• The University of Western Australia (M084), 35 Stirling Highway,

    6009 Perth

    Australia

1992 …2018
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Research Output 1992 2018

2018
2 Citations

Adapting legume crops to climate change using genomic approaches

Mousavi-Derazmahalleh, M., Bayer, P. E., Hane, J. K., Babu, V., Nguyen, H. T., Nelson, M. N., Erskine, W., Varshney, R. K., Papa, R. & Edwards, D., 30 Mar 2018, In : Plant Cell and Environment.

Research output: Contribution to journalArticle

Open Access
Climate Change
Fabaceae
legumes
climate change
genomics

Advances in integrating genomics and bioinformatics in the plant breeding pipeline

Hu, H., Scheben, A. & Edwards, D., 1 Jun 2018, In : Agriculture (Switzerland). 8, 6, 75

Research output: Contribution to journalReview article

Open Access
Genomics
Computational Biology
plant breeding
bioinformatics
Breeding

Bias in resistance gene prediction due to repeat masking

Bayer, P. E., Edwards, D. & Batley, J., 1 Oct 2018, In : Nature Plants. 4, 10, p. 762-765 4 p.

Research output: Contribution to journalArticle

prediction
genes
genome
plant breeding
Brassicaceae

Bottlenecks for genome-edited crops on the road from lab to farm

Scheben, A. & Edwards, D., 26 Oct 2018, In : Genome Biology. 19, 1, 178

Research output: Contribution to journalArticle

Open Access
Government Regulation
Environmental Health
Genetic Association Studies
roads
genome
1 Citations

Differential Regulation of Genes Involved in Root Morphogenesis and Cell Wall Modification is Associated with Salinity Tolerance in Chickpea

Kaashyap, M., Ford, R., Kudapa, H., Jain, M., Edwards, D., Varshney, R. & Mantri, N., 1 Dec 2018, In : Scientific Reports. 8, 1, 4855

Research output: Contribution to journalArticle

Open Access
Cicer
Salinity
Morphogenesis
Cell Wall
Salts

Editorial overview: Feeding the world in a changing climate

Edwards, D., 1 Jan 2018, (Accepted/In press) In : Current Opinion in Plant Biology.

Research output: Contribution to journalArticle

2 Citations

Exploring the genetic and adaptive diversity of a pan-Mediterranean crop wild relative: narrow-leafed lupin

Mousavi-Derazmahalleh, M., Bayer, P. E., Nevado, B., Hurgobin, B., Filatov, D., Kilian, A., Kamphuis, L. G., Singh, K. B., Berger, J. D., Hane, J. K., Edwards, D., Erskine, W. & Nelson, M. N., Apr 2018, In : Theoretical and Applied Genetics. 131, 4, p. 887–901 15 p.

Research output: Contribution to journalArticle

Open Access
Mediterranean Region
Lupinus
wild relatives
Climate Change
Genome-Wide Association Study
4 Citations

Genome-wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus

Alamery, S., Tirnaz, S., Bayer, P., Tollenaere, R., Chaloub, B., Edwards, D. & Batley, J., 1 Jan 2018, In : Crop and Pasture Science. 69, S1, p. 79-93 15 p.

Research output: Contribution to journalConference article

Open Access
File
Brassica napus
leucine
binding sites
nucleotides
genome

Genomic comparison of two independent seagrass lineages reveals habitat-driven convergent evolution

Lee, H., Golicz, A. A., Bayer, P. E., Severn-Ellis, A. A., Chan, C. K. K., Batley, J., Kendrick, G. A. & Edwards, D., 27 Jun 2018, In : Journal of Experimental Botany. 69, 15, p. 3689-3702 14 p.

Research output: Contribution to journalArticle

Open Access
convergent evolution
Ecosystem
Zosteraceae
Oceans and Seas
genomics

High intraspecific diversity of Restorer-of-fertility-like genes in barley

Melonek, J., Zhou, R., Bayer, P. E., Edwards, D., Stein, N. & Small, I., 1 Oct 2018, (Accepted/In press) In : The Plant Journal.

Research output: Contribution to journalArticle

Hordeum
Fertility
barley
Genes
genes
3 Citations

Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid Brassica napus

Hurgobin, B., Golicz, A. A., Bayer, P. E., Chan, C-K. K., Tirnaz, S., Dolatabadian, A., Schiessl, S. V., Samans, B., Montenegro, J. D., Parkin, I. A. P., Pires, J. C., Chalhoub, B., King, G. J., Snowdon, R., Batley, J. & Edwards, D., 10 Jan 2018, In : Plant Biotechnology Journal. p. 1-10

Research output: Contribution to journalArticle

Open Access
Brassica napus
major genes
Genes
genes
Glucosinolates
3 Citations
Open Access
Lupinus
Lupinus angustifolius
vernalization
Nucleic Acid Regulatory Sequences
flowering

Integrated physical map of bread wheat chromosome arm 7DS to facilitate gene cloning and comparative studies

Tulpová, Z., Luo, M. C., Toegelová, H., Visendi, P., Hayashi, S., Vojta, P., Paux, E., Kilian, A., Abrouk, M., Bartoš, J., Hajdúch, M., Batley, J., Edwards, D., Doležel, J. & Šimková, H., 1 Jan 2018, (Accepted/In press) In : New Biotechnology.

Research output: Contribution to journalArticle

Cloning
Bread
Chromosomes
Triticum
Organism Cloning
2 Citations
Open Access
marker-assisted selection
drought tolerance
single nucleotide polymorphism
chromosome mapping
genome

Large-scale structural variation detection in subterranean clover subtypes using optical mapping

Yuan, Y., Milec, Z., Bayer, P. E., Vrána, J., Doležel, J., Edwards, D., Erskine, W. & Kaur, P., 17 Jul 2018, In : Frontiers in Plant Science. 9, 971

Research output: Contribution to journalArticle

Open Access
Trifolium subterraneum
Trifolium
genome
nucleotides
1 Citations

Revolution in genotyping platforms for crop improvement

Scheben, A., Batley, J. & Edwards, D., 2018, Advances in Biochemical Engineering/Biotechnology. Varshney, R. K., Pandey, M. K. & Chitikineni, A. (eds.). Switzerland: Springer, p. 37-52 16 p. (Advances in Biochemical Engineering/Biotechnology; vol. 164)

Research output: Chapter in Book/Conference paperChapter

Crops
Costs and Cost Analysis
Single Nucleotide Polymorphism
Genome
Nucleotides
15 Citations

Shifting the limits in wheat research and breeding using a fully annotated reference genome

International Wheat Genome Sequencing Consortium (IWGSC), 17 Aug 2018, In : Science. 361, 6403, eaar7191

Research output: Contribution to journalArticle

Triticum
Breeding
Genome
Research
Atlases
1 Citations

Single-cell genomic analysis in plants

Yuan, Y., Lee, H. T., Hu, H., Scheben, A. & Edwards, D., 22 Jan 2018, In : Genes. 9, 1, 50

Research output: Contribution to journalReview article

Open Access
Single-Cell Analysis
Plant Cells
Genomics
Cell Separation
Cell Lineage
27 Citations

Speed breeding is a powerful tool to accelerate crop research and breeding

Watson, A. , Ghosh, S. , Williams, M. J. , Cuddy, W. S. , Simmonds, J. , Rey, M. D. , Asyraf Md Hatta, M. , Hinchliffe, A. , Steed, A. , Reynolds, D. , Adamski, N. M. , Breakspear, A. , Korolev, A. , Rayner, T. , Dixon, L. E. , Riaz, A. , Martin, W. , Ryan, M. , Edwards, D. , Batley, J. & 15 others Raman, H., Carter, J., Rogers, C., Domoney, C., Moore, G., Harwood, W., Nicholson, P., Dieters, M. J., Delacy, I. H., Zhou, J., Uauy, C., Boden, S. A., Park, R. F., Wulff, B. B. H. & Hickey, L. T., 1 Jan 2018, In : Nature Plants. 4, 1, p. 23-29 7 p.

Research output: Contribution to journalArticle

breeding
crops
lighting
greenhouses
cost effectiveness

The western Mediterranean region provided the founder population of domesticated narrow-leafed lupin

Mousavi-Derazmahalleh, M., Nevado, B., Bayer, P. E., Filatov, D. A., Hane, J. K., Edwards, D., Erskine, W. & Nelson, M. N., 17 Sep 2018, In : Theoretical and Applied Genetics.

Research output: Contribution to journalArticle

Open Access
Mediterranean Region
Lupinus
founder effect
domestication
Mediterranean region
2 Citations
plant breeding
genome
quantitative traits
food security
engineers

Variation in abundance of predicted resistance genes in the Brassica oleracea pangenome

Bayer, P. E., Golicz, A. A., Tirnaz, S., Chan, C. K. K., Edwards, D. & Batley, J., 31 May 2018, In : Plant Biotechnology Journal.

Research output: Contribution to journalArticle

Open Access
Brassica
Brassica oleracea
Genes
genes
Disease Resistance
2017
23 Citations

A comprehensive draft genome sequence for lupin (Lupinus angustifolius), an emerging health food: insights into plant–microbe interactions and legume evolution

Hane, J. K. , Ming, Y. , Kamphuis, L. G. , Nelson, M. N. , Garg, G. , Atkins, C. A. , Bayer, P. E. , Bravo, A. , Bringans, S. D. , Cannon, S. , Edwards, D. , Foley, R. , Gao, L. L. , Harrison, M. J. , Huang, W. , Hurgobin, B. , Li, S. , Liu, C. W. , McGrath, A. , Morahan, G. & 4 others Murray, J., Weller, J. L., Jian, J. & Singh, K. B., 1 Mar 2017, In : Plant Biotechnology Journal. 15, 3, p. 318-330 13 p.

Research output: Contribution to journalArticle

Open Access
Lupinus
Lupinus angustifolius
health foods
Fabaceae
legumes
5 Citations

An advanced reference genome of Trifolium subterraneum L. reveals genes related to agronomic performance

Kaur, P., Bayer, P. E., Milec, Z., Vrána, J., Yuan, Y., Appels, R., Edwards, D., Batley, J., Nichols, P., Erskine, W. & Doležel, J., 12 Jul 2017, In : Plant Biotechnology Journal. 15, 8, p. 1034-1046 13 p.

Research output: Contribution to journalArticle

Open Access
Trifolium
Trifolium subterraneum
agronomic traits
Medicago
Genome
9 Citations

Assembly and comparison of two closely related Brassica napus genomes

Bayer, P. E., Hurgobin, B., Golicz, A. A., Chan, C-K. K., Yuan, Y., Lee, H., Renton, M., Meng, J., Li, R., Long, Y., Zou, J., Bancroft, I., Chalhoub, B., King, G. J., Batley, J. & Edwards, D., 14 Jun 2017, In : Plant Biotechnology Journal. 15, 12, p. 1-9 9 p.

Research output: Contribution to journalArticle

Open Access
Brassica napus
Genome
genome
Genes
genes
5 Citations

Assessing and Exploiting Functional Diversity in Germplasm Pools to Enhance Abiotic Stress Adaptation and Yield in Cereals and Food Legumes

Dwivedi, S. L., Scheben, A., Edwards, D., Spillane, C. & Ortiz, R., 29 Aug 2017, In : Frontiers in Plant Science. 8, 30 p., 1461

Research output: Contribution to journalReview article

Open Access

BioNanoAnalyst: A visualisation tool to assess genome assembly quality using BioNano data

Yuan, Y., Bayer, P. E., Scheben, A., Chan, C. K. K. & Edwards, D., 30 Jun 2017, In : BMC Bioinformatics. 18, 1, 9 p., 323

Research output: Contribution to journalArticle

Open Access
Genome
Visualization
Genes
Software
DNA Sequencing
1 Citations

Climate Clever Clovers: New Paradigm to Reduce the Environmental Footprint of Ruminants by Breeding Low Methanogenic Forages Utilizing Haplotype Variation

Kaur, P., Appels, R., Bayer, P. E., Keeble-Gagnere, G., Wang, J., Hirakawa, H., Shirasawa, K., Vercoe, P., Stefanova, K., Durmic, Z., Nichols, P., Revell, C., Isobe, S. N., Edwards, D. & Erskine, W., 5 Sep 2017, In : Frontiers in Plant Science. 8, 10 p., 1463

Research output: Contribution to journalArticle

Open Access
1 Citations

Copy number variation and disease resistance in plants

Dolatabadian, A., Patel, D. A., Edwards, D. & Batley, J., Dec 2017, In : Theoretical and Applied Genetics. 130, 12, p. 2479-2490 12 p.

Research output: Contribution to journalArticle

Open Access
File
Disease Resistance
disease resistance
Plant Dispersal
Plant Genome
Plant Diseases
2 Citations

Databases for wheat genomics and crop improvement

Yuan, Y., Scheben, A., Chan, C. K. K. & Edwards, D., 1 Jan 2017, Wheat Biotechnology : Methods and Protocols. Bhalla, P. L. & Singh, M. B. (eds.). United States: Humana Press, p. 277-291 15 p. (Methods in Molecular Biology; vol. 1679)

Research output: Chapter in Book/Conference paperChapter

Genomics
Triticum
Databases
Research Personnel
Genome

Establishing a distributed national research infrastructure providing bioinformatics support to life science researchers in Australia

Schneider, M. V., Griffin, P. C., Tyagi, S., Flannery, M., Dayalan, S., Gladman, S., Watson-Haigh, N., Bayer, P. E., Charleston, M., Cooke, I., Cook, R., Edwards, R. J., Edwards, D., Gorse, D., McConville, M., Powell, D., Wilkins, M. R. & Lonie, A., 30 Jun 2017, In : Briefings in Bioinformatics. p. 1-6 6 p.

Research output: Contribution to journalArticle

Open Access
Biological Science Disciplines
Bioinformatics
Computational Biology
Research Personnel
Research
8 Citations

Genome analysis identified novel candidate genes for ascochyta blight resistance in chickpea using whole genome re-sequencing data

Li, Y., Ruperao, P., Batley, J., Edwards, D., Davidson, J., Hobson, K. & Sutton, T., 17 Mar 2017, In : Frontiers in Plant Science. 8, 359

Research output: Contribution to journalArticle

Open Access
Ascochyta
blight
single nucleotide polymorphism
genome
phosphotransferases (kinases)
9 Citations

Genome editors take on crops: Genome editors take on crops Genome editing technologies may help to enhance global food security

Scheben, A. & Edwards, D., 17 Mar 2017, In : Science. 355, 6330, p. 1122-1123 2 p.

Research output: Contribution to journalReview article

Clustered Regularly Interspaced Short Palindromic Repeats
Food Supply
Genome
Technology
Climate Change
7 Citations

Genome-wide association study of genetic control of seed fatty acid biosynthesis in Brassica napus

Gacek, K., Bayer, P. E., Bartkowiak-Broda, I., Szala, L., Bocianowski, J., Edwards, D. & Batley, J., 20 Jan 2017, In : Frontiers in Plant Science. 7, 2062

Research output: Contribution to journalArticle

Open Access
Brassica napus
biosynthesis
fatty acids
seeds
stearoyl-CoA desaturase
21 Citations

Genotyping-by-sequencing approaches to characterize crop genomes: choosing the right tool for the right application

Scheben, A., Batley, J. & Edwards, D., 1 Feb 2017, In : Plant Biotechnology Journal. 15, 2, p. 149-161 13 p.

Research output: Contribution to journalReview article

Open Access
File
genotyping
Genome
Costs and Cost Analysis
genome
crops
12 Citations

Improvements in Genomic Technologies: Application to Crop Genomics

Yuan, Y., Bayer, P. E., Batley, J. & Edwards, D., Jun 2017, In : Trends in Biotechnology. 35, 6, p. 547-558

Research output: Contribution to journalReview article

Genomics
Crops
Genes
Genome
Technology
5 Citations

RNA-Seq and metabolic flux analysis of Tetraselmis sp. M8 during nitrogen starvation reveals a two-stage lipid accumulation mechanism

Lim, D. K. Y., Schuhmann, H., Thomas-Hall, S. R., Chan, K. C. K., Wass, T. J., Aguilera, F., Adarme-Vega, T. C., Dal'Molin, C. G. O., Thorpe, G. J., Batley, J., Edwards, D. & Schenk, P. M., 1 Nov 2017, In : Bioresource Technology. 244, Part 2, p. 1281-1293 13 p.

Research output: Contribution to journalArticle

RNA
starvation
Lipids
Nitrogen
lipid

runBNG: a software package for BioNano genomic analysis on the command line

Yuan, Y., Bayer, P. E., Lee, H-T. & Edwards, D., 1 Oct 2017, In : Bioinformatics. 33, 19, p. 3107-3109 3 p.

Research output: Contribution to journalArticle

3 Citations

SNP discovery using a pangenome: Has the single reference approach become obsolete?

Hurgobin, B. & Edwards, D., 1 Mar 2017, In : Biology. 6, 1, 21

Research output: Contribution to journalReview article

Open Access
Polymorphism
single nucleotide polymorphism
Single Nucleotide Polymorphism
Nucleotides
Genes
21 Citations

The pangenome of hexaploid bread wheat

Montenegro, J. D., Golicz, A. A., Bayer, P. E., Hurgobin, B., Lee, H., Chan, C. K. K., Visendi, P., Lai, K., Doležel, J., Batley, J. & Edwards, D., Jun 2017, In : The Plant Journal. 90, 5, p. 1007-1013

Research output: Contribution to journalArticle

Bread
hexaploidy
Triticum
wheat
Genes
23 Citations

Towards CRISPR/Cas crops - bringing together genomics and genome editing

Scheben, A., Wolter, F., Batley, J., Puchta, H. & Edwards, D., Nov 2017, In : New Phytologist. 216, 3, p. 682-698 17 p.

Research output: Contribution to journalReview article

Open Access
File
2016
6 Citations

Advances in genomics for adapting crops to climate change

Scheben, A., Yuan, Y. & Edwards, D., 1 Oct 2016, In : Current Plant Biology. 6, p. 2-10 9 p.

Research output: Contribution to journalReview article

Open Access
Climate Change
Genomics
Climate change
Crops
Breeding
37 Citations

A high-density SNP genotyping array for Brassica napus and its ancestral diploid species based on optimised selection of single-locus markers in the allotetraploid genome

Clarke, W. E. , Higgins, E. E. , Plieske, J. , Wieseke, R. , Sidebottom, C. , Khedikar, Y. , Batley, J. , Edwards, D. , Meng, J. , Li, R. , Lawley, C. T. , Pauquet, J. , Laga, B. , Cheung, W. , Iniguez-Luy, F. , Dyrszka, E. , Rae, S. , Stich, B. , Snowdon, R. J. , Sharpe, A. G. & 2 others Ganal, M. W. & Parkin, I. A. P., 2016, In : Theoretical and Applied Genetics. 129, 10, p. 1887-1899

Research output: Contribution to journalArticle

Open Access
Brassica napus
Diploidy
genotyping
single nucleotide polymorphism
Single Nucleotide Polymorphism
10 Citations

Analytical and decision support tools for genomics-assisted breeding

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

Research output: Contribution to journalReview article

Open Access
genomics
phenotype
breeding
haplotypes
crops
2 Citations

An efficient approach to BAC based assembly of complex genomes

Visendi, P., Berkman, P. J., Hayashi, S., Golicz, A. A., Bayer, P., Ruperao, P., Hurgobin, B., Montenegro, J., Chan, K., Staňková, H., Batley, J., Šimková, H., Doležel, J. & Edwards, D., 20 Jan 2016, In : Plant Methods. 12, 1, p. 1

Research output: Contribution to journalArticle

Open Access
Bacterial Artificial Chromosomes
bacterial artificial chromosomes
Genome
genome
sequence analysis
1 Citations

Chloroplast genomics: Expanding resources for an evolutionary conserved miniature molecule with enigmatic applications

Sablok, G., Mudunuri, S. B., Edwards, D. & Ralph, P. J., 1 Nov 2016, In : Current Plant Biology. 7-8, p. 34-38 5 p.

Research output: Contribution to journalArticle

Open Access
organelle genome
Chloroplasts
Genomics
chloroplasts
Genes
3 Citations

Development and Validation of Thinopyrum elongatum–Expressed Molecular Markers Specific for the Long Arm of Chromosome 7E

Gou, L., Hattori, J., Fedak, G., Balcerzak, M., Sharpe, A., Visendi, P., Edwards, D., Tinker, N., Wei, Y., Chen, G. & Ouellet, T., Jan 2016, In : Crop Science. 56, 1, p. 354-364

Research output: Contribution to journalArticle

Open Access
File
Thinopyrum elongatum
chromosomes
genetic markers
wheat
RNA
9 Citations

Genome-wide association study identifies new loci for resistance to leptosphaeria maculans in canola

Raman, H., Raman, R., Coombes, N., Song, J., Diffey, S., Kilian, A., Lindbeck, K., Barbulescu, D. M., Batley, J., Edwards, D., Salisbury, P. A. & Marcroft, S., 24 Oct 2016, In : Frontiers in Plant Science. 7, OCTOBER, 1513

Research output: Contribution to journalArticle

Open Access
Plenodomus lingam
canola
loci
Brassica napus
mature plants
37 Citations

Global agricultural intensification during climate change: a role for genomics

Abberton, M. , Batley, J. , Bentley, A. , Bryant, J. , Cai, H. , Cockram, J. , Costa De Oliveira, A. , Cseke, L. J. , Dempewolf, H. , De Pace, C. , Edwards, D. , Gepts, P. , Greenland, A. , Hall, A. E. , Henry, R. , Hori, K. , Howe, G. T. , Hughes, S. , Humphreys, M. , Lightfoot, D. & 10 others Marshall, A., Mayes, S., Nguyen, H. T., Ogbonnaya, F. C., Ortiz, R., Paterson, A. H., Tuberosa, R., Valliyodan, B., Varshney, R. & Yano, M., Apr 2016, In : Plant Biotechnology Journal. 14, 4, p. 1095–1098

Research output: Contribution to journalReview article

Open Access
Climate Change
Genomics
Agriculture
Breeding
specialty crops