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Author

  • David Marshall
2020

Genomics of Rubber Biosynthesis in Hevea brasiliensis

Chow, K-S., Bahari, A., Taylor, M. A. & Marshall, D., 31 May 2020, The Rubber Tree Genome.. Chow, KS. & Matsui, M. (eds.). Springer, p. 93-115 22 p. (Compendium of Plant Genomes).

Research output: Chapter in Book/Report/Conference proceedingChapter

2019

BrAPI - an application programming interface for plant breeding applications

Selby, P., Abbeloos, R., Backlund, J. E., Basterrechea Salido, M., Bauchet, G., Benites-Alfaro, O., Birkett, C., Calaminos, V. C., Carceller, P., Cornut, G., Vasques Costa, B., Edwards, J. D., Finkers, R., Gao, S. Y., Ghaffar, M., Glaser, P., Guignon, V., Hok, P., Kilian, A., König, P. & 30 others, Lagare, J. E. B., Lange, M., Laporte, M-A., Larmande, P., LeBauer, D., Lyon, D., Marshall, D., Matthews, D., Milne, I., Mistry, N., Morales, N., Mueller, L., Neveu, P., Papoutsoglou, E., Pearce, B., Perez-Masias, I., Pommier, C., Ramirez-Gonzalez, R. H., Rathore, A., Raquel, A. M., Raubach, S., Rife, T., Robbins, K., Rouard, M., Sarma, C., Scholz, U., Sempéré, G., Shaw, P., Simon, R. & Soldevilla, N., 15 Oct 2019, In : Bioinformatics (Oxford, England). 35, 20, p. 4147-4155 9 p., btz190.

Research output: Contribution to journalArticle

Open Access
File
9 Citations (Scopus)
5 Downloads (Pure)

RNAi-suppression of barley caffeic acid O-methyltransferase modifies lignin despite redundancy in the gene family

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., Mar 2019, In : Plant Biotechnology Journal. 17, 3, p. 594-607 14 p.

Research output: Contribution to journalArticle

Open Access
File
3 Citations (Scopus)
1 Downloads (Pure)
2017

Germinate 3: Development of a common platform to support the distribution of experimental data on crop wild relatives

Shaw, P. D., Raubach, S., Hearne, S. J., Dreher, K., Bryan, G., McKenzie, G., Milne, I., Stephen, G. & Marshall, D. F., 16 Jun 2017, In : Crop Science. 57, 3, p. 1259-1273 15 p.

Research output: Contribution to journalArticle

Open Access
10 Citations (Scopus)
2016

Analytical and decision support tools for genomics-assisted breeding

Varshney, R. K., Singh, V. K., Hickey, J. M., Xun, X., Marshall, D. F., Wang, J., Edwards, D. & Ribaut, J. M., 1 Apr 2016, In : Trends in Plant Science. 21, 4, p. 354-363 10 p.

Research output: Contribution to journalReview article

Open Access
24 Citations (Scopus)

An ultra-high density genetic linkage map of perennial ryegrass (Lolium perenne) using genotyping by sequencing (GBS) based on a reference shotgun genome assembly

Velmurugan, J., Mollison, E., Barth, S., Marshall, D., Milne, L., Creevey, C. J., Lynch, B., Meally, H., McCabe, M. & Milbourne, D., 1 Jul 2016, In : Annals of Botany. 118, 1, p. 71-87 17 p.

Research output: Contribution to journalArticle

8 Citations (Scopus)

Tablet: Visualizing Next-Generation Sequence Assemblies and Mappings

Milne, I., Bayer, M., Stephen, G., Cardle, L. & Marshall, D., 2016, Plant Bioinformatics: Methods and Protocols. Edwards, D. (ed.). Springer, Vol. 1374. p. 253-68 16 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

13 Citations (Scopus)
2015

An investigation of causes of false positive single nucleotide polymorphisms using simulated reads from a small eukaryote genome

Ribeiro, A., Golicz, A., Hackett, C. A., Milne, I., Stephen, G., Marshall, D., Flavell, A. J. & Bayer, M., 11 Nov 2015, In : BMC Bioinformatics. 16, 382.

Research output: Contribution to journalArticle

Open Access
20 Citations (Scopus)

Evolutionary dynamics of the cellulose synthase gene superfamily in grasses

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., Jul 2015, In : Plant Physiology. 168, p. 968-983

Research output: Contribution to journalArticle

Open Access
24 Citations (Scopus)
2014

Genome-Tagged Amplification (GTA): a PCR-based method to prepare sample-tagged amplicons from hundreds of individuals for next generation sequencing

Ho, T., Cardle, L., Xu, X., Bayer, M., Prince, K. S. J., Mutava, R. N., Marshall, D. F. & Syed, N., Apr 2014, In : Plant Breeding. 34, 3, p. 977-988

Research output: Contribution to journalArticle

4 Citations (Scopus)

Helium: visualization of large scale plant pedigrees

Shaw, P. D., Graham, M., Kennedy, J., Milne, I. & Marshall, D. F., 1 Aug 2014, In : BMC Bioinformatics. 15, 259.

Research output: Contribution to journalArticle

Open Access
18 Citations (Scopus)

In silico identification and characterization of conserved plant microRNAs in barley

Wu, X., Hornyik, C., Bayer, M., Marshall, D., Waugh, R. & Zhang, R., 2014, In : Central European Journal of Biology. 9, 9, p. 841-852 12 p.

Research output: Contribution to journalArticle

Open Access
1 Citation (Scopus)

The barley genome sequence assembly reveals three additional members of the CslF (1,3;1,4)-β-glucan synthase gene family

Schreiber, M., Wright, F., MacKenzie, K., Hedley, P. E., Schwerdt, J. G., Little, A., Burton, R. A., Fincher, G. B., Marshall, D., Waugh, R. & Halpin, C., 2014, In : PLoS ONE. 9, 3, e90888.

Research output: Contribution to journalArticle

Open Access
27 Citations (Scopus)

The low-recombining pericentromeric region of barley restricts gene diversity and evolution but not gene expression

Baker, K., Bayer, M., Cook, N., Dreißig, S., Dhillon, T., Russell, J., Hedley, P. E., Morris, J., Ramsay, L., Colas, I., Waugh, R., Steffenson, B., Milne, I., Stephen, G., Marshall, D. & Flavell, A. J., Sep 2014, In : Plant Journal. 79, 6, p. 981-992

Research output: Contribution to journalArticle

Open Access
17 Citations (Scopus)

The use of genotyping by sequencing in blackcurrant (Ribes nigrum): developing high-resolution linkage maps in species without reference genome sequences

Russell, J., Hackett, C., Hedley, P., Liu, H., Milne, L., Bayer, M., Marshall, D., Jorgensen, L., Gordon, S. & Brennan, R., Apr 2014, In : Molecular Breeding. 33, 4, p. 835-849

Research output: Contribution to journalArticle

36 Citations (Scopus)
2013

Construction of reference chromosome-scale pseudomolecules for potato: integrating the potato genome with genetic and physical maps

Sharma, S. K., Bolser, D., de Boer, J., Sønderkær, M., Amoros, W., Carboni, M. F., D'Ambrosio, J. M., de la Cruz, G., Di Genova, A., Douches, D. S., Eguiluz, M., Guo, X., Guzman, F., Hackett, C. A., Hamilton, J. P., Li, G., Li, Y., Lozano, R., Maass, A., Marshall, D. & 25 others, Martinez, D., McLean, K., Mejía, N., Milne, L., Munive, S., Nagy, I., Ponce, O., Ramirez, M., Simon, R., Thomson, S. J., Torres, Y., Waugh, R., Zhang, Z., Huang, S., Visser, R. G. F., Bachem, C. W. B., Sagredo, B., Feingold, S. E., Orjeda, G., Veilleux, R. E., Bonierbale, M., Jacobs, J. M. E., Milbourne, D., Martin, D. M. A. & Bryan, G. J., 6 Nov 2013, In : G3: Genes, Genomes, Genetics. 3, 11, p. 2031-47 17 p.

Research output: Contribution to journalArticle

Open Access
File
127 Citations (Scopus)
14 Downloads (Pure)

Identification and characterization of miRNA transcriptome in potato by high-throughput sequencing

Zhang, R., Marshall, D., Bryan, G. J. & Hornyik, C., 21 Feb 2013, In : PLoS ONE. 8, 2, e57233.

Research output: Contribution to journalArticle

Open Access
77 Citations (Scopus)

Using Tablet for visual exploration of second-generation sequencing data

Milne, I., Stephen, G., Bayer, M., Cock, P. J. A., Pritchard, L., Cardle, L., Shaw, P. D. & Marshall, D., Mar 2013, In : Briefings in Bioinformatics. 14, 2, p. 193-202 10 p.

Research output: Contribution to journalArticle

432 Citations (Scopus)
2012

Natural variation in a homolog of Antirrhinum CENTRORADIALIS contributed to spring growth habit and environmental adaptation in cultivated barley

Comadran, J., Kilian, B., Russell, J., Ramsay, L., Stein, N., Ganal, M., Shaw, P., Bayer, M., Thomas, W., Marshall, D., Hedley, P., Tondelli, A., Pecchioni, N., Francia, E., Korzun, V., Walther, A. & Waugh, R., Nov 2012, In : Nature Genetics. 44, p. 1388-1392

Research output: Contribution to journalArticle

262 Citations (Scopus)
2011

A robust statistical method for association-based eQTL analysis

Jiang, N., Wang, M., Jia, T., Wang, L., Leach, L., Hackett, C., Marshall, D. & Luo, Z., 2011, In : PLoS ONE. 6, 8, e23192.

Research output: Contribution to journalArticle

Open Access
2 Citations (Scopus)

Comparative visualization of genetic and physical maps with Strudel

Bayer, M., Milne, I., Stephen, G., Shaw, P., Cardle, L., Wright, F. & Marshall, D., 1 May 2011, In : Bioinformatics (Oxford, England). 27, 9, p. 1307-8 2 p.

Research output: Contribution to journalArticle

Open Access
24 Citations (Scopus)

Genome sequence and analysis of the tuber crop potato

Potato Genome Sequencing Consortium, 10 Jul 2011, In : Nature. 475, 7355, p. 189-95 7 p.

Research output: Contribution to journalArticle

Open Access
1123 Citations (Scopus)

Highly parallel gene-to-BAC addressing using microarrays

Liu, H., McNicol, J., Bayer, M., Morris, J. A., Cardle, L., Marshall, D. F., Schulte, D., Stein, N., Shi, B-J., Taudien, S., Waugh, R. & Hedley, P. E., Mar 2011, In : BioTechniques. 50, 3, p. 165-74 10 p.

Research output: Contribution to journalArticle

Open Access
7 Citations (Scopus)

INTERMEDIUM-C, a modifier of lateral spikelet fertility in barley, is an ortholog of the maize domestication gene TEOSINTE BRANCHED 1

Ramsay, L., Comadran, J., Druka, A., Marshall, D. F., Thomas, W. T. B., Macaulay, M., MacKenzie, K., Simpson, C., Fuller, J., Bonar, N., Hayes, P. M., Lundqvist, U., Franckowiak, J. D., Close, T. J., Muehlbauer, G. J. & Waugh, R., 9 Jan 2011, In : European Journal of Medical Genetics. 43, p. 169-172

Research output: Contribution to journalArticle

171 Citations (Scopus)

Syringyl lignin is unaltered by severe sinapyl alcohol dehydrogenase suppression in tobacco

Barakate, A., Stephens, J., Goldie, A., Hunter, W. N., Marshall, D., Hancock, R. D., Lapierre, C., Morreel, K., Boerjan, W. & Halpin, C., Dec 2011, In : Plant Cell. 23, 12, p. 4492-506 15 p.

Research output: Contribution to journalArticle

21 Citations (Scopus)