Publications JB

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Publications

Books

1. Oilseed Brassicas. Eds. Edwards D, Batley J and Parkin I. 2011. Science Publishers Inc (USA), 440pp

2. Plant Genotyping. Ed. Batley J 2015. Humana Press, (USA). 315pp

3. Plant Genomics and Climate Change. 2016. Eds. Edwards D. and Batley J. Springer (USA). 200pp

Book Chapters

1. Visendi P, Batley J and Edwards D. 2014. Next generation sequencing and germplasm resources. In: Advances in genomics of plant genetic resources (Eds. Tuberosa R, Graner A and Frison E). Springer (USA), pp 369-390

2. Edwards D, Zander M, Dalton-Morgan J and Batley J. 2014. New technologies for ultra-high throughput genotyping in plant taxonomy. In: Molecular Plant Taxonomy (Ed. Besse P). Springer (USA), pp. 151-175

3. Duran C, Boskovic Z, Batley J and Edwards D. 2011. Brassica Bioinformatics. In: Vegetable Brassicas (Ed. Sadowski J) Science Publishers Inc (USA), pp406-418

4. Duran C, Edwards D and Batley J. 2009. Molecular Marker Discovery and Genetic map Visualisation. In: Applied Bioinformatics (Eds. Edwards D, Hanson D and Stajich J). Springer (USA), pp165-189

5. Appleby N, Edwards D and Batley J. 2009. New technologies for ultra-high throughput genotyping in plants. In: Plant Genomics. (Eds Somers DJ, Langridge P, and Gustafson JP) Humana Press (USA), pp19-39

6. Duran C, Edwards D and Batley J.2009. Genetic maps and the use of synteny. In: Plant Genomics. (Eds Somers DJ, Langridge P, and Gustafson JP) Humana Press (USA), pp41-55

7. Imelfort M, Batley J, Grimmond S and Edwards D. 2009. Genome sequencing approaches and successes. In: Plant Genomics. (Eds Somers DJ, Langridge P, and Gustafson JP) Humana Press (USA), pp345-358

8. Batley J and Edwards D. 2009. Mining for Single Nucleotide Polymorphism (SNP) and Simple Sequence Repeat (SSR) molecular genetic markers. In: Bioinformatics for DNA Sequence Analysis (Ed. D. Posada) Humana Press (USA) pp303-322

9. Batley J and Edwards D. 2008. Bioinformatics: Fundamentals and Applications in Plant Genetics and Breeding. In: Principles and Practices of Plant Molecular Mapping and Breeding. (Eds. C. Kole and AG Abbott). Science Publishers, Inc., (USA) pp 269-302

10. Batley J, Jewell E and Edwards D. 2007. Automated discovery of Single Nucleotide Polymorphism (SNP) and Simple Sequence Repeat (SSR) molecular genetic markers. In: Plant Bioinformatics (Ed. D. Edwards) Humana Press (USA), pp. 473-494

11. Edwards D, Forster JW, Chagné D and Batley J. 2007. What are SNPs? In: Association Mapping in Plants (Eds. NC Oraguzie, EHA Rikkerink, SE Gardiner and HN De Silva) Springer NY, pp 41-52

12. Edwards D, Batley J, Cogan NOI, Forster JW and Chagné D. 2007. Single Nucleotide Polymorphism Discovery. In: Association Mapping in Plants (Eds. NC Oraguzie, EHA Rikkerink, SE Gardiner and HN De Silva) Springer NY, pp 53-76

13. Chagné D, Batley J, Edwards D, and Forster JW. 2007. Single Nucleotide Polymorphisms genotyping in plants. In: Association Mapping in Plants (Eds. NC Oraguzie, EHA Rikkerink, SE Gardiner and HN De Silva) Springer NY, pp 77-94

14. Batley J and Edwards D. 2007. SNP applications in plants. In: Association Mapping in Plants (Eds. NC Oraguzie, EHA Rikkerink, SE Gardiner and HN De Silva) Springer NY, pp 95-102

15. Edwards D, Salisbury PA, Burton WA, Hopkins CJ and Batley J. 2007. Indian mustard. In Genome Mapping and Molecular Breeding in Plants. Vol II Oilseeds (Ed. C Kole) Springer Berlin, pp 179-210

16. Spangenberg GC, Forster JW, Edwards D, John U, Mouradov A, Emmerling M, Batley J, Felitti S, Cogan NOI, Smith KF and Dobrowolski M. 2004. Future Directions in the Molecular Breeding of Forage and Turf. In: Molecular Breeding for Genetic Improvement of Forage Crops and Turf (Ed. MO Humphreys) Wageningen Academic Publishers, pp 83-97

17. Forster JW, Jones ES, Batley J and Smith KF. 2004. Molecular marker-based genetic analysis of pasture and turf grasses. In: Molecular Breeding of Forage and Turf (Eds. A Hopkins., ZY Wang, M Sledge and RE Barker). Kluwer Academic Press, pp 197-239

18. van Zijll de Jong E, Bannan NR, Batley J, Guthridge KM, Spangenberg GC, Smith KF and Forster JW. 2004. Genetic diversity in the perennial ryegrass fungal endophyte Neotyphodium lolii. In: Molecular Breeding of Forage and Turf (Ed A Hopkins., ZY Wang, M Sledge and RE Barker). Kluwer Academic Press, pp 155-165

19. Dolatabadian A, Yang H, Batley J. Case Study for Trait-Related Gene Evolution: Disease Resistance Genes in Brassica napus. In: The Brassica napus genome (Ed Shengyi Liu, Rod Snowdon and Boulos Chalhoub) Springer (India) pp 223-232

Journal Articles

2018

1. Scheben A, Verpaalen B, Lawley C, Chan C, Bayer P, Batley J and Edwards D. 2018. CropSNPdb: a database of SNP array data for Brassica crops and hexaploid bread wheat. The Plant Journal. In Press (accepted November 2018)

2. Chan C-K K, Rosic N, lorenc MT, Visendi P, Lin M, Kaniewska P, Ferguson B, Gresshoff P, Batley J and Edwards D. 2018. A differential k-mer analysis pipeline for comparing RNASeq transcriptome and meta-transcriptome datasets without a reference. Functional and Integrative Genomics. In Press (accepted November 2018)

3. Singh S, Dey SS, Bhatia R, Batley J and Kumar R. 2018. Molecular breeding for resistance to black rot (Xanthomonas campestris) in Brassicas: recent advances. Euphytica 214:196

4. Bayer P, Golicz A, Tirnaz S, Chan K, Edwards D and Batley J. 2018. Variation in abundance of predicted resistance genes in the Brassica oleracea pan genome. Plant Biotechnology Journal In Press (accepted September 2018)

5. Bayer P, Edwards D and Batley J. 2018. Bias in resistance gene prediction due to repeat masking. Nature plants 4: 762.

6. The International Wheat genome sequencing consortium. 2018. Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science 361: 7191

7. Gacek K, Bartkowiak-Broda I and Batley J. 2018. Genetic and molecular regulation of seed storage proteins (SSPs) to improve nutrional value of oilseed rape (Brassica napus) seeds. Frontiers in Plant Science 9:

8. Lee HT, Golicz AA, Bayer PE, Severn-Ellis A, Chan CKK, Batley J, Kendrick GA and Edwards D. 2018. Genomic comparison of two independent seagrass return to the sea events. Journal of Experimental Botany (In Press, accepted April 2018)

9. Tulpova Z, Luo M-C, Toegleova H, Visendi P, Hayashi S, Vojta P, Paux E, Kilian A, Abrouk M, Bartos J, Hajduch M, Batley J, Edwards D, Dolezel J and Simkova H. 2018. Integrated physical map of bread wheat chromosome arm 7DS to facilitate gene cloning and comparative studies. New Biotechnology (In Press, accepted March 2018)

10. Hurgobin B, Golicz A, Bayer P, Chan K, Tirnaz S, Dolatabadian A, Schiessl S, Samans B, Montenegro J, Parkin I, Pires JC, Chalhoub B, King G, Snowdon R, Batley J and Edwards D. 2017. Homoeologous exchange is a major cause of gene presence/absence variation in the amphidiploid Brassica napus. Plant Biotechnology Journal 16: 1265-1274

11. Czislowski E, Fraser-Smith S, Zander M, O’Neill WT, Meldrum RA, Tran-Nguyen LTT, Batley J and Aitken EAB. 2018. Investigating the diversity of effector genes in the banana pathogen, Fusarium oxysporum f.sp. cubense, reveals evidence of horizontal gene transfer. Molecular Plant Pathology 19: 1155-1171

12. Li Y, Ruperao P, Batley J, Edwards D, Khan T, Colmer TD, Pang J, Siddique KHM and Sutton T. 2018. Investigating drought tolerance in chickpea using genome-wide association mapping and genomic selection based on whole genome re-sequencing data. Frontiers in Plant Science 9: 190

13. Mason AS, Chauhan P, Banga S, Banga SS, Salisbury P, Barbetti M and Batley J. 2018. Agricultural selection and presence-absence variation in spring type canola germplasm. Crop and Pasture Science 69: 55-64.

14. Alamery S, Tirnaz S, Bayer P, Tollenaere R, Chaloub B, Edwards D and Batley J. 2017. Genome wide identification and comparative analysis of NBS-LRR resistance genes in Brassica napus. Crop and Pasture Science 69: 79-93.

15. Watson A, Ghosh S, Williams MJ, Cuddy WS, Simmonds J, Rey M-D, Hatta MAM, Hinchliffe A, Steed A, Reynolds D, Adamski N, Breakspear A, Korolev A, Rayner T, Dixon LE, Riaz A, Martin W, Ryan M, Edwards D, Batley J, Raman H, Rogers C, Domoney C, Moore G, Harwood W, Nicholson P, Dieters MJ, DeLacy IH, Zhou J, Uauy C, Boden SA, Park RF, Wulff BBH, Hickey LT. 2018. Speed breeding: a powerful tool to accelerate crop research and breeding. Nature Plants 4: 23-29

2017

16. Neik TX, Barbetti MJ and Batley J. 2017. Current status and challenges in identifying disease resistance genes in Brassica napus. Frontiers in Plant Science 8: 1788

17. Dolatabadian A, Patel DA, Edwards D and Batley J. 2017. Copy number variation and disease resistance in plants. Theor. & Appl. Genet 130: 2479-2490.

18. Mirzaei S, Batley J, El-Mellouki T, Liu S, Meksem K, Ferguson B and Gresshoff P. 2017. Neodiversification of homeologous CLAVATA1-like receptor kinase genes in soybean leads to disctinct developmental outcomes. Scientific Reports 7: 8878

19. Lim DK, Schuhmann H, Thomas-Hall SR, Chan KC, Wass TJ, Aguilera F, Adarme-Vega C, Dal’Molin CG, Thorpe GJ, Batley J, Edwards D and Schenk P. 2017. RNA-seq and metabolic flux analysis of Tetraselmis sp. M8 during nitrogen starvation reveals a two-stage lipid accumulation mechanism. Bioresource Technology 244: 1281-1293.

20. Scheben A, Wolter F, Batley J, Puchta H and Edwards D. 2017. Towards CRISPR/Cas crops – bringing together genomics and genome editing. New Phytologist 216: 682-698

21. Bayer PE, Hurgobin B, Golicz AA, Chan CKK, Yuan Y, Lee HT, Renton M, Meng J, Li R, Long Y, Zhou J, Bancroft I, Chaloub B, King GJ, Batley J and Edwards D. 2017. Assembly and comparison of two closely related Brassica napus genomes. Plant Biotechnology Journal 15:1602-1610

22. Kaur P, Bayer PE, Milec Z, Vrana J, Yuan Y, Appels R, Edwards D, Batley J, Nichols P, Erskine W and Dolezel J. 2017. An advanced reference genome of Trifolium subterraneum L. reveals genes related to agronomic performance. Plant Biotechnology Journal 15:1034-1046

23. Valdiani A, Talei D, lattoo SK, Ortiz R, Rasmussen SK, Batley J, Rafii MY, Maziah M, Sabu K, Abiri R, Sakuanrungsirikul S and Tan SG. 2017. Geboproteomics-assisted improvement of Andrographis paniculata: toward a promising molecular and concentional breeding platofrom for autogamous plants affecting the pharmaceutical industry. Critical Reviews in Biotechnology 37: 803-816

24. Montenegro JD, Golicz AA, Bayer PE, Hurgobin B, Lee HT, Chan CKK, Visendi P, Lai K, Dolezel J, Batley J and Edwards D. 2017. The pangenome of hexaploid bread wheat. The Plant Journal 90: 1007-1013 25. Yuan Y, Bayer PE, Batley J and Edwards D. 2017. Improvements in Genomic Technologies: Application to Crop Genomics. Trends in Biotechnology 35: 547-558

26. Scheben A, Batley J and Edwards D. 2017. Genotyping by sequencing approaches to characterise crop genomes: choosing the right tool for the right application. Plant Biotech. J. 15: 149-161

27. Nelson MN, Ksiazkiewicz M, Rychel S, Besharat N, Taylor CM, Wrywa K, Jost R, Erskine W, Cowling WA, Berger JD, Batley J, Weller JL, Naganowska B and Wolko B. 2017. The loss of vernalisation requirement in narrow-leafed lupin is associated with a deletion in the promoter and de-repressed expression of a Flowering Locus T (FT) homologue. New Phytologist 213: 220-232

28. Li Y, Ruperao P, Batley J, Edwards D, Davidson J, Hobson K and Sutton T. 2017. Genome analysis identified novel candidate genes for ascochyta blight resistance in chickpea using whole genome re-sequencing data. Frontiers in Plant Science 8:359

29. Mwathi MW, Gupta M, Atri C, Banga SS, Batley J and Mason AS. 2017. Segregation for fertility and meiotic stability in novel Brassica allohexaploids. Theor. & Appl. Genet. 130:767-776

30. Mason AS, Higgins EE, Snowdon RJ, Batley J, Stein A, Werner C and Parkin IAP. 2017. A user guide to the Brassica60K Illumina Infinium SNP genotyping array. Theor. & Appl. Genet. 130:621-633

31. Dhaliwal I, Mason AS, Banga S, Bharti S, Kaur B, Gurung AM, Salisbury PA, Batley J and Banga SS. 2017. Cytogenetic and molecular characterisation of B-genome introgression lines of Brassica napus L. G3 7: 77-86

32. Gacek K, Bayer PE, Bartkowiak-Broda I, Szala L, Bocianowski J, Edwards D and Batley J. 2017. Genome-wide association study of genetic control of seed fatty acid biosynthesis in Brassica napus. Frontiers in Plant Science 7: 2062

2016

33. Lee HT, Golicz AA, Bayer P, Jiao Y, Tang H, Paterson AH, Sablok G, Krishnaraj RR, Chan CKK, Batley J, Kendrick GA, Larkum AW, Ralph PJ and Edwards D. 2016. The genome of a southern hemisphere seagrass species (Zostera Muelleri). Plant Physiol. 172: 272-283

34. Golicz AA, Bayer PE, Barker GC, Edger PP, Kim HR, Martinez PA, Chan CKK, Severn-Ellis A, McCombie WR, Parkin IAP, Paterson AH, Pires JC, Sharpe AG, Tang H, Teakle GR, Town CD, Batley J and Edwards D. 2016. The pangenome of an agronomically important crop plant Brassica oleracea. Nature Communications 7: 13390.

35. Clarke WE, Higgins EE, Plieske J, Wieseke R, Sidebottom C, Khedikar Y, Batley J, Edwards D, Meng J, li R, Lawley CT, Pauquet J, Laga B, Cheung W, Iniguez-Luy F, Dyrska E, Rae S, Stich B, Snowdon RJ, Sharpe AG, Ganal MW and Parking IAP. 2016. 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. Theor. Appl. Genet. 129: 1887-1899

36. Raman H, Raman R, Coombes N, Song J, Diffey S, Kilian A, Lindbeck K, Barbulescu DM, Batley J, Edwards D, Salisbury PA and Marcroft S. 2016. Genome-wide association study identifies new loci for resistance to Leptosphaeria maculans in canola. Frontiers in Plant Science 7: 1513

37. Mason AS, Rousseau-Gueutin M, Morice J, Bayer PE, Besharat N, Cousin A, Pradhan A, Parkin IAP, Chevre AM, Batley J and Nelson MN. 2016. Centromere locations in Brassica A and C genomes revealed through half tetrad analysis. Genetics 202:513-523

38. Blum A, Benfield AH, Stiller J, Kazan K, Batley J and Gardiner DM. 2016. High-throughput FACS-based mutant screen identifies a gain-of-function allele of the Fusarium graminearum adenylyl cyclase causing deoxynivalenol over-production. Fungal Genetics and Biology 90: 1-11

39. Edwards D and Batley J. 2016. The application of genomics and bioinformatics to accelerate crop improvement in a changing climate. Current Opinion in Plant Biology 30: 78-81.

40. Kettle AJ, Carere J, Batley J, Manners JM, Kazan K and Gardiner D. 2016. The Fdb3 transcription factor of the Fusarium detoxification of benzoxazolinone gene cluster is required for MBOA but not BOA degradation in Fusarium pseudograminearum. Fungal Genetics and Biology 88: 44-53

41. Gupta M, Mason AS, Batley J, Bharti S, Banga S and Banga SS. 2016. Molecular-cytogenetic characterisation of C-genome chromosome substitution lines in Brassica juncea (L.) Czern and Coss. Theor. & Appl. Genet. 129:1153-1166

42. Visendi P, Berkman PJ, Hayashi S, Golicz AA, Bayer PE, Ruperao P, Hurgobin B, Montenegro J, Chan C-K.K, Staňková H, Batley J, Šimková H, Doležel J and Edwards D. 2016. An efficient approach to BAC based assembly of complex genomes. Plant Methods. 12:1

43. Subramaniam G, Trusov Y, Encina CL, Hayashi S, Batley J and Botella JR. 2016. Type B heterotrimeric G protein γ subunit regulates auxin and ABA signaling in tomato. Plant Physiology 170:1117-1134

44. Nelson M, Helliwell C, Taylor C, Siddique K, Chen S, Raman H, Batley J and Cowling W. 2016. Can genomics assist the phenological adaptation of canola to new and changing environments? Crop and Pasture Science 67: 284-297

45. Staňková H, Hastie AR, Chan S, Vrana J, Tulpová Z, Kubaláková M, Visendi P, Hayashi S, Luo MC, Batley J, Edwards D, Doležel J and Šimková H. 2016. BioNano genome mapping of individual chromosomes supports physical mapping and sequence assembly in complex plant genomes. Plant Biotech. J. 14:1523-1531

46. Golicz AA, Batley J and Edwards D. 2016. Towards plant pangenomes. Plant Biotech. J. 14:1099-1105

47. Abberton M, Batley J, Bentley A, Bryant J, Cai H, Cockram J, Costa de Oliveira A, Cseke L, Dempewolf H, De Pace C, Edwards D, Gepts P, Greenland A, Hall A, Henry R, Hori K, Howe G, Hughes S, Humphreys M, Lightfoot D, Marshall A, Mayes S, Nguyen H, Ogbonnaya F, Ortiz R, Paterson A, Tuberosa R, Valliyodan B, Varshney R and Yano M. 2016. Global agricultural intensification during climate change: a role for genomics. Plant Biotech. J. 14: 1095-1098

48. Munir F, Hayashi S, Batley J, Naqvi SMS and Mahmood T. 2016. Germin-like protein 2 gene promoter from rice is responsive to fungal pathogens in transgenic potato plants. Funct. & Int. Gen 16:19-27

2015

49. Kale SM, Jaganathan D, Ruperao P, Chen C, Punna R, Kudapa H, Thudi M, Roorkiwal M, Katta M, Doddamani D, Garg V, Kishor PBK, Gaur PM, Nguyen HT, Batley J, Edwards D, Sutton T and Varshney RK. 2015. Prioritization of candidate genes in “QTL-hotspot” region for drought tolerance in chickpea (Cicer arietinum L.). Scientific Reports 5: 15296

50. Mason AS and Batley J. 2015. Creating new interspecific hybrid and polyploid crops. Trends in Biotechnology 33: 436-441.

51. Zhang J, Mason AS, Wu J, Liu S, Zhang X, Luo T, Redden R, Batley J, Hu L and Yan G. 2015. Identification of putative candidate genes for water stress tolerance in canola (Brassica napus). Front. Plant Sci 6: 1058

52. Kettle AJ, Carere J, Batley J, Benfield AH, Manners JM, Kazan K and Gardiner D. 2016. A γ-lactamase from cereal infecting Fusarium spp. catalyses the first step in the degradation of the benzoxazolinone class of phytoalexins. Fungal Genetics and Biology 83: 1-9

53. Mason AS, Takahira J, Atri C, Samans B, Hayward A, Cowling WA, Batley J and Nelson MN. 2015. Microspore culture reveals complex meiotic behaviour in a trigenomic Brassica hybrid. BMC Plant Biology 15: 173

54. Kole C, Muthamilarasan M, Henry R, Edwards D, Sharma R, Abberton M, Batley J, Bentley A, Blakeney M, Bryant J, Cai H, Cakir M, Cseke LJ, Cockram J, de Oliveira AC, De Pace C, Dempewolf H, Ellison S, Gepts P, Greenland A, Hall A, Hori K, Hughes S, Humphreys MW, Iorizzo M, Ismail AM, Marshall A, Mayes S, Nguyen HT, Ogbonnaya FC, Ortiz R, Paterson AH, Simon PW, Tohme J, Tuberosa R, Valliyodan B, Varshney RK, Wullschleger SD, Yano M and Prasad M. 2015. Application of genomics-assisted breeding for generation of climate resilient crops: progress and prospects. Front. Plant Sci. 6:563.

55. Cai G, Yang Q, Yi B, Fan C, Zhang C, Edwards D, Batley J and Zhou Y. 2015. A bi-filtering method for processing single nucleotide polymorphism array data improves the quality of genetic map and accuracy of quantitative trait locus mapping in doubled haploid populations of polyploid Brassica napus. BMC Genomics 16: 409

56. Patel DA, Zander M, Van de Wouw AP, Mason AS, Edwards D and Batley J. 2015. Population Diversity of Leptosphaeria maculans in Australia. International Journal of Biology 7: 18

57. Kettle AJ, Batley J, Benfield AH, Manners JM, Kazan K and Gardiner D. 2015. Degradation of the benzoxazolinone class of phytoalexins is important for virulence of Fusarium pseudograminearum towards wheat. Molecular Plant Pathology 16: 946-962

58. Staňková H, Valárik M, Lapitan NLV, Berkman PJ, Batley J, Edwards D, Luo MC, Tulpová Z, Kubaláková M, Stein N, Doležel J and Šimková H. 2015. Chromosomal genomics facilitates fine mapping of a Russian wheat aphid resistance gene. Theoretical and Applied Genetics 128: 1373-1383

59. Pang W, Li X, Choi SR, Nguyen VD, Dhandapani V, Kim YY, Ramchiary N, Kim JG, Edwards D, Batley J, Na J, Kim H and Lim YP. 2015. Mapping QTLs of resistance to head splitting in cabbage (Brassica oleracea L. var. capitata L.). Molecular Breeding 35: 1-12

60. Li L, Long Y, Zhang L, Dalton-Morgan J, Batley J, Yu L, Meng J and Li M. 2015. Genome wide analysis of flowering time trait in multiple environments via high-throughput genotyping technique in Brassica napus L. PloS One 10: e0119425.

61. Mohd-Yusoff NF, Ruperao P, Tomoyoshi NE, Edwards D, Gresshoff PM, Biswas B and Batley J. 2015. Scanning ethyl methanesulphonate effects on the whole genome of Lotus japonicus using second generation sequencing analysis. G3. 5: 559-567

62. Bayer PE, Ruperao P, Mason AS, Stiller J, Chan CKK, Hayashi S, Long Y, Meng J, Sutton T, Visendi P, Varshney RK, Batley J and Edwards D. 2015 High resolution skim genotyping by sequencing reveals the distribution of crossovers and gene conversions in Cicer arietinum and Brassica napus. Theor. & Appl. Genet.128: 1039-1047

63. Mason AM, Zhang J, Tollenaere R; Vasquez Teuber P, Dalton-Morgan J, Hu L, Yan G, Edwards D, Redden R and Batley J. 2015 High-throughput genotyping for species identification and diversity assessment in germplasm collections. Molecular Ecology Resources 15:1091-1101

64. Golicz AA, Schliep M, Lee HT, Larkum AWD, Dolferus R, Batley J, Chan CKK, Sablok G, Ralph PJ and Edwards D. 2015. Genome-wide survey of the seagrass Zostera muelleri suggests modification of the ethylene signalling network. Journal of Experimental Botany 66: 1489-1498

65. Chambers K, Lowe RGT, Howlett BJ, Zander M, Batley J, Van de Wouw AP and Elliott C. 2015.Next-generation genome sequencing can be used to rapidly characterise sequences flanking T-DNA insertions in random insertional mutants of Leptosphaeria maculans. Fungal Biology and Biotechnology 1:10

66. Golicz AA, Martinez PA, Zander M, Patel DA, Van De Wouw AP, Visendi P, Fitzgerald TL, Edwards D and Batley J. 2015 Gene loss in the fungal canola pathogen Leptosphaeria maculans. Funct. & Int. Gen. 15: 189-196.

67. Lai K, Lorenc M, Lee H, Berkman P, Bayer P, Visendi P, Ruperao P, Fitzgerald T, Zander M, Chan K, Manoli S, Stiller J, Batley J and Edwards D. 2015 Identification and characterisation of more than 4 million SNPs across the group 7 chromosomes of bread wheat. Plant Biotechnology Journal. 13: 97-104

2014

68. Dalton-Morgan J, Hayward A, Alamery S, Tollenaere R, Mason AS, Campbell E, Patel D, Lorenc MT, Yi B, Long Y, Meng J, Raman R, Raman H, Lawley C, Edwards D and Batley J. 2014. A high-throughput SNP array in the amphidiploid species Brassica napus shows diversity in resistance genes. Funct. & Int. Gen 14: 643-655.

69. Cai G, Yang Q, Yi B, Fan C, Edwards D, Batley J and Zhou Z. 2014. A complex recombination pattern in the genome of allotetraploid Brassica napus as revealed by a high-density genetic map. PloS one 9: e109910

70. Raman H, Dalton-Morgan J, Diffey S, Raman R, Alamery S, Edwards D and Batley J. 2014 High-density SNP markers based map construction and genome-wide linkage analysis in Brassica napus. Plant Biotechnology Journal. 12: 851-860

71. Marcussen T, Sandve SR, Heier L, Spannagl M, Pfeifer M, Rogers J, Doležel J, Pozniak C, Eversole K, Feuillet C, Gill B, Friebe B, Lukaszewski AJ, Sourdille P, Endo TR, Kubaláková M, Číhalíková J, Dubská Z, Vrána J, Šperková R, Šimková H, Febrer M, Clissold L, McLay K, Singh K, Chhuneja P, Singh NK, Khurana J, Akhunov E, Choulet F, Alberti A, Barbe V, Wincker P, Kanamori H, Kobayashi F, Itoh T, Matsumoto T, Sakai H, Tanaka T, Wu J, Ogihara Y, Handa H, Maclachlan PR, Sharpe A, Klassen D, Edwards D, Batley J, Lien S, Caccamo M, Ayling S, Ramirez-Gonzalez RH, Clavijo BJ, Wright J, Martis MM, Mascher M, Chapman J, Poland JA, Scholz U, Barry K, Waugh R, Rokhsar DS, Muehlbauer GJ, Stein N, Gundlach H, Zytnicki M, Jamilloux V, Quesneville H, Wicker T, Faccioli P, Colaiacovo M, Stanca AM, Budak H, Cattivelli L, Glover N, Pingault L, Paux E, Sharma S, Appels R, Bellgard M, Chapman B, Nussbaumer T, Bader KC, Rimbert H, Wang S, Knox R, Kilian A, Alaux M, Alfama F, Couderc L, Guilhot N, Viseux C, Loaec M, Keller B, Praud S, Jakobsen KS, Wulff BBH, Steuernagel B, Mayer KFX and Olsen O-A. 2014. Ancient hybridisations among the ancestral genomes of bread wheat. Science 345:1250092

72. Chalhoub B, Denoeud F, Liu S, Parkin IAP, Tang H, Wang X, Chiquet J, Belcram H, Tong C, Samans B, Corréa M, Da Silva C, Just J, Falentin C, Koh CS, Le Clainche I, Bernard M, Bento P, Noel B, Labadie K, Alberti A, Charles M, Arnaud D, Guo H, Daviaud C, Alamery S, Jabbari K, Zhao M, Edger PP, Chelaifa H, Tack D, Lassalle G, Mestiri I, Schnel N, Le Paslier M-C, Fan G, Renault V, Bayer PE, Golicz AA, Manoli S, Lee T-H, Thi VHD, Chalabi S, Hu Q, Fan C, Tollenaere R, Lu Y, Battail C, Shen J, Sidebottom CHD, Wang X, Canaguier A, Chauveau A, Bérard A, Deniot G, Guan M, Liu Z, Sun F, Lim YP, Lyons E, Town CD, Bancroft I, Wang X, Meng J, Ma J, Pires JC, King GJ, Brunel D, Delourme R, Renard M, Aury J-M, Adams KL, Batley J, Snowdon RJ, Tost J, Edwards D, Zhou Y, Hua W, Sharpe AG, Paterson AH, Guan C and Wincker P. 2014 Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science 345:950-953

73. Pfeifer M, Kugler KG, Sandve SR, Zhan B, Rudi H, Hvidsten TR, Rogers J, Doležel J, Pozniak C, Eversole K, Feuillet C, Gill B, Friebe B, Lukaszewski AJ, Sourdille P, Endo TR, Kubaláková M, Číhalíková J, Dubská Z, Vrána J, Šperková R, Šimková H, Febrer M, Clissold L, McLay K, Singh K, Chhuneja P, Singh NK, Khurana J, Akhunov E, Choulet F, Alberti A, Barbe V, Wincker P, Kanamori H, Kobayashi F, Itoh T, Matsumoto T, Sakai H, Tanaka T, Wu J, Ogihara Y, Handa H, Maclachlan PR, Sharpe A, Klassen D, Edwards D, Batley J, Lien S, Caccamo M, Ayling S, Ramirez-Gonzalez RH, Clavijo BJ, Wright J, Martis MM, Mascher M, Chapman J, Poland JA, Scholz U, Barry K, Waugh R, Rokhsar DS, Muehlbauer GJ, Stein N, Gundlach H, Zytnicki M, Jamilloux V, Quesneville H, Wicker T, Faccioli P, Colaiacovo M, Stanca AM, Budak H, Cattivelli L, Glover N, Pingault L, Paux E, Sharma S, Appels R, Bellgard M, Chapman B, Nussbaumer T, Bader KC, Rimbert H, Wang S, Knox R, Kilian A, Alaux M, Alfama F, Couderc L, Guilhot N, Viseux C, Loaec M, Keller B, Praud S, Mayer KFX and Olsen O-A. 2014. Genome interplay in the grain transcirptome of hexaploid bread wheat. Science 345:1250091

74. Mayer KFX, Rogers J, Doležel J, Pozniak C, Eversole K, Feuillet C, Gill B, Friebe B, Lukaszewski AJ, Sourdille P, Endo TR, Kubaláková M, Číhalíková J, Dubská Z, Vrána J, Šperková R, Šimková H, Febrer M, Clissold L, McLay K, Singh K, Chhuneja P, Singh NK, Khurana J, Akhunov E, Choulet F, Alberti A, Barbe V, Wincker P, Kanamori H, Kobayashi F, Itoh T, Matsumoto T, Sakai H, Tanaka T, Wu J, Ogihara Y, Handa H, Maclachlan PR, Sharpe A, Klassen D, Edwards D, Batley J, Lien S, Caccamo M, Ayling S, Ramirez-Gonzalez RH, Clavijo BJ, Wright J, Martis MM, Mascher M, Chapman J, Poland JA, Scholz U, Barry K, Waugh R, Rokhsar DS, Muehlbauer GJ, Stein N, Gundlach H, Zytnicki M, Jamilloux V, Quesneville H, Wicker T, Faccioli P, Colaiacovo M, Stanca AM, Budak H, Cattivelli L, Glover N, Pingault L, Paux E, Sharma S, Appels R, Bellgard M, Chapman B, Nussbaumer T, Bader KC, Rimbert H, Wang S, Knox R, Kilian A, Alaux M, Alfama F, Couderc L, Guilhot N, Viseux C, Loaec M, Keller B and Praud S. A chromosome based draft sequence of the hexaploid bread wheat (Triticum aestivum) genome. Science 345:1251788

75. Parkin IAP, Koh C, Tang H, Robinson SJ, Kagale S, Clarke WE, Town CD, Nixon J, Krishnakumar V, Bidwell SL, Denoeud F, Belcram H, Links MG, Just J, Clarke C, Bender T, Huebert T, Mason AS, Pires JC, Barker G, Moore J, Walley PG, Manoli S, Batley J, Edwards D, Nelson MN, Wang X, Paterson AH, King G, Bancroft I, Chaloub B and Sharpe AG. 2014 Transcriptome and methylome profiling reveals relics of genome dominance in the mesopolyploid Brassica oleracea. Genome Biology 15:R77

76. Raman H, Raman R, Kilian A, Detering F, Carling J, Coombes N, Diffey S, Kadkol G, Edwards D, McCully M, Ruperao P, Parkin I, Batley J, Luckett D and Wratten N. 2014 Genome wide delineation of natural variation for pod shatter resistance in Brassica napus. PLoS ONE 9: e101673

77. Liu S, Liu Y, Yang X, Tong C, Edwards D, A. P. Parkin IAP, Zhao M, Ma J, Yu J, SH, Wang X, Wang J, Lu K, Fan Z, Bancroft I, Yang TJ, Hu Q, Wang X, Yue Z, Li H, Yang L, Wu J, Zhou Q, Wang W, King GJ, Pires JC, Lu C, Wu Z, Sampath P, Wang Z, Guo H, Pan S, Yang L, Min J, Zhang D, Jin D, Li W, Belcram H, Tu J, Guan M, Qi C, Du D, Li J, Jiang L, Batley J, Sharpe AG, Park BS, Ruperao P, Cheng F, Waminal NE, Huang Y, Dong C, Wang L, Li J, Hu Z, Zhuang M, Huang Y, Huang J, Shi J, Mei D, Liu J, Lee TH, Wang J, Jin H, Li Z, Li X, Zhang J, L Xiao L, Zhou Y, Liu Z, Liu X, Qin R, Tang X, Liu W, Wang Y, Zhang Y, Lee J, Kim HH, Denoeud F, Xu X, Liang X, Hua W, Wang X, Wang J, Chalhoub B and Paterson AH. 2014 The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes. Nature Communications 5:3930

78. Ruperao P, Chan C-K K, Azam S, Karafiatova M, Hayashi S, Cizkova J, Saxena RK, Simkova H, Song C, Vrana J, Chitikineni A, Visendi P, Gaur PM, Millan T, Singh KB, Taran B, Wang J, Batley J, Dolezel J, Varshney RK and Edwards D. 2014 A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies. Plant Biotechnology Journal. 12: 778-786

79. Mason AS, Nelson MN, Takahira J, Cowling WA, Moreira Alves G, Chaudhuri A, Chen N, Ragu ME, Dalton-Morgan J, Coriton O, Huteau V, Eber F, Chevre A-M and Batley J. 2014. The Fate of Chromosomes and Alleles in an Allohexaploid Brassica Population. Genetics.197: 273-283

80. Mason AS, Batley J, Bayer PE, Hayward A, Cowling WA and Nelson MN. 2014. High resolution molecular karyotyping uncovers pairing between ancestrally related Brassica chromosomes. New Phytologist. 202: 964-974

81. Mirzaei S, Batley J, Ferguson B and Gresshoff PM. 2014 Transcriptome profiling of the shoot and root tips of S562L, a soybean GmCLAVATA1A mutant. Atlas Journal of Biology 3: 183-205.

82. Deng P, Nie X, Wang L, Cui L, Liu P, Tong W, Biradar SS, Edwards D, Berkman P, Šimková H, Doležel J, Luo M, You F, Batley J, Fleury D, Appels R, Weining S. 2014 Computational Identification and Comparative Analysis of miRNAs in Wheat Group 7 Chromosomes. Plant Molecular Biology Reporter 32:487-500

2013

83. Visendi P, Batley J and Edwards D. 2013 Next generation characterisation of cereal genomes for marker discovery. Biology 2: 1357-1377

84. Golicz AA, Bayer PE, Martinez PA, Lai K, Lorenc MT, Alamery S, Hayward A, Tollenaere R, Long Y, Meng J, Batley J and Edwards D. 2013 Characterising diversity in the Brassica genomes. Acta Horticulturae .1005: 33-48

85. Zander M, Patel DA, Van de Wouw A, Lai K, Lorenc MT, Campbell E, Hayward A, Edwards D, Raman H and Batley J. 2013 Identifying genetic diversity of avirulence genes of Leptosphaeria maculans using whole genome sequencing. Functional and Integrative Genomics 13: 295-308

86. Berkman PJ, Visendi P, Lee HC, Stiller J, Manoli S, Lorenc MT, Lai K, Batley J, Fleury D, Šimková H, Kubaláková M, Weining S, Doležel J and Edwards D. 2013 Dispersion and domestication shaped the genome of bread wheat. Plant Biotechnology Journal 11:564-571.

87. Raman H, Raman R, Kilian A, Detering F, Long Y, Edwards D, Parkin I, Sharpe A, Nelson M, Larkan N, Zou J, Meng J, Aslam M, Batley J, Cowling W and Lydiate D. 2013 A consensus map of rapeseed (Brassica napus L) based on Diversity Array Technology markers: Applications in genetic dissection of qualitative and quantitative traits. BMC Genomics 14:277

88. Duran C, Singhania R, Raman H, Batley J and Edwards D. 2013 Predicting polymorphic EST-SSRs in silico. Molecular Ecology Resources 13: 538-545

89. Edwards D, Batley J and Snowden R. 2013 Accessing complex crop genomes with next-generation sequencing. Theoretical and Applied Genetics. 126:1-11

90. Raman H, Raman R, Eckermann P, Coombes N, Manoli S, Zhu X, Edwards D, Meng J, Prangnell R, Stiller J, Batley J, Luckett D, Wratten N and Dennis L. 2013 Genetic and physical mapping of flowering time loci in oilseed rape (Brassica napus L.). Theoretical and Applied Genetics 126: 119-132

2012

91. Kazakoff SH, Imelfort M, Edwards D, Koehorst J, Biswas B, Batley J, Scott P and Gresshoff PM. 2012. Capturing the biofuel wellhead and powerhouse: the chloroplast and mitochondrial genomes of the leguminous feedstock tree Pongamia pinnata. PLoS ONE 7: e51687

92. Lorenc MT, Hayashi S, Stiller J, Lee H, Manoli S, Ruperao P, Visendi P, Berkman PJ, Lai K, Batley J and Edwards D. 2012. Discovery of single nucleotide polymorphisms in complex genomes using SGSautoSNP. Biology 1: 370-382

93. Raman R, Taylor B, Marcroft S, Stiller J, Eckermann P, Coombes N, Rehman A, Lindbeck K, Luckett D, Wratten N, Batley J, Edwards D, Wang X and Raman H. 2012. Molecular mapping of qualitative and quantitative loci for resistance to Leptosphaeria maculans causing blackleg disease in canola (Brassica napus L.). Theoretical and Applied Genetics 125: 405-418

94. Hayward A, Mason A, Dalton Morgan J, Zander M, Edwards D and Batley J. 2012. SNP discovery and applications in Brassica napus. Journal of Plant Biotechnology 39: 1-12.

95. Lai K, Duran C, Berkman P, Lorenc M, Stiller J, Manoli S, Hayden M, Fleury D, Zander M, Mason A, Bauman U, Batley J and Edwards D. 2012. Single Nucleotide Polymorphism Discovery from Wheat Next Generation Sequence Data. Plant Biotechnology Journal 10:743-749

96. Hayward A, Vighnesh G, Delay C, Samian MR, Jiang Y, Manoli S, Stiller J, McKenzie M, Edwards D and Batley J. 2012. Next Generation Sequencing for Gene Homology Analysis in the Brassicaceae. Plant Biotechnology Journal. 10:750-759

97. Tollenaere R, Hayward A, Dalton-Morgan J, Campbell E, Lee JRM, Lorenc M, Manoli S, Stiller J, Raman R, Raman H, Edwards D and Batley J. 2012. Identification and characterisation of candidate Rlm4 blackleg resistance genes in Brassica napus using next generation sequencing. Plant Biotechnology Journal 10:709-715

98. Berkman PJ, Skarshewski A, Manoli S, Lorenc MT, Stiller J, Smits L, Lai K, Campbell E, Simkova H, Batley J, Dolezel J, Hernandez P and Edwards D. 2012. Delimiting a translocation between wheat chromosome arms 7BS and 4AL with second generation sequencing. Theoretical and Applied Genetics 124:423-432

99. Hayward A, McLanders J, Campbell E, Edwards D and Batley J. 2012. Genomic advances will herald new insights into the Brassica:Leptosphaeria maculans pathosystem. Plant Biology 14:1-10

2011

100. The Brassica rapa Genome Sequencing Project Consortium. 2011. The genome of the mesopolyploid crop species Brassica rapa. Nature Genetics 43:1035-1040

101. Berkman PJ, Skarshewski A, Lorenc MT, Lai K, Duran C, Ling EYS, Stiller J, Smits L, Imelfort M, Manoli S, McKenzie M, Kubalakova M, Simkova H, Batley J, Fleury D, Dolezel J and Edwards D. 2011. Sequencing and assembly of low copy and genic regions of isolated Triticum aestivum chromosome arm 7DS. Plant Biotechnology Journal 9: 768-775.

102. Koo DH, Hong CP, Batley J, Chung YS, Edwards D, Bang JW, PhD; Hur Y and Lim YP. 2011. Rapid Divergence of Repetitive DNAs in Brassica Relatives. Genomics 97: 173-185

2010

103. Duran C, Eales D, Marshall D, Imelfort M, Stiller J, Berkman P, Clark T, McKenzie M, Appleby N, Batley J, Basford K and Edwards D. 2010. Future tools for association mapping in crop plants. Genome 53: 1017-1023

104. Mun J, Kwon S, Seol Y, Kim J, Jin M, Kim J, Lim M, Lee S, Hong J, Park T, Lee S, Kim B, Seo M, Baek S, Lee M, Shin J, Hahn J, Hwang Y, Lim K, Park J, Lee J, Yang T, Yu H, Choi I, Choi B, Choi S, Ramchiary N, Lim Y, Fraser F, Drou N, Soumpourou E, Trick M, Bancroft I, Sharpe AG, Parkin IA, Batley J, Edwards D and Park B. 2010. Sequence and structure of Brassica rapa chromosome A3. Genome Biology, 11:R94

105. Marshall DJ, Hayward A, Eales D, Imelfort M, Stiller J, Berkman PJ, Clark T, McKenzie M, Lai K, Duran C, Batley J and Edwards D. 2010. Targeted identification of genomic regions using TAGdb. Plant Methods 6:19.

106. Duran C, Boskovic Z, Imelfort M, Batley J, Hamilton NA and Edwards D. 2010. CMap3D: A 3D visualisation tool for comparative genetic maps. Bioinformatics 26: 273-274

107. Edwards D and Batley J. 2010. Plant Genome Sequencing: Applications for Crop Improvement. Plant Biotechnology Journal 8: 2-9

2009

108. Kaur S, Cogan NOI, Ye G, Baillie RC, Hand ML, Ling AE, McGearey AK, Kaur J, Hopkins CJ, Todorovic M, Mountford H, Edwards D, Batley J, Burton W, Salisbury P, Gororo N, Marcroft S, Kearney G, Smith KF, Forster JW and Spangenberg GC. 2009. Genetic map construction and QTL mapping of resistance to blackleg (Leptosphaeria maculans) disease in Australian canola (Brassica napus L.) cultivars. Theoretical and Applied Genetics 120: 71-83

109. Batley J and Edwards D. 2009. Genome sequence data: management, storage and visualization. Biotechniques 46: 333-336

110. Duran C, Appleby N, Vardy M, Imelfort M, Edwards D and Batley J. 2009. Single Nucleotide Polymorphism Discovery in Barley using AutoSNPdb. Plant Biotechnology Journal 7: 326-333

111. Imelfort M, Duran C, Batley J and Edwards D. 2009. Discovering genetic polymorphisms in next generation sequencing data. Plant Biotechnology Journal. 7: 312-317

112. Duran C, Appleby N, Edwards D and Batley J. 2009. Molecular genetic markers: discovery, applications, data storage and visualisation. Current Bioinformatics 4: 16-27

113. Duran C, Appleby N, Clark T, Wood D, Imelfort M, Batley J and Edwards D. 2009. AutoSNPdb: An Annotated Single Nucleotide Polymorphism Database for Crop Plants. Nucleic Acids Research 37: 951–953

2007

114. Batley J, Hopkins CJ, Cogan NOI, Hand M, Jewell E, Kaur J, Kaur S, Li X, Ling AE, Love C, Mountford H, Todorovic M, Vardy M, Walkiewicz M, Spangenberg GC and Edwards D. 2007. Identification and characterisation of Simple Sequence Repeat (SSR) markers from Brassica napus expressed sequences. Molecular Ecology Notes 7: 886–889

115. Choi SR, Teakle GR, Plaha P, Kim JH, Allender CJ, Beynon E, Piao ZY, Soengas P, Han TH, King GJ, Barker GC, Hand P, Lydiate DJ, Batley J, Edwards D, Koo DH, Bang JW, Park B-S and Lim YP. 2007. The reference genetic linkage map for the multinational Brassica rapa genome sequencing project. Theoretical and Applied Genetics 115:777-792

116. Lim GAC, Jewell EG, Li X, Erwin TA, Love C, Batley J, Spangenberg G and Edwards D. 2007.. A Comparative Map Viewer Integrating Genetic Maps for Brassica and Arabidopsis. BMC Plant Biology 7:40

117. Hong CP, Piao ZY, Kang TW, Batley J, Yang T-J, Hur Y-K, Bhak J, Edwards D and Lim YP. 2007. Genomic distribution of Simple Sequence Repeats in Brassica rapa. Mol. Cells 23: 349-356

118. Hopkins CJ, Cogan NOI, Hand M, Jewell E, Kaur J, Li X, Lim GAC, Ling AE, Love C, Mountford H, Todorovic M, Vardy M, Spangenberg GC, Edwards D and Batley J. 2007. Sixteen new simple sequence repeat markers from Brassica juncea expressed sequences and their cross-species amplification. Molecular Ecology Notes 7: 697-700

119. Ling AE, Kaur J, Burgess B, Hand M, Hopkins CJ, Li X, Love CG, Vardy M, Walkiwiecz M, Spangenberg G, Edwards D and Batley J. 2007. Characterisation of Simple Sequence Repeat markers derived in silico from Brassica rapa Bacterial Artificial Chromosome sequences and their application in Brassica napus. Molecular Ecology Notes 7: 273-277

120. Erwin T, Jewell E, Love C, Lim G, Li X, Chapman R, Batley J, Stajich J, Mongin E, Stupka E, Ross B, Spangenberg G and Edwards D. 2007. BASC: an integrated bioinformatics system for Brassica research. Nucleic Acids Research 35: D870–D873

2006

121. Iglesias-Rodrieguez MD, Probert I and Batley J. 2006. Microsatellite cross amplification in coccolithophores: application in population diversity studies. Hereditas 143: 99-102

122. Burgess B, Mountford H, Hopkins CJ, Love C, Ling AE, Spangenberg G, Edwards D and Batley J. 2006. Identification and characterisation of Simple Sequence Repeat (SSR) markers derived in silico from Brassica oleracea genome shotgun sequences. Molecular Ecology Notes 6: 1191-1194

123. Jewell E, Robinson A, Savage D, Erwin T, Love CG, Lim GAC, Li X, Batley J, Spangenberg GC and Edwards D. 2006. SSR Primer and SSR Taxonomy Tree: Biome SSR discovery. Nucleic Acids Research 34: W656–W659

124. Iglesias-Rodriguez MD, Schofield OM, Batley J, Medlin LK and Hayes PK. 2006. Extensive intraspecific genetic diversity in the marine coccolithophorid Emiliania huxleyi: the use of microsatellite analysis in marine phytoplankton population studies. Journal of Phycology 42: 526-536

125. Keniry A, Hopkins CJ, Jewell E, Morrison B, Spangenberg GS, Edwards D and Batley J. 2006. Identification and characterisation of Simple Sequence Repeat (SSR) markers from Fragaria x ananassa expressed sequences. Molecular Ecology Notes 6: 319-322

126. Sexton A, Cozijnsen A, Keniry A, Logan E, Love C, Batley J, Edwards D and Howlett B. 2006. Transcription profile of genes from three developmental stages of the plant pathogen Sclerotinia sclerotiorum. FEMS Microbiology Letters 258: 150-160

127. Love C, Logan E, Erwin T, Kaur J, Lim GAC, Hopkins C, Batley J, James N, May S, Spangenberg G and Edwards D. 2006. Integrating and interrogating diverse Brassica data within an EnsEMBL structured database. Acta Hort. 706: 77-82

128. Hopkins C, Mogg R, Gororo N, Salisbury PA, Burton WA, Love C, Spangenberg GC, Edwards D and Batley J. 2006. An assessment of genetic diversity within and between Brassica napus and Brassica juncea lines from international germplasm collections. Acta Hort. 706: 115-119

2005

129. Love C, Robinson A, Lim G, Hopkins C, Batley J, Barker G, Spangenberg G and Edwards D. 2005. Brassica ASTRA: An Integrated Database for Brassica Genomic Research. Nucleic Acids Research 33: W493-W495

130. Savage D, Batley J, Erwin T, Logan E, Love CG, Lim GAC, Mongin E, Barker GLA, Spangenberg GC and Edwards D. 2005. SNPServer: A Realtime SNP Discovery tool. Nucleic Acids Research 33: D656-D659

131. Mortimer J, Batley J, Love C, Logan E and Edwards D. 2005. Simple Sequence Repeat (SSR) and GC distribution in the Arabidopsis thaliana genome. Journal of Plant Biotechnology 7: 17-25

2004

132. Edwards D and Batley J. 2004. Plant Bioinformatics: From Genome to Phenome. Trends in Biotechnology 22: 232-237

133. Love CG, Batley J, Lim G, Robinson AJ, Savage D, Singh D, Spangenberg GC, and Edwards D. 2004. New computational tools for Brassica genome research. Comparative and Functional Genomics 5: 276-280

134. Robinson AJ, Love CG, Batley J, Barker G and Edwards D. 2004. Simple Sequence Repeat Marker Loci Discovery using SSR Primer. Bioinformatics 20: 1475-1476

135. Batley J, Barker JHA, Dawson K, Edwards KJ, Wiltshire CW, Glen DM and Karp A. 2004. Microsatellite analysis of populations of the blue and brassy willow beetles, Phyllodecta vulgatissima and P. vitellinae, from UK willow plantations. Insect Molecular Biology 13: 413-421

136. Peacock L, Batley J, Dungait J, Barker JHA and Karp A. 2004. A comparative study of interspecies mating of Phratora vulgatissima and P. vitellinae using behavioural tests and molecular markers. Entomologia experimentalis et applicata 110: 231-241

2003

137. Love CG, Batley J and Edwards D. 2003. Applied Computational Tools for Crop Genome Research. Journal of Plant Biotechnology 5: 193-195

138. Batley J, Barker G, O'Sullivan H, Edwards KJ and Edwards D. 2003. Mining for Single Nucleotide Polymorphisms and Insertions/Deletions in Maize Expressed Sequence Tag Data. Plant Physiology 132: 84-91

139. Batley J, Mogg R, Edwards D, O’Sullivan H and Edwards KJ. 2003. A high-throughput SNuPE assay for genotyping SNPs in the flanking regions of Zea mays sequence tagged simple sequence repeats. Molecular Breeding 11: 111-120

140. Batley J and Hayes P. 2003. Development of high throughput single nuceltoide polymorphism genotyping for the analysis of Nodularia (Cyanobacteria) population genetics. Journal of Phycology 39: 248-252.

141. Tommasini L, Batley J, Arnold G, Cooke RG, Donini P, Lee D, Law J, Moule C, Trick M, and Edwards KJ. 2003. Application of fluorescence-based automated sizing of Multiplex Simple Sequence Repeats (SSR) marker sets for Testing Distinctness and Uniformity of Brassica napus L. Varieties. Theoretical and Applied Genetics 106: 1091-1101

142. Barker G, Batley J, O'Sullivan H, Edwards KJ and Edwards D. 2003. Redundancy Based Detection of Sequence Polymorphisms in Expressed Sequence Tag Data using AutoSNP. Bioinformatics 19: 421-422

2002

143. Mogg R, Batley J, Hanley S, Edwards D, O’Sullivan H and Edwards KJ. 2002. Characterisation of the flanking regions of Zea Mays microsatellites reveals a large number of useful sequence polymorphisms. Theoretical and Applied Genetics 105: 532-543

144. Iglesias-Rodríguez D, Garcia Sáez A, Groben R, Edwards KJ, Batley J, Medlin LK, and Hayes PK. 2002. Polymorphic microsatellite loci in global populations of the marine coccolithophorid Emiliania huxleyi. Molecular Ecology Notes 2: 495-497

145. Edwards D, Stevenson D, Forsyth A, Hegarty M, Batley J, Holdsworth M and Edwards KJ. 2002. Identification of transposon-tagged maize genes displaying homology to arrayed cDNA clones using Mutator insertion display. Genome letters 1: 48-55

146. Hayes PK, Barker GLA, Batley J, Beard SJ, Handley BA, Vacharapiyasophon P and Walsby AE. 2002. Genetic diversity within populations of cyanobacteria assessed by analysis of single filaments. Antonie van Leeuwenhoek 81: 197-202

147. Edwards D, Coghill J, Batley J, Holdsworth M and Edwards KJ. 2002. Amplification and detection of transposon insertion flanking sequences using fluorescent MuAFLP. Biotechniques 32: 1090-1097

1998

148. Batley J, Edwards KJ, Wiltshire CW, Glen D and Karp A. 1998. The isolation and characterisation of microsatellite loci in the willow beetles Phyllodecta vulgatissima (L.) and P. vitellinae (L.). Mol Ecol 7: 1434-1436.