Publications list
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Genome sequence of the metazoan plant-parasitic nematode Meloidogyne incognita. Nature Biotechnology. 26:909-915.
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2008.
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2008.
Contribution of gut microbial lysine to liver and milk amino acids in lactating does. British Journal of Nutrition. 100:977-983.
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2008.
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2009.
Predicting alcohol yield from UK soft winter wheat for grain distilling: combined influence of hardness and nitrogen measurements. Journal of the Institute of Brewing. 115:183-190.
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2009.
A fully recombinant ELISA using in vivo biotinylated antibody fragments for the detection of Potato leaf roll virus. Journal of Virological Methods. 159:200-205.
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2009.
Investigating the inhibitory activity of green coffee and cacao bean extract on pancreatic lipase. Nutrition Bulletin. 35:207-212.
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2010.
Effect of dietary copper deficiency on iron metabolism in the pregnant rat. British Journal of Nutrition. 97:239-246. Abstract
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2007.
Nitrogen use efficiency. 3. Nitrogen fixation: genes and costs. Annals of Applied Biology. 155:1-13.
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2009.
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2007.
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2007.
Segregation and recombination of a multipartite mitochondrial DNA in populations of the potato cyst nematode Globodera pallida. Journal of Molecular Evolution. 64:689-701. Abstract
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2007.
An ancestral oomycete locus contains late blight avirulence gene Avr3a, encoding a protein that is recognised in the host cytoplasm. Proceedings of the National Academy of Sciences, USA. 102:7766-7771. Abstract
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2005.
Evaluating soil stabilisation by biological processes using step-wise aggregate fractionation. Soil and Tillage Research. 102:209-215.
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2009.
A novel Phytophthora infestans haustorium-specific membrane protein is requred for infection of potato. Cellular Microbiology. 10:2271-2284. Abstract
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2008.
The NuGO proof of principle study package: a collaborative research effort of the European Nutrigenomics Organisation. Genes and Nutrition. 3:147-151.
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2008.
Long-term trends in hydro-climatology of a major Scottish mountain river. Science of the Total Environment. 407:4633-4641.
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2009.
Turnover of carbon, nitrogen and sulfur in bovine longissimus dorsi and psoas major muscles: Implications for isotopic authentication of meat. Journal of Animal Science. 87:905-913.
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2009.
Seasonal variation in the C, N and S stable isotope composition of retail organic and conventional Irish beef. Food Chemistry. 106:1299-1305. Abstract
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2008.
Trans-species polymorphism and selection in the MHC class II DRA genes of domestic sheep. PLoS One. 5:-e11402.
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2010.
Quantitative image analysis of earthworm-mediated soil displacement. Biology and Fertility of Soils. 45:821-828.
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2009.
A critical review of current methods in earthworm ecology: From individuals to populations (Review). European Journal of Soil Biology. 46:67-73.
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2010.
The development of immune responses in Balb/c mice following inoculation with attenuated or virulent Neospora caninum tachyzoites. Parasite Immunology. 31:392-401.
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2009.
Investigating the behavioural and physiological indicators of neonatal survival in pigs. Theriogenology. 69:773-783. Abstract
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2008.
Regression analysis of spatial data. Ecology Letters. 13:246-264.
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2010.
Allometry and stoichiometry of unicellular, colonial and multicellular phytoplankton. New Phytologist. 181:295-309.
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2009.
Aorta protein networks in marginal and acute zinc deficiency. Proteomics. 8:2126-2135. Abstract
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2008.
Critical issues in trace gas biogeochemistry and global change. Philosophical Transactions of the Royal Society A - Mathematical Physical and Engineering Sciences. 365:1629-1642. Abstract
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2007.
Modelling the persistence of volunteer oilseed rape (Brassica napus). Ecological Modelling. 198:195-207. Abstract
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2006.
Sources of uncertainty in the quantification of genetically modified oilseed rape contamination in seed lots. Transgenic Research. 16:51-63. Abstract
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2007.
Impact of pH on lactate formation and utilization by human fecal microbial communities. Applied and Environmental Microbiology. 73:6526-6533. Abstract
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2007.
PIV as a method for quantifying root cell growth and particle displacement in confocal images. Microscopy Research and Technique. 73:27-36. Abstract
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2010.
Root responses to soil physical conditions; growth dynamics from field to cell. Journal of Experimental Botany. 57:437-447. Abstract
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2006.
F-actin dynamics in Neurospora crassa. Eukaryotic Cell. 9:547-557.
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2010.
The physiological basis of genotypic differences in nitrogen use efficiency in oilseed rape (Brassica napus L.). Field Crops Research. 119:365-373.
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2010.
Geographic determinants of reported human Campylobacter infections in Scotland. BMC Public Health. 10:-423.
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2010.
Soil compaction - N interactions in barley: Root growth and tissue composition. Soil and Tillage Research. 106:241-246.
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2010.
Trafficking arms: oomycete effectors enter host plant cells. Trends in Microbiology. 14:8-11. Abstract
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2006.
Towards understanding the virulence functions of RXLR effectors of the oomycete plant pathogen Phytophthora infestans (Review). Journal of Experimental Botany. 60:1133-1140.
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2009.
Liming upland grassland: The effects on earthworm communities and the chemical characteristics of carbon in casts. European Journal of Soil Science. 59:526-531. Abstract
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2008.
Mutagenesis and functional characterisation of the RNA and protein components of the toxIN abortive infection and toxin-antitoxin locus of Erwinia. Journal of Bacteriology. 191:6029-6039.
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2009.
Mandipropamid targets the cellulose synthase-like PiCesA3 to inhibit cell wall biosynthesis in the oomycete plant pathogen, Phytophthora infestans. Molecular Plant Pathology. 11:227-243.
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2010.
Effects on weed and invertebrate abundance and diversity of herbicide management in genetically modified herbicide-tolerant winter-sown oilseed rape. Proceedings of the Royal Society of London, Series B. 272:463-474. Abstract
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2005.
Statistical models to evaluate invertebrate-plant trophic interactions in arable systems. Bulletin of Entomological Research. 97:265-280. Abstract
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2007.
Burkholderia species are ancient symbionts of legumes. Molecular Ecology. 19:44-52.
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2010.
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2006.
Phytophthora infestans effector AVR3a is essential for virulence and manipulates plant immunity by stabilizing host E3 ligase CMPG1. Proceedings of the National Academy of Sciences, USA. 107:9909-9914.
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2010.
Biochemical properties and biodegradation of dissolved organic matter from soils. Biology and Fertility of Soils. 45:733-742. Abstract
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2009.
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2007.
Evidence of neutral transcriptome evolution in plants. New Phytologist. 180:587-593. Abstract
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2008.
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2010.
Eats roots and leaves. Can edible horticultural crops address dietary calcium, magnesium and potassium deficiencies? Proceedings of the Nutrition Society. 69:601-612.
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2010.
Tansley Review. Zinc in plants. New Phytologist. 173:677-702. Abstract
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2007.
An efficient procedure for normalising ionomics data for Arabidopsis thaliana. New Phytologist. 186:270-274.
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2010.
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2008.
Shoot zinc (Zn) concentration varies widely within Brassica oleracea L. and is affected by soil Zn and phosphorus (P) levels. Journal of Horticultural Science & Biotechnology. 85:375-380.
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2010.
Invertebrate biodiversity in maize following withdrawal of triazine herbicides. Proceedings of the Royal Society of London, Series B. 272:1497-1502. Abstract
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2005.
Arabidopsis nucleolar protein database (AtNoPDB). Nucleic Acids Research. 33:D633-D636.
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2005.
The effects of host age on follicular dendritic cell status dramatically impair scrapie agent neuroinvasion in aged mice. Journal of Immunology. 183:5199-5207.
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2009.
The prevalence of bovine viral diarrhoea virus infection in beef suckler herds in Scotland. Veterinary Journal. 186:226-231.
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2010.
The effects of soil horizons and faunal excrement on bacterial distribution in an upland grassland soil. FEMS Microbiology Ecology. 52:139-144. Abstract
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2005.
Model averaging to combine simulations of future global vegetation carbon stocks. Environmetrics. 20:791-811.
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2009.
DRASTIC-INSIGHTS: Querying information in a plant gene expression database. Nucleic Acids Research. 34:D712-D716. Abstract
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2006.
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2005.
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2008.
Subcellular distribution of mutant movement proteins of Cucumber mosaic virus fused to green fluorescent proteins. Journal of General Virology. 86:1223-1228. Abstract
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2005.
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2007.
Asynchronous and synchronous updating in individual-based models. Ecological Modelling. 212:522-527. Abstract
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2008.
How might we model an ecosystem? Ecological Modelling. 220:1935-1949.
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2009.
Microsatellite markers for raspberry and blackberry. Journal of the American Society for Horticultural Science. 135:271-278.
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2010.
The photoreversible fluorescent protein iLOV outperforms GFP as a reporter of plant virus infection. Proceedings of the National Academy of Sciences, USA. 105:20038-20043. Abstract
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2008.
New tools for in vivo fluorescence tagging. Current Opinion in Plant Biology. 8:565-573. Abstract
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2005.
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2008.
An eQTL analysis of partial resistance to Puccinia hordei in barley. PLoS One. 5:-e8598.
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2010.
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2006.
Preharvest application of exogenous abscisic acid (ABA) or an ABA analogue does not affect endogenous ABA concentration of onion bulbs. Plant Growth Regulation. 52:117-129. Abstract
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2007.
The effect of the transition between controlled atmosphere and regular atmosphere storage on bulbs of onion cultivars SS1, Carlos and Renate. Postharvest Biology and Technology. 44:228-239. Abstract
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2007.
The effect of 1-methylcyclopropene (1-MCP) on the physical and biochemical characteristics of onion cv. SS1 bulbs during storage. Postharvest Biology and Technology. 44:131-140. Abstract
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2007.
Advances in imaging RNA in plants. Trends in Plant Science. 15:196-203.
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2010.
Insect endosymbionts: manipulators of insect herbivore trophic interactions? Protoplasma. 244:25-51.
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2010.
Movement of newly assimilated 13C carbon in the grass Lolium perenne and its incorporation into rhizosphere microbial DNA. Rapid Communications in Mass Spectrometry. 24:535-540.
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2010.
Exudation of alcohol and aldehyde sugars from roots of defoliated Lolium perenne L. grown under sterile conditions. Journal of Chemical Ecology. 34:1411-1421. Abstract
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2008.
Development and implementation of high-throughput SNP genotyping in barley. BMC Genomics. 10:-582.
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2009.
Colon-available raspberry polyphenols exhibit anti-cancer effects on in vitro models of colon cancer. Journal of Carcinogenesis. 6:1-13. Abstract
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2007.
Biopython: freely available Python tools for computational molecular biology and bioinformatics. Bioinformatics. 25:1422-1423.
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2009.
The Sanger FASTQ file format for sequences with quality scores, and the Solexa/Illumina FASTQ variants. Nucleic Acids Research. 38:1767-1771.
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2010.
Evolution of relative reading frame bias in unidirectional prokaryotic gene overlaps. Molecular Biology and Evolution. 27:753-756.
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2010.
Ozone and life on the Archaean earth. Philosophical Transactions of the Royal Society A - Mathematical Physical and Engineering Sciences. 365:1889-1901. Abstract
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2007.
Darwin - a mission to detect and search for life on extrasolar planets. Astrobiology. 9:1-22.
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2009.
Genome-wide association mapping of morphological traits to candidate gene resolution in the un-sequenced barley genome. Proceedings of the National Academy of Sciences, USA. 107:21611-21616.
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2010.
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2009.
Mapping adaptation of barley to droughted environments. Euphytica. 161:35-45. Abstract
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2008.
Identification of a new quorum-sensing-controlled virulence factor in Erwinia carotovora subsp. atroseptica secreted via the type II targeting pathway. Molecular Plant-Microbe Interactions. 18:334-342. Abstract
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2005.
Estimating the annual number of breeding attempts from breeding dates using mixture models. Ecology Letters. 12:1184-1193.
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2009.
DsbA plays a critical and multifaceted role in the production of secreted virulence factors by the phytopathogen, Erwinia carotovora subsp. atroseptica. Journal of Biological Chemistry. 283:23739-23753. Abstract
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2008.
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2009.
Development and validation of gas chromatography and real-time quantitative PCR for the quantification of landscape-scale gene flow from varieties of high erucic acid (HEAR) oilseed rape. Journal of the Science of Food and Agriculture. 88:2253-2264. Abstract
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2008.
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2007.
Detection of the nec1 virulence gene and its correlation with pathogenicity in Streptomyces species on potato tubers and in soil using conventional and realtime PCR. Journal of Applied Microbiology. 102:1082-1094. Abstract
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2007.
Nodulation of Sesbania species by Rhizobium (Agrobacterium) strain IRBG74 and other Rhizobia. Environmental Microbiology. 11:2510-2525.
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2009.
Digestion and transportation of bovine spongiform encephalopathy-derived prion protein in the sheep intestine. Journal of General Virology. 91:3116-3123.
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2010.
Characterisation and time course of pulmonary lesions in calves after intratracheal infection with Pasteurella multocida A:3. Journal of Comparative Pathology. 142:157-169.
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2010.
Use of host population reduction to control wildlife infection: rabbits and paratuberculosis. Epidemiology and Infection. 137:131-138.
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2009.
Effects of host social hierarchy on disease persistence. Journal of Theoretical Biology. 253:424-433. Abstract
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2008.
Modulation of fructokinase activity of potato (Solanum tuberosum) results in substantial shifts in tuber metabolism. Plant and Cell Physiology. 46:1103-1115. Abstract
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2005.
Does biotechnology have a role in the promotion of underutilised crops? Food Policy. 34:319-328.
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2009.
Genome sequence of Pantoea ananatis LMG20103, the causative agent of Eucalyptus blight and dieback. Journal of Bacteriology. 192:2936-2937.
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2010.
Potential of multi-objective models for risk-based mapping of the resilience characteristics of soils: demonstration at a national level. Soil Use and Management. 25:66-77.
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2009.
Characterisation of flow paths and saturated conductivity in a soil block in relation to chloride breakthrough. Journal of Hydrology. 348:431-441. Abstract
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2008.
Linking rhizoplane pH and bacterial density at the microhabitat scale. Journal of Microbiological Methods. 76:101-104.
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2009.
Comparison of three alternative methods for analysis of equine faecal egg count reduction test data.. Preventive Veterinary Medicine. 93:316-323.
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2010.
Phytophthora captiosa sp. nov and Phytophthora fallax sp. nov causing crown dieback of Eucalyptus in New Zealand. Mycological Research. 110:393-404. Abstract
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2006.
Measurement at the field scale of soil . Rapid Communications in Mass Spectrometry. 24:511-518.
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2010.
Root system architecture: opportunities and constraints for genetic improvement of crops. Trends in Plant Science. 12:474-481. Abstract
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2007.
Nodulation and nitrogen fixation by Mimosa spp. in the Cerrado and Caatinga biomes of Brazil. New Phytologist. 186:934-946.
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2010.
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2008.
Expression quantitative trait loci analysis in plants. Plant Biotechnology Journal. 8:10-27.
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2010.
Exploiting induced variation to dissect quantitative traits in barley. Biochemical Society Transactions. 38:683-688.
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2010.
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2008.
Expression profiling of potato germplasm differentiated in quality traits leads to the identification of candidate flavour and texture genes. Journal of Experimental Botany. 59:4219-4231. Abstract
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2008.
Agrobacterium-mediated transformation of Solanum phureja. Plant Cell Reports. 24:10-14. Abstract
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2005.
Human colonic microbiota associated with diet, obesity and weight loss. International Journal of Obesity. 32:1720-1724.
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2008.
Coordination of plant cell division and expansion in a simple morphogenetic system. Proceedings of the National Academy of Sciences, USA. 107:2711-2716.
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2010.
CD21 B cell populations are altered following subcutaneous scrapie inoculation in sheep. Veterinary Immunology and Immunopathology. 131:105-109.
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2009.
Closure threat to key museum research facility. Nature. 465:-1005.
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2010.
Translocation of 15N indicates nitrogen recycling in the mat-forming lichen Cladonia portentosa. New Phytologist. 168:423-434. Abstract
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2005.
Interring species interaction networks from species abundance data: A comparative evaluation of various statistical and machine learning methods. Ecological Informatics. 5:451-464.
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2010.
Three-dimensional microorganisation of the soil-root-microbe system. Microbial Ecology. 52:151-158. Abstract
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2006.
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2006.
The attack of the clones: tracking the movement of insecticide-resistant peach-potato aphids Myzus persicae (Hemiptera: Aphididae). Bulletin of Entomological Research. 95:483-494. Abstract
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2005.
Reproductive performance of asexual clones of the peach-potato aphid (Myzus persicae, Homoptera: Aphididae) colonising Scotland in relation to host plant and field ecology. Bulletin of Entomological Research. 100:451-460.
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2010.
Phytoplankton in a changing world: Cell size and elemental stoichiometry. Journal of Plankton Research. 32:119-137.
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2010.
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2006.
Is the growth rate hypothesis applicable to microalgae? Journal of Phycology. 46:1-12.
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2010.
Does light exposure make plant litter more degradable? Plant and Soil. 333:275-285.
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2010.
Stability of resistance to Phytophthora infestans in potato: an international evaluation. Plant Pathology. 54:364-372. Abstract
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2005.
Evaluating energy intake measurement in free-living subjects: when to record and for how long? Public Health Nutrition. 13:172-180.
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2010.
A passive sampling method for radiocarbon analysis of soil respiration using molecular sieve. Soil Biology & Biochemistry. 41:1450-1456. Abstract
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2009.
Profiling of phenols in human faecal water after raspberry supplementation. Journal of Agricultural and Food Chemistry. 58:10389-10395.
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2010.
Physiological responses of the green alga Dunaliella parva (Volvocales, Chlorophyta) to controlled incremental changes in the N source. Functional Plant Biology. 34:925-934. Abstract
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2007.
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2005.
Automated saccharification assay for determination of digestibility in plant materials. Biotechnology for Biofuels. 3:-23.
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2010.
Cucumber mosaic virus 2b protein subcellular targets and interactions: Their significance to RNA silencing suppressor activity. Molecular Plant-Microbe Interactions. 23:294-303.
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2010.
Three-dimensional modelling of chick embryo eye development and growth using high resolution magnetic resonance imaging. Experimental Eye Research. 89:511-521.
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2009.
Recovery of nitrogen from different sources following applications to winter wheat at and after anthesis. Field Crops Research. 100:143-154.
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2007.
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2005.
Factors affecting the incidence and severity of Spongospora subterranea infection and galling in potato roots. Plant Pathology. 56:1005-1013. Abstract
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2007.
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2007.
The hydrological response of heavy clay grassland soils to rainfall in south-west England using . Rapid Communications in Mass Spectrometry. 24:475-482.
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2010.
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2009.
Tillage-induced environmental conditions in soil and substrate limitation determine biogenic gas production. Soil Biology & Biochemistry. 38:2614-2628. Abstract
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2006.
Root phenomics of crops - opportunities and challenges. Functional Plant Biology. 36:922-929.
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2009.
Physical resilience of soil to field compaction and the interactions with plant growth and microbial community structure. European Journal of Soil Science. 58:1221-1232. Abstract
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2007.
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2009.
Elevated amino acid biosynthesis in Phytophthora infestans during appressorium formation and potato infection. Fungal Genetics and Biology. 42:244-256. Abstract
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2005.
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2008.
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2010.
Biological and physical resilience of soil amended with heavy metal-contaminated sewage sludge. European Journal of Soil Science. 56:197-206. Abstract
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2005.
Functional resilience of soil microbial communities depends on both soil structure and microbial community composition. Biology and Fertility of Soils. 44:745-754. Abstract
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2008.
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2010.
Soil microbial and faunal community responses to Bt maize and insecticide in two soils. Journal of Environmental Quality. 35:734-741. Abstract
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2006.
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2008.
Modelling non-stationary gene regulatory processes with a non-homogeneous Bayesian network and the allocation sampler. Bioinformatics. 24:2071-2078. Abstract
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2008.
Improving the structure MCMC sampler for Bayesian networks by introducing a new edge reversal move. Machine Learning. 71:265-305. Abstract
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2008.
Microbial community structure in soils with decomposing residues from plants with genetic modifications to lignin biosynthesis. FEMS Microbiology Letters. 263:68-75. Abstract
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2006.
Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans. Nature. 461:393-398.
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2009.
TetraploidMap for Windows: Linkage map construction and QTL mapping in autotetraploid species. Journal of Heredity. 98:727-729. Abstract
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2007.
Describing soil crack formation using elastic-plastic fracture mechanics. European Journal of Soil Science. 56:31-38. Abstract
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2005.
Disentangling the impact of AM fungi versus roots on soil structure and water transport. Plant and Soil. 314:183-196. Abstract
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2009.
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2006.
Sucrose transport in the phloem; integrating root responses to phosphorus starvation. Journal of Experimental Botany. 59:93-109. Abstract
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2008.
Shoot yield drives phosphorus use efficiency in Brassica oleracea and correlates with root architecture traits. Journal of Experimental Botany. 60:1953-1965.
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2009.
Biomechanics of plant roots: estimating localised deformation with particle image velocimetry. Biosystems Engineering. 94:119-132. Abstract
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2006.
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2009.
The response of organic matter mineralisation to nutrient and substrate additions in subarctic soils. Soil Biology & Biochemistry. 42:92-100.
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2010.
Soil microbial respiration in arctic soil does not acclimate to temperature. Ecology Letters. 11:1092-1100. Abstract
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2008.
No evidence for compensatory thermal adaptation of soil microbial respiration in the study of Bradford et al. (2008). Ecology Letters. 12:E12-E14.
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2009.
Soil fauna-microbe interactions: towards a conceptual framework for research. European Journal of Soil Biology. 42:S54-S60. Abstract
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2006.
Two plant-viral movement proteins traffic in the endocytic recycling pathway. Plant Cell. 17:164-181. Abstract
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2005.
Nucleolar localisation of Potato leafroll virus capsid proteins. Journal of General Virology. 86:2891-2896. Abstract
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2005.
Functional approaches for assessing plant and invertebrate abundance patterns in arable systems. Basic and Applied Ecology. 10:34-42. Abstract
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2009.
Arable plant communities as indicators of farming practice. Agriculture, Ecosystems and Environment. 138:17-26.
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2010.
Effects of successive seasons of genetically modified herbicide-tolerant maize cropping on weeds and invertebrates. Annals of Applied Biology. 149:249-254. Abstract
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2006.
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2010.
Response to Andrews et al.: Correlations and causality. Trends in Plant Science. 12:532-533. Abstract
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2007.
How do plants respond to nutrient shortage by biomass allocation? Trends in Plant Science. 11:610-617. Abstract
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2006.
The carbon footprints of food crop production. International Journal of Agicultural Sustainability. 7:107-118.
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2009.
Stomatal vs. genome size in angiosperms: The somatic tail wagging the genomic dog? Annals of Botany. 105:573-584.
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2010.
Genetically modified lignin belowground. Nature Biotechnology. 25:168-169. Abstract
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2007.
Enzymatic activities and microbial communities in an Antarctic dry valley soil: Responses to C and N supplementation. Soil Biology & Biochemistry. 40:2130-2136. Abstract
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2008.
Controls on the distribution of productivity and organic resources in Antarctic dry valley soils (Review). Proceedings of the Royal Society B. 273:2687-2695. Abstract
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2006.
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2009.
Isotopic evidence for the provenance and turnover of organic carbon by soil microorganisms in the Antarctic dry valleys. Environmental Microbiology. 11:597-608. Abstract
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2009.
Influence of available substrates on the decomposition in soil of plant materials with genetic modifications to lignin biosynthesis. European Journal of Soil Science. 57:495-503. Abstract
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2006.
The Spen family protein FPA controls alternative cleavage and polyadenylation of RNA. Developmental Cell. 18:203-213.
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2010.
Prevalence of Pasteurella multocida and other respiratory pathogens in the nasal tract of Scottish calves. Veterinary Record. 167:555-560.
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2010.
Centrifuge modelling of climatic effects on clay embankments. Proceedings of the Institution of Civil Engineers - Engineering Sustainability. 162:91-100.
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2009.
Immunogenicity of proteome-determined Mycobacterium avium subsp paratuberculosis-specific proteins in sheep with Paratuberculosis. Clinical and Vaccine Immunology. 15:1824-1833.
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2008.