fuente Canto, C.; Kalogiros, D.I.; Ptashnyk, M.; George, T.S.; Waugh, R.; Bengough, A.G.; Russell, J.; Dupuy, L.X. (2018) Morphological and genetic characterisation of the root system architecture of selected barley recombinant chromosome substitution lines using an integrated phenotyping approach., Journal of Theoretical Biology, 447, 84-97.
- Prade, V.M.; Gundlach, H.; Twardziok, S.; Chapman, B.; Tan, C.; Langridge, P.; Schulman, A.H.; Stein, N.; Waugh, R.; Zhang, G.; Platzer, M.; Li, C.; Spannagl, M.; Mayer, K.F.X. (2018) The pseudogenes of barley., The Plant Journal, 93, 502-514.
- Looseley, M.E.; Griffe, L.L.; Büttner, B.; Wright, K.M.; Middlefell-Williams, J.; Bull, H.; Shaw, P.D.; Macaulay, M.; Booth, A.; Schweizer, G.; Russell, J.R.; Waugh, R.; Thomas, W.T.B.; Avrova, A. (2018) Resistance to Rhynchosporium commune in a collection of European spring barley germplasm., Theoretical and Applied Genetics, 131, 2513-2528.
- Okagaki, R.J.; Haaning, A.; Bilgic, H.; Heinen, S.; Druka, A.; Bayer, M.; Waugh, R.; Muehlbauer, G.J. (2018) ELIGULUM-A regulates lateral branch and leaf development in barley., Plant Physiology, 176, 2750-2760.
- Simpson, C.G.; Barrero, R.A.; Bayer, M.; Flavell, A.; Rapazote-Flores, P.; Bellgard, M.I.; Hedley, P.E.; Zhang, R.; Waugh, R. (2018) The expressed portion of the barley genome., In: Stein, N. & Muehlbauer, G. (eds.). The Barley Genome, Compendium of Plant Genomes. Springer, Cham, Switzerland, Chapter 7, 789-107.
- Twardziok, S.; Gundlach, H.; Hedley, P.E.; Bayer, M.; Platzer, M.; Groth, M.; Waugh, R.; Spannagl, M. (2018) Gene prediction in the barley genome., In: Stein, N. & Muehlbauer, G. (eds.). The Barley Genome, Compendium of Plant Genomes. Springer, Cham, Switzerland, Chapter 6, 73-88.
- Mascher, M.; Gundlach, H.; Himmelbach, A.; Beier, S.; Twardziok, S.O.; Wicker, T.; Radchuk, V.; Dockter, C.; Hedley, P.E.; Russell, J.; Bayer, M.; Ramsay, L.; Liu, H.; Haberer, G.; Zhang, X.; Zhang, Q.; Barrero, R.A.; Li, L.; Taudien, S.; Groth, M.; Felder, M.; Hastie, A.; Simkova, H.; Stankova, H.; Vrana, J.; Chan, S.; Munoz-Amatriain, M.; Ounit, R.; Wanamaker, S.; Bolser, D.; Colmsee, C.; Schmutzer, T.; Aliyeva-Schnorr, L.; Grasso, S.; Tanskanen, J.; Chailyan, A.; Sampath, D.; Heavens, D.; Clissold, L.; Cao, S.; Chapman, B.; Dai, F.; Han, Y.; Li, H.; Li, X.; Lin, C.; McCooke, J.K.; Tan, C.; Wang, P.; Wang, S.; Yin, S.; Zhou, G.; Poland, J.A.; Bellgard, M.I.; Borisjuk, L.; Houben, A.; Dolezel, J.; Ayling, S.; Lonardi, S.; Kersey, P.; Langridge, P.; Muehlbauer, G.J.; Clark, M.D.; Caccamo, M.; Schulman, U.; Mayer, K.F.X.; Platzer, M.; Close, T.J.; Scholz, U.; Hansson, M.; Zhang, G.; Braumann, I.; Spannagl, M.; Li, C.; Waugh. R.; Stein, N. (2017) A chromosome conformation capture ordered sequence of the barley genome , Nature, 544, 427-433.
- Wicker, T.; Schulman, A.H.; Tanskanen, J.; Spannagl, M.; Twardziok, S.; Mascher, M.; Springer, N.M.; Li, Q.; Waugh, R.; Li, C.D.; Zhang, G.P.; Stein, N.; Mayer, K.F.X.; Gundlach, H. (2017) The repetitive landscape of the 5100 Mbp barley genome., Mobile DNA, 8, Article No. 22.
- Sakuma, S.; Lundqvist, U.; Kakei, Y.; Thirulogachandar, V.; Suzuki, T.; Hori, K.; Wu, J.Z.; Tagiri, A.; Rutten, T.; Koppolu, R.; Shimada, Y.; Houston, K.; Thomas, W.T.B.; Waugh, R.; Schnurbusch, T.; Komatsuda, T. (2017) Extreme suppression of lateral floret development by a single amino acid change in the VRS1 transcription factor., Plant Physiology, 175, 1720-1731.
- Bryan, G.J.; McLean, K.; Waugh, R.; Spooner, D.M. (2017) Levels of intra-specific AFLP diversity in tuber-bearing potato species with different breeding systems and ploidy levels., Frontiers in Genetics, 8, Article No. 119.
- Bayer, M.; Ganal, M.; Hedley, P.E.; Macaulay, M.; Plieske, J.; Ramsay, L.; Rapazote-Flores, P.; Russell, J.; Shaw, P.; Thomas, W.; Waugh, R. (2017) Development and evaluation of a barley 50k iSelect SNP array., Frontiers in Plant Science, 8, Article No. 1792.
- Hassan, A.S.; Houston, K.; Lahnstein, J.; Shirley, N.; Schwerdt, J.G.; Gidley, M.J.; Waugh, R.; Little, A.; Burton, R.A. (2017) A genome wide association study of arabinoxylan content in 2-row spring barley grain., PLoS ONE, 12, Article No. e0182537.
- Hughes, J.; Hepworth, C.; Dutton, C.; Dunn, J.A.; Hunt, L.; Stephens, J.; Waugh, R.; Cameron, D.D.; Gray, J.E. (2017) Reducing stomatal density in barley improves drought tolerance without impacting on yield., Plant Physiology, 174, 776-787.
- Guo, W.; Calixto, C.P.G.; Tzioutziou, N.; Lin, P.; Waugh, R.; Brown, J.W.S.; Zhang, R. (2017) Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size., BMC Systems Biology, 11, Article No. 62.
- Beier, S.; Himmelbach, A.; Colmsee, C.; Zhang, X.Q.; Barrero, R.A.; Zhang, Q.S.; Li, L.; Bayer, M.; Bolser, D.; Taudien, S.; Groth, M.; Felder, M.; Hastie, A.; Simkova, H.; Stankova, H.; Vrana, J.; Chan, S.K.; Munoz-Amatriain, M.; Ounit, R.; Wanamaker, S.; Schmutzer, T.; Aliyeva-Schnorr, L.; Grasso, S.; Tanskanen, J.; Sampath, D.; Heavens, D.; Cao, SJ; Chapman, B; Dai, F; Han, Y; Li, H; Li, X; Lin, CY; McCooke, JK; Tan, C; Wang, SB; Yin, SY; Zhou, GF; Poland, JA; Bellgard, MI; Houben, A; Dolezel, J; Ayling, S; Lonardi, S.; Langridge, P.; Muehlbauer, G.J.; Kersey, P.; Clark, M.D.; Caccamo, M.; Schulman, A.H.; Platzer, M.; Close, T.J.; Hansson, M.; Zhang, G.P.; Braumann, I.; Li, C.D.; Waugh, R.; Scholz, U.; Stein, N.; Mascher, M. (2017) Construction of a map-based reference genome sequence for barley, Hordeum vulgare L., Scientific Data, 4, Article No. 170044.
- Colas, I.; Darrier, B.; Arrieta, M.; Mittmann, S.U.; Ramsay, L.; Sourdille, P.; Waugh, R. (2017) Observation of extensive chromosome axis remodeling during the "diffuse-phase" of meiosis in large genome cereals., Frontiers in Plant Science, 8, Article No. 1235.
- Gou, W.; Calixtio, C.P.G.; Tzioutziou, N.; Ping, L.; Waugh, R.; Brown, J.W.S.; Zhang, R. (2017) Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size., BMC Systems Biology, 11, Article No. 62.
- Bull, H.; Casao, M.C.; Zwirek, M.; Flavell, A.J.; Thomas, W.T.B.; Guo, W.B.; Zhang, R.X.; Rapazote-Flores, P.; Kyriakidis, S.; Russell, J.; Druka, A.; McKim, S.M.; Waugh, R. (2017) Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility., Nature Communications, 8, Article No. 936.
- Colas, I.; Ramsay, L.; Waugh, R. (2017) Barley meiosis The importance of sticking together., Atlas of Science, 7 March 2017.
- Mascher, M.; Schuenemann, V.J.; Davidovich, U.; Marom, N.; Himmelbach, A.; Hübner, S.; Korol, A.; David, M.; Reiter, E.; Riehl, S.; Schreiber, M.; Vohr, S.H.; Green, R.E.; Dawson, I.K.; Russell, J.; Kilian, B.; Muehlbauer, G.J.; Waugh, R.; Fahima, T.; Krause, J.; Weiss, E.; Stein, N. (2016) Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley., Nature Genetics, 48, 1089-1093.
- Wendt, T.; Holme, I.; Dockter, C.; Preuss, A.; Thomas, W.; Druka, A.; Waugh, R.; Hansson, M.; Braumann, I. (2016) HvDep1 Is a positive regulator of culm elongation and grain size in barley and impacts yield in an environment-dependent manner., PLoS ONE, 11, Article No. e0168924.
- Colas, I.; Macaulay, M.; Higgins, J.D.; Phillips, D.; Barakate, A.; Posch, M.; Armstrong, S.J.; Franklin, F.C.H.; Halpin, C.; Waugh, R.; Ramsay, L. (2016) A spontaneous mutation in MutL-Homolog 3 (HvMLH3) affects synapsis and crossover resolution in the barley desynaptic mutant des10., New Phytologist, 212, 693-707.
- Mora, F.; Quitral, Y.A.; Matus, I.; Russell, J.; Waugh, R.; del Pozo, A. (2016) SNP-based QTL mapping of 15 complex traits in barley under rain-fed and well-watered conditions by a mixed modeling approach., Frontiers in Plant Science, 7, Article No.909.
- Oakey, H.; Cullis, B.; Thompson, R.; Comadran, J.; Halpin, C.; Waugh, R. (2016) Genomic selection in multi-environment crop trials., G3- Genes Genomes Genetics, 6, 1313-1326.
- Zhang, R.X.; Tucker, M.R.; Burton, R.A.; Shirley, N.J.; Little, A.; Morris, J.; Milne, L.; Houston, K.; Hedley, P.E.; Waugh, R.; Fincher, G.B. (2016) The dynamics of transcript abundance during cellularization of developing barley endosperm., Plant Physiology, 170, 1549-1565.
- Marcotuli, I.; Houston, K.; Schwerdt, J.G.; Waugh, R.; Fincher, G.B.; Burton, R.A.; Blanco, A.; Gadaleta, A. (2016) Genetic diversity and genome wide association study of beta-glucan content in tetraploid wheat grains., PLoS ONE, 11, Article No. e0152590
- Andriotis, V.M.E.; Saalbach, G.; Waugh, R.; Field, R.A.; Smith, A.M. (2016) The Maltase involved in starch metabolism in barley endosperm is encoded by a single gene., PLoS One, 11, Article No. e0151642.
- Russell, J.; Mascher, M.; Dawson, I.K.; Kyriakidis, S.; Calixto, C.; Freund, F.; Bayer, M.; Milne, I.; Marshall-Griffiths, T.; Heinen, S.; Hofstad, A.; Sharma, R.; Himmelbach, A.; Knauft, M.; van Zonneveld, M.; Brown, J.W.S.; Schmid, K.; Kilian, B.; Muehlbauer, G.J.; Stein, N.; Waugh R. (2016) Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation., Nature Genetics, 48, 1024-1030.
- Jöst, M.; Taketa, S.; Mascher, M.; Himmelbach, A.; You, T.; Shahinnia, F.; Rutten, T.; Druka, A.; Schmutzer, T.; Steuernagel, B.; Beier, S.; Taudien, S.; Scholz, U.; Morgante, M.; Waugh, R.; Stein, N. (2016) A homolog of Blade-On-Petiole 1 and 2 (BOP1/2) controls internode length and homeotic changes of the barley inflorescence., Plant Physiology, 171, 1113-1127.
- Mascher, M.; Schuenemann, V.J.; Davidovich, U.; Marom, N.; Himmelbach, A.; Hubner, S.; Korol, A.; David, M.; Reiter, E.; Riehl, S.; Schreiber, M.; Vohr, S.H.; Green, R.E.; Dawson, I.K.; Russell, J.; Kilian, B.; Muehlbauer, G.J.; Waugh, R.; Fahima, T.; Krause, J.; Weiss, E.; Stein, N. (2016) Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley., Nature Genetics, 48, 1089-1093.
- 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, Article No. 393.
- Zwirek, M.; Waugh, R.W.; McKim, S.M. (2019) Interaction between row-type genes in barley controls meristem determinacy and reveals novel routes to improved grain., New Phytologist, 221, 1950-1965.
- 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, 594-607.
- De la Fuente Cantó, C.; Russell, J.; Hackett, C.A.; Booth, A.; Dancey, S.; George, T.S.; Waugh, R. (2018) Genetic dissection of quantitative and qualitative traits using a minimum set of barley recombinant chromosome substitution lines., BMC Plant Biology, 18, Article No. 340.
- De La Fuente Canto, C.; Kalogiros, D.I.; Ptashnyk, M.; George, T.S.; Waugh, R.; Bengough, A.G.; Russell, J.; Dupuy, L.X. (2018) Morphological and genetic characterisation of the root system architecture of selected barley recombinant chromosome substitution lines using an integrated phenotyping approach., Journal of Theoretical Biology, 447, 84-97.
- Prade, V.M.; Gundlach, H.; Twardziok, S.; Chapman, B.; Tan, C.; Langridge, P.; Schulman, A.H.; Stein, N.; Waugh, R.; Zhang, G.; Platzer, M.; Li, C.; Spannagl, M.; Mayer, K.F.X. (2018) The pseudogenes of barley., The Plant Journal, 93, 502-514.
- Looseley, M.E.; Griffe, L.L.; Büttner, B.; Wright, K.M.; Middlefell-Williams, J.; Bull, H.; Shaw, P.D.; Macaulay, M.; Booth, A.; Schweizer, G.; Russell, J.R.; Waugh, R.; Thomas, W.T.B.; Avrova, A. (2018) Resistance to Rhynchosporium commune in a collection of European spring barley germplasm., Theoretical and Applied Genetics, 131, 2513-2528.
- Okagaki, R.J.; Haaning, A.; Bilgic, H.; Heinen, S.; Druka, A.; Bayer, M.; Waugh, R.; Muehlbauer, G.J. (2018) ELIGULUM-A regulates lateral branch and leaf development in barley., Plant Physiology, 176, 2750-2760.
- Mascher, M.; Gundlach, H.; Himmelbach, A.; Beier, S.; Twardziok, S.O.; Wicker, T.; Radchuk, V.; Dockter, C.; Hedley, P.E.; Russell, J.; Bayer, M.; Ramsay, L.; Liu, H.; Haberer, G.; Zhang, X.; Zhang, Q.; Barrero, R.A.; Li, L.; Taudien, S.; Groth, M.; Felder, M.; Hastie, A.; Simkova, H.; Stankova, H.; Vrana, J.; Chan, S.; Munoz-Amatriain, M.; Ounit, R.; Wanamaker, S.; Bolser, D.; Colmsee, C.; Schmutzer, T.; Aliyeva-Schnorr, L.; Grasso, S.; Tanskanen, J.; Chailyan, A.; Sampath, D.; Heavens, D.; Clissold, L.; Cao, S.; Chapman, B.; Dai, F.; Han, Y.; Li, H.; Li, X.; Lin, C.; McCooke, J.K.; Tan, C.; Wang, P.; Wang, S.; Yin, S.; Zhou, G.; Poland, J.A.; Bellgard, M.I.; Borisjuk, L.; Houben, A.; Dolezel, J.; Ayling, S.; Lonardi, S.; Kersey, P.; Langridge, P.; Muehlbauer, G.J.; Clark, M.D.; Caccamo, M.; Schulman, U.; Mayer, K.F.X.; Platzer, M.; Close, T.J.; Scholz, U.; Hansson, M.; Zhang, G.; Braumann, I.; Spannagl, M.; Li, C.; Waugh. R.; Stein, N. (2017) A chromosome conformation capture ordered sequence of the barley genome , Nature, 544, 427-433.
- Wicker, T.; Schulman, A.H.; Tanskanen, J.; Spannagl, M.; Twardziok, S.; Mascher, M.; Springer, N.M.; Li, Q.; Waugh, R.; Li, C.D.; Zhang, G.P.; Stein, N.; Mayer, K.F.X.; Gundlach, H. (2017) The repetitive landscape of the 5100 Mbp barley genome., Mobile DNA, 8, Article No. 22.
- Sakuma, S.; Lundqvist, U.; Kakei, Y.; Thirulogachandar, V.; Suzuki, T.; Hori, K.; Wu, J.Z.; Tagiri, A.; Rutten, T.; Koppolu, R.; Shimada, Y.; Houston, K.; Thomas, W.T.B.; Waugh, R.; Schnurbusch, T.; Komatsuda, T. (2017) Extreme suppression of lateral floret development by a single amino acid change in the VRS1 transcription factor., Plant Physiology, 175, 1720-1731.
- Bryan, G.J.; McLean, K.; Waugh, R.; Spooner, D.M. (2017) Levels of intra-specific AFLP diversity in tuber-bearing potato species with different breeding systems and ploidy levels., Frontiers in Genetics, 8, Article No. 119.
- Bayer, M.; Ganal, M.; Hedley, P.E.; Macaulay, M.; Plieske, J.; Ramsay, L.; Rapazote-Flores, P.; Russell, J.; Shaw, P.; Thomas, W.; Waugh, R. (2017) Development and evaluation of a barley 50k iSelect SNP array., Frontiers in Plant Science, 8, Article No. 1792.
- Hassan, A.S.; Houston, K.; Lahnstein, J.; Shirley, N.; Schwerdt, J.G.; Gidley, M.J.; Waugh, R.; Little, A.; Burton, R.A. (2017) A genome wide association study of arabinoxylan content in 2-row spring barley grain., PLoS ONE, 12, Article No. e0182537.
- Hughes, J.; Hepworth, C.; Dutton, C.; Dunn, J.A.; Hunt, L.; Stephens, J.; Waugh, R.; Cameron, D.D.; Gray, J.E. (2017) Reducing stomatal density in barley improves drought tolerance without impacting on yield., Plant Physiology, 174, 776-787.
- Guo, W.; Calixto, C.P.G.; Tzioutziou, N.; Lin, P.; Waugh, R.; Brown, J.W.S.; Zhang, R. (2017) Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size., BMC Systems Biology, 11, Article No. 62.
- Beier, S.; Himmelbach, A.; Colmsee, C.; Zhang, X.Q.; Barrero, R.A.; Zhang, Q.S.; Li, L.; Bayer, M.; Bolser, D.; Taudien, S.; Groth, M.; Felder, M.; Hastie, A.; Simkova, H.; Stankova, H.; Vrana, J.; Chan, S.K.; Munoz-Amatriain, M.; Ounit, R.; Wanamaker, S.; Schmutzer, T.; Aliyeva-Schnorr, L.; Grasso, S.; Tanskanen, J.; Sampath, D.; Heavens, D.; Cao, SJ; Chapman, B; Dai, F; Han, Y; Li, H; Li, X; Lin, CY; McCooke, JK; Tan, C; Wang, SB; Yin, SY; Zhou, GF; Poland, JA; Bellgard, MI; Houben, A; Dolezel, J; Ayling, S; Lonardi, S.; Langridge, P.; Muehlbauer, G.J.; Kersey, P.; Clark, M.D.; Caccamo, M.; Schulman, A.H.; Platzer, M.; Close, T.J.; Hansson, M.; Zhang, G.P.; Braumann, I.; Li, C.D.; Waugh, R.; Scholz, U.; Stein, N.; Mascher, M. (2017) Construction of a map-based reference genome sequence for barley, Hordeum vulgare L., Scientific Data, 4, Article No. 170044.
- Colas, I.; Darrier, B.; Arrieta, M.; Mittmann, S.U.; Ramsay, L.; Sourdille, P.; Waugh, R. (2017) Observation of extensive chromosome axis remodeling during the "diffuse-phase" of meiosis in large genome cereals., Frontiers in Plant Science, 8, Article No. 1235.
- Gou, W.; Calixtio, C.P.G.; Tzioutziou, N.; Ping, L.; Waugh, R.; Brown, J.W.S.; Zhang, R. (2017) Evaluation and improvement of the regulatory inference for large co-expression networks with limited sample size., BMC Systems Biology, 11, Article No. 62.
- Bull, H.; Casao, M.C.; Zwirek, M.; Flavell, A.J.; Thomas, W.T.B.; Guo, W.B.; Zhang, R.X.; Rapazote-Flores, P.; Kyriakidis, S.; Russell, J.; Druka, A.; McKim, S.M.; Waugh, R. (2017) Barley SIX-ROWED SPIKE3 encodes a putative Jumonji C-type H3K9me2/me3 demethylase that represses lateral spikelet fertility., Nature Communications, 8, Article No. 936.
- Colas, I.; Ramsay, L.; Waugh, R. (2017) Barley meiosis The importance of sticking together., Atlas of Science, 7 March 2017.
- Mascher, M.; Schuenemann, V.J.; Davidovich, U.; Marom, N.; Himmelbach, A.; Hübner, S.; Korol, A.; David, M.; Reiter, E.; Riehl, S.; Schreiber, M.; Vohr, S.H.; Green, R.E.; Dawson, I.K.; Russell, J.; Kilian, B.; Muehlbauer, G.J.; Waugh, R.; Fahima, T.; Krause, J.; Weiss, E.; Stein, N. (2016) Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley., Nature Genetics, 48, 1089-1093.
- Wendt, T.; Holme, I.; Dockter, C.; Preuss, A.; Thomas, W.; Druka, A.; Waugh, R.; Hansson, M.; Braumann, I. (2016) HvDep1 Is a positive regulator of culm elongation and grain size in barley and impacts yield in an environment-dependent manner., PLoS ONE, 11, Article No. e0168924.
- Colas, I.; Macaulay, M.; Higgins, J.D.; Phillips, D.; Barakate, A.; Posch, M.; Armstrong, S.J.; Franklin, F.C.H.; Halpin, C.; Waugh, R.; Ramsay, L. (2016) A spontaneous mutation in MutL-Homolog 3 (HvMLH3) affects synapsis and crossover resolution in the barley desynaptic mutant des10., New Phytologist, 212, 693-707.
- Mora, F.; Quitral, Y.A.; Matus, I.; Russell, J.; Waugh, R.; del Pozo, A. (2016) SNP-based QTL mapping of 15 complex traits in barley under rain-fed and well-watered conditions by a mixed modeling approach., Frontiers in Plant Science, 7, Article No.909.
- Oakey, H.; Cullis, B.; Thompson, R.; Comadran, J.; Halpin, C.; Waugh, R. (2016) Genomic selection in multi-environment crop trials., G3- Genes Genomes Genetics, 6, 1313-1326.
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- Jöst, M.; Taketa, S.; Mascher, M.; Himmelbach, A.; You, T.; Shahinnia, F.; Rutten, T.; Druka, A.; Schmutzer, T.; Steuernagel, B.; Beier, S.; Taudien, S.; Scholz, U.; Morgante, M.; Waugh, R.; Stein, N. (2016) A homolog of Blade-On-Petiole 1 and 2 (BOP1/2) controls internode length and homeotic changes of the barley inflorescence., Plant Physiology, 171, 1113-1127.
- Mascher, M.; Schuenemann, V.J.; Davidovich, U.; Marom, N.; Himmelbach, A.; Hubner, S.; Korol, A.; David, M.; Reiter, E.; Riehl, S.; Schreiber, M.; Vohr, S.H.; Green, R.E.; Dawson, I.K.; Russell, J.; Kilian, B.; Muehlbauer, G.J.; Waugh, R.; Fahima, T.; Krause, J.; Weiss, E.; Stein, N. (2016) Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley., Nature Genetics, 48, 1089-1093.
- Calixto, C.P.G.; Simpson, C.G.; Waugh, R.; Brown, J.W.S. (2016) Alternative splicing of barley clock genes in response to low temperature., PLoS ONE, 11, Article No. e0168028.
- Phillips, D.; Jenkins, G.; Macaulay, M.; Nibau, C.; Wnetrzak, J.; Fallding, D.; Colas, I.; Oakey, H.; Waugh, R.; Ramsay, L. (2015) The effect of temperature on the male and female recombination landscape of barley., New Phytologist, 208, 421-429.
- Marcotuli, I.; Houston, K.; Waugh, R.; Fincher, G.B.; Burton, R.A.; Blanco, A.; Gadaleta, A. (2015) Genome wide association mapping for Arabinoxylan content in a collection of tetraploid wheats., PLoS ONE, 10, Article No. e0132787
- Calixto, C.P.G.; Waugh, R.; Brown, J.W.S. (2015) Evolutionary relationships among barley and Arabidopsis core circadian clock and clock-associated genes., Journal of Molecular Evolution, 80, 108-119.
- Chapman, J.A.; Mascher, M.; Buluc, A.; Barry, K.; Georganas, E.; Session, A.; Strnadova, V.; Jenkins, J.; Seghal, S.; Oliker L.; Schmutz, J.; Yelick, K.A.; Scholz, U.; Waugh, R.; Poland, J.A.; Muehlbauer, G.J.; Stein, N.; Rokhsar, D.S. (2015) Chromosome-scale assembly of the hexaploid wheat genome from whole genome shotgun sequencing., Genome Biology, 16, Article No. UNSP 26.
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- Schwerdt, J.G.; MacKenzie, K.; Wright, F.; Oehme, D.; Wagner, J.M.; Harvey, A.J.; Shirley, N.J.; Burton, R.A.; Schreiber, M.; Halpin, C.; Zimmer, J.; Marshall, D.F.; Waugh, R.; Fincher, G.B. (2015) Evolutionary dynamics of the cellulose synthase gene superfamily in grasses., Plant Physiology, 168, 968-983.
- Calixto, C.P.G.; Simpson, C.G.; Waugh, R.; Brown, J.W.S. (2016) Alternative splicing of barley clock genes in response to low temperature., PLoS ONE, 11, Article No. e0168028.
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- Comadran, J.; Waugh, R. (2012) Introduccion al mapeo por asociacion genetica., Spanish Society of Genetics, Gijon, 1.
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- Snape, J.W.; Powell, W.; Waugh, R. (2010) Hordeum species., In: Brenner, S. & Miller, J.H. (eds.). Encyclopedia of Genetics. Elsevier Science Inc., 971-973.
- Hein, I.; Kumlehn, J.; Waugh, R. (2008) Functional validation in the Triticeae., In: Jorgensen, R. (ed.). Genetics and Genomics of the Triticeae. Chapter 13, 359-286.
- Druka, A.; Waugh, R.; Hedley, P.E. (2008) Gene expression profiling., In: Rapley, R. & Walker, J.R. (eds.). Molecular Biomethods Handbook. 2nd edition. Humana Press, Chapter 14, 194-212.
- Powell, W.; Waugh, R.; Bradshaw, J.E.; Russell, J.R.; Ramsay, L. (2006) Introduction to classical genetics and plant breeding., In: Christou, P. & Klee, H. (eds.). Handbook of Plant Biotechnology. 2nd ed. John Wiley and Sons Ltd, Chichester, pp3-29.
- Ritter, E.; Lucca, F.; Sanchez, I.; Ruiz de Galarreta, J.I.; Aragones, A.; Castanon, S.; Bryan, G.J.; Waugh, R.; Lefebvre, V.; Rousselle-Bourgeois, F.; Gebhardt, C.; van Eck, H.; van Os, H.; Taco, J.; Bakker, E.; Bakker, J. (2005) Genomic resources in potato and possibilities for exploitation., In: Haverkort, A.J. & Struik, P.C (eds.). Potato in progress; science meets practice. Wageningen Academic Publishers, Netherlands, pp55-65.
- Trognitz, B.R.; Bonierbale, M.; Landeo, J.A.; Forbes, G.; Bradshaw, J.E.; Mackay, G.R.; Waugh, R.; Huarte, M.A.; Colon, L. (2001) Improving potato resistance to disease under the Global Initiative on Late Blight., In: Cooper, H.D., Spillane, C. & Hodgkin, T. (eds.). Broadening the Genetic Base of Crop Production. CABI/FAO/IPGRI, pp385-398.
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- Lanham, P.; Fennell, S.; Mcnicol, P.A.; Forster, B.P.; Waugh, R.; Powell, W. (1998) The development of RAPD markers in Arachis., In: Naqvi, S.S.M. (ed.). New Genetical Approaches to Crop Improvement. Atomic Energy Research Centre, Tando Jam 70060, Pakistan, pp595-604
- Russell, J.R.; Hosein, F.; Johnson, E.; Forster, B.P.; Powell, W.; Waugh, R. (1998) The use of randomly amplified polymorphic DNA to discriminate between closely related Theobroma cacao genotypes., In: Naqvi, S.S.M. (ed.). New Genetical Approaches to Crop Improvement. Atomic Energy Research Centre. Tambo Jam 70060, Pakistan, 579-584.
- Waugh, R.; Russell, J.R. (1998) Screening for useful variation: RAPD markers., In: Karp, A. & Issaci, P.G. (eds.). Molecular tools for screening Biodiversity: Plants and Animals. Springer, The Netherlands, Chapter 23, pp459-463.
- Thomas, W.T.B.; Russell, J.R.; Bonar, N.; Booth, A.; Fuller, J.D.; Lawrence, P.; Macaulay, M.; Ramsay, L.; Waugh, R.; Powell, W. (1997) Simple sequence repeats SSRs and QTL mapping in barley crosses.., In: H. Buerstmayer & P. Ruckenbauer (eds.). Application of Marker Aided Selection in Cereal Breeding Programs. Eucarpia Section Cereals Meeting. Tulln, Austria, 28-29.
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- Hayes, P.; Chen, F.Q.; Corey, A.; Pan, A.H.; Chen, T.H.H.; Baird, E.; Powell, W.; Thomas, W.T.B.; Waugh, R.; Bedo, Z.; Karsai, I.; Blake, T.; Oberthur, L. (1997) The Dicktoo x Morex Population - A model for dissecting components of winterhardiness in barley., In: Li, P.H. & Chen, T.H.H. (eds.). Plant Cold Hardiness. Plenum Press. New York, pp77-87.
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- Russell, J.R.; Hosein, F.; Johnson, E.; Van der Ven, W.T.G.; Waugh, R.; Powell, W. (1995) The use of RAPD markers to genetically differentiate between cocoa (Theobroma cacao L.) populations., In: Baradat, A.M.S., Adams, W.T., Muller-Stack, G. (eds.). Population Genetics and Conservation of Forest Trees. Kugler Publications, pp135-138.
- Newton, A. C.; Leakey, R. R. B.; Powell, W.; Chalmers, K.; Waugh, R.; Tchoundjeu, Z.; Mathias, P. J.; Alderson, P. G.; Mesen, J. F.; Baker, P.; Ramnarine, S. (1994) Domestication of mahoganies., In: Leakey, R. R. B. & Newton, A. C. (eds.) Tropical trees: the potential for domestication and the rebuilding of forest resources. HMSO, London, 256-266. (ITE Symposium, 29).
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- Cooper-Bland, S.C.; Baird, E.; Kumar, A.; De M.; Forster, B.P.; Waugh, R.; Powell, W. (1992) Inter- and intraspecific somatic hybridisation in potato and molecular characterisation of somatic hybrids using randomly amplified polymorphic DNA RAPD markers., In: Siddiqui, K.A. (ed.). New Vistas in Plant Genetics. Atomic Energy Agricultural Research Centre.
- Thomas, W.T.B.; Comadran, J.; Ramsay, L.; Shaw, P.; Marshall, D.F.; Newton, A.C.; O'Sullivan, D.; Cockram, J.; Mackay, I.; Bayles, R.; White, J.; Kearsey, M.J.; Luo, Z.; Wang, M.; Tapsell, C.; Harrap, D.; Werner, P.; Klose, S.; Bury, P.; Wroth, J.; Argilllier, O.; Habgood, R.; Glew, M.; Bochard, A-M.; Gymer, P.; Vequaud, D.; Christerson, T.; Allvin, B,; Davies, N.; Broadbent, R.; Brosnan, J.; Bringhurst, T.; Booer, C.; Waugh, R. (2014) Association genetics of UK elite barley (AGOUEB)., Final Project Report to HGCA, No 528, 125pp.
- Ramsay, L.; Thomas, W.T.B.; Comadran, J.; Marshall, D.F.; Shaw, P.; Waugh, R. (2011) Genetic diversity in modern barley varieties., Annual Report of the Scottish Crop Research Institute for 2010, pp23-24.
- Russell, J.R.; Dawson, I.K.; Booth, A.; Flavell, A.J.; Steffenson, B.J.; Weltzien, E.; Ceccarelli, S.; Waugh, R. (2010) Relationship between genetic distances and geographic distances among populations of barley landraces., Annual Report of the Scottish Crop Research Institute for 2009, pp20-21.
- Waugh, R. (2009) Genetics., Annual Report of the Scottish Crop Research Institute for 2008, pp19-25.
- Druka, A.; Potokina, E.; Kearsey, M.J.; Luo, Z.W.; Waugh, R. (2008) The genetics of gene expression., Annual Report of the Scottish Crop Research Institute for 2007, pp16-17.
- Waugh, R. (2008) Genetics., Annual Report of the Scottish Crop Research Institute for 2007, p11-13.
- Ramsay, L.; Rostoks, N.; Marshall, D.F.; Mudie, S.; Close, T.J.; Waugh, R. (2006) Breeding facilitates whole genome LD-mapping., Annual Report of the Scottish Crop Research Institute for 2006, pp16-17.
- Waugh, R. (2006) Genetics., Annual Report of the Scottish Crop Research Institute for 2006, pp9-11.
- Bryan, G.J.; McLean, K.; Waugh, R.; Spooner, D.M.; Ramsay, G. (2005) A single domestication for cultivated potato., Annual Report of the Scottish Crop Research Institute for 2004/2005, pp16-17.
- Waugh, R. (2005) Genetics., Annual Report of the Scottish Crop Research Institute for 2004/2005, pp13-15.
- Davies, H.V.; Waugh, R. (2004) Genes to products., Annual Report of the Scottish Crop Research Institute for 2003/2004, pp135-137.
- Macaulay, M.; Russell, J.R.; Ramsay, L.; Marshall, D.F.; Powell, W.; Waugh, R.; Thomas, W.T.B. (2004) Lessons from barley recommended lists., Annual Report of the Scottish Crop Research Institute for 2003/2004, pp144-145.
- Ramsay, L.; Caldwell, K.; Russell, J.R.; Macaulay, M.; Thomas, W.T.B.; Powell, W.; Waugh, R. (2003) Linkage disequilibrium in barley., Annual Report of the Scottish Crop Research Institute for 2002/2003, p114.
- Davies, H.V.; Viola, R.; Waugh, R. (2003) Genes to Products Overview., Annual Report of the Scottish Crop Research Institute for 2002/2003, pp106-108.
- Blok, V.C.; Armstrong, M.R.; Banks, B.; Birch, P.R.J.; Bryan, G.J.; Castelli, L.; Jones, J.T.; Kumar, A.; Phillips, M.S.; Purvis, A.; Ramsay, G.; Waugh, R.; Wishart, J. (2002) Investigating gene expression in nematode-infected roots., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp122-124.
- Hackett, C.A.; Bradshaw, J.E.; Luo, Z.W.; Stewart, H.E.; Pande, B.; Bryan, G.J.; Waugh, R.; McNicol, J.W. (2002) QTL mapping in autotetraploid species: theory and application to Map QTL affecting blight resistance in potato., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp159-161.
- Ramsay, L.; Hedley, P.E.; Liu, H.; McCallum, N.; Mudie, S.; Cardle, L.; Harrower, B.E.; Machray, G.C.; Marshall, D.F.; Waugh, R. (2002) Barley transcriptome resources., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp151-152.
- Bryan, G.J.; Milbourne, D.; Isidore, E.; McNicoll, J.; Tierney, I.; Purvis, A.; Williamson, S.; Ramsay, L.; McLean, K.; Waugh, R. (2002) Application of a potato UHD genetic linkage map for BAC landing and contig initiation in a region of linkage group V., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp143-146.
- Forster, B.P.; Bengough, A.G.; Ellis, R.P.; Thomas, W.T.B.; Clark, S.; Gordon, D.C.; El-Meniae, R.; Keith, R.; Waugh, R.; Hedley, P.E.; Daniell, T.J. (2002) Genomics of the root-soil interface., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp153-154.
- Davies, H.V.; Waugh, R. (2002) Genes to Products., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp133-134.
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