To appear:

Category: "Refereed journal"

Dobson, P., Graham, J., Stewart, D., Brennan, R.M., Hackett, C.A. and McDougall, G. Over-seasons analysis of quantitative trait loci affecting raspberry phenolic content and composition. Journal of Agricultural and Food Chemistry.

Foito, A., Byrne, S., Hackett, C.A. and Stewart, D. Short-term response in leaf metabolism of perennial ryegrass (Lolium perenne) to alterations in nitrogen supply. Metabolomics.

Published:

Category: "Critical reviews in journals"

Hackett, C.A. (2002). Statistical methods for QTL mapping in cereals. Plant Molecular Biology (special edition) 48, 585-599.

Category: "Refereed journal"

MacKenzie, K. and Hackett, C.A. (2012). Association mapping in a simulated barley population. Euphytica 183(3), 337-347.

Graham, J., Hackett, C.A., Smith, K., Woodhead, M., MacKenzie, K., Tierney, I., Cooke, D.E.L., Bayer, M.M. and Jennings, N. (2011). Towards an understanding of the nature of resistance to Phytophthora root rot in red raspberry. Theoretical and Applied Genetics 123, 585-601.

Jiang, N., Wang, M., Jia, T., Leach, L., Hackett, C.A., Marshall, D. and Luo, Z.W. (2011). A robust statistical method for association-based eQTL analysis. PLoS ONE 6(8), e23192.

Russell, J.R., Bayer, M., Booth, C., Cardle, L., Hackett, C.A., Hedley, P.E., Jorgenson, L. and Brennan, R.M. (2011). Identification, utilisation and mapping of novel transcriptome-based markers from blackcurrant (Ribes nigrum). BMC Plant Biology 11(147), doi:10.1186/1471-2229-11-147.

Chen, X., Hackett, C.A., Niks, R.E., Hedley, P.E., Booth, C., Druka, A., Marcel, T.C., Vels, A., Bayer, M.M., Milne, I., Morris, J., Ramsay, L., Marshall, D., Cardle, L. and Waugh, R. (2010). An eQTL analysis of Partial Resistance to Puccinia hordei in Barley. PLoS ONE 5(1), e8598.

Hackett, C.A., Russell, J.R., Jorgensen, L., Gordon, S.L. and Brennan, R.M. (2010). Multi-environment QTL mapping in blackcurrant (Ribes nigrum L.) using mixed models. Theoretical and Applied Genetics 121(8), 1483-1488.

Hedley, P.E., Russell, J.R., Jorgensen, L., Gordon, S., Morris, J.A., Hackett, C.A., Cardle, L. and Brennan, R.M. (2010). Candidate genes associated with bud dormancy release in blackcurrant ( Ribes nigrum L.). BMC Plant Biology 10, 202.

McCallum, S., Woodhead, M., Hackett, C.A., Kassim, A., Paterson, A. and Graham, J. (2010). Genetic and environmental effects influencing fruit colour and QTL analysis in raspberry. Theoretical and Applied Genetics 121, 611-627.

Brennan, R.M., Jorgensen, L., Gordon, S., Loades, K., Hackett, C.A. and Russell, J.R. (2009). The development of a PCR-based marker linked to resistance to the blackcurrant gall mite (Cecidophyopsis ribis Acari: Eriophyidae). Theoretical and Applied Genetics 118(2), 205-211.

Comadran, J., Thomas, W.T.B., van Eeuwijk, F., Ceccarelli, S., Grando, S., Stanca, A.M., Pecchiono, N., Akar, T., Al-Yassin, A., Benbelkacem, A., Ouabbou, H., Bort, J., Romagosa, I., Hackett, C.A. and Russell, J.R. (2009). Patterns of genetic diversity and linkage disequilibrium in a highly structured Hordeum vulgare association-mapping population for the Mediterranean basin. Theoretical and Applied Genetics 119, 175-187.

Graham, J., Hackett, C.A., Smith, K., Woodhead, M., Hein, I. and McCallum, S. (2009). Mapping QTLs for developmental traits in raspberry from bud break to ripe fruit. Theoretical and Applied Genetics 118(6), 1143-1155.

Kassim, A., Poette, J., Paterson, A., Zait, D., McCallum, S., Woodhead, M., Smith, K., Hackett, C.A. and Graham, J. (2009). Environmental and seasonal influences on red raspberry anthocyanin antioxidant contents and identification of QTL. Molecular Nutrition & Food Research 53, 625-634.

Bradshaw, J.E., Hackett, C.A., Pande, B., Waugh, R. and Bryan, G.J. (2008). QTL mapping of yield, agronomic and quality traits in tetraploid potato (Solanum tuberosum subsp. tuberosum). Theoretical and Applied Genetics 116, 193-211.

Brennan, R.M., Jorgenson, L., Hackett, C.A., Woodhead, M., Gordon, S. and Russell, J.R. (2008). The development of a genetic linkage map of blackcurrant (Ribes nigrum L.) and the identification of regions associated with key fruit quality and agronomic traits. Euphytica 161(1-2), 19-34.

Comadran, J., Russell, J.R., van Eeuwijk, F., Ceccarelli, S., Grando, S., Stanca, A.M., Francia, E., Pecchiono, N., Akar, T., Al-Yassin, A., Benbelkacem, A., Choumane, W., Ouabbou, H., Bort, J., Araus, J-L., Pswarayi, A., Romogosa, I., Hackett, C.A. and Thomas, W.T.B. (2008). Mapping adaptation of barley to droughted environments. Euphytica 161(1-2), 35-45.

Griffiths, B.S., Caul, S., Thompson, J., Hackett, C.A., Cortet, J., Pernin, C. and Krogh, P.H. (2008). Soil microbial and faunal responses to herbicide tolerant maize and herbicide in two soils. Plant and Soil 308, 93-103.

Khu, D.-M., Lorenzen, J., Hackett, C.A. and Love, S.L. (2008). Interval mapping of quantitative trait loci for corky ringspot disease resistance in a tetraploid population of potato (Solanum tuberosum subsp. tuberosum). American Journal of Potato Research 85(2), 129-139.

Newton, A.C., Hackett, C.A. and Swanston, J.S. (2008). Analysing the contribution of component cultivars and cultivar combinations to malting quality, yield and disease in complex mixtures. Journal of the Science of Food and Agriculture 88, 2142-2152.

Hackett, C.A., Milne, I., Bradshaw, J.E. and Luo, Z.W. (2007). TetraploidMap for Windows: linkage map construction and QTL mapping in autotetraploid species. Journal of Heredity 98, 727-729.

Bradshaw, J.E., Hackett, C.A., Lowe, R., McLean, K., Stewart, H.E., Tierney, I., Vilaro, M. and Bryan, G.J. (2006). Detection of a quantitative trait locus for both foliage and tuber resistance to late blight [Phytophthora infestans (Mont.) de Bary] on chromosome 4 of a dihaploid potato clone (Solanum tuberosum subsp. tuberosum). Theoretical and Applied Genetics 113, 943-951.

Graham, J., Smith, K., Tierney, I., MacKenzie, K. and Hackett, C.A. (2006). Mapping gene H controlling cane pubescence in raspberry and its association with resistance to cane botrytis and spur blight, rust and cane spot. Theoretical and Applied Genetics 112, 818-831.

Griffiths, B.S., Caul, S., Thompson, J., Birch, A.N.E., Scrimgeour, C.M., Cortet, J., Foggo, A., Hackett, C.A. and Krogh, P.H. (2006). Soil microbial and faunal community responses to Bt maize and insecticide in two soils. Journal of Environmental Quality 35, 734-741.

Nevo, E., Beharav, A., Meyer, R.C., Hackett, C.A., Forster, B.P., Russell, J.R. and Powell, W. (2005). Genomic microsatellite adaptive divergence of wild barley by microclimatic stress in 'Evolution canyon', Israel. Biological Journal of the Linnean Society 84, 205-224.

Bradshaw, J.E., Pande, B., Bryan, G.J., Hackett, C.A., McLean, K.F. and Stewart, H.E. (2004). Interval mapping of quantitative trait loci for resistance to late blight (Phytophthora infestans (Mont.) de Bary), height and maturity in a tetraploid population of potato(Solanum tuberosum subsp. tuberosum). Genetics 168, 983-995.

Bradshaw, J.E., Bryan, G.J., Hackett, C.A., McLean, K.F., Pande, B., Stewart, H.E. and Waugh, R. (2004). Dissection and analysis of quantitative disease resistance in tetraploid potato. Euphytica 137, 13-18.

Bruce, A., Verrall, S.R., Hackett, C.A. and Wheatley, R.E. (2004). Identification of volatile organic compounds (VOCs) from bacteria and yeast causing growth inhibition of sapstain fungi. Holzforschung 58, 193-198.

Bryan, G.J., McLean, K.F., Pande, B., Purvis, A., Hackett, C.A., Bradshaw, J.E. and Waugh, R. (2004). Genetical dissection of H3-mediated polygenic PCN resistance in a heterozygous autotetraploid potato population. Molecular Breeding 14, 105-116.

Graham, J., Smith, K., MacKenzie, K., Jorgenson, L., Hackett, C.A. and Powell, W. (2004). The construction of a genetic linkage map of red raspberry (Rubus idaeus var. idaeus) based on AFLPs, genomic-SSR and cDNA- SSR markers. Theoretical and Applied Genetics 109, 740-749.

Newton, A.C., Hackett, C.A., Lowe, R. and Wale, S.J. (2004). Relationship between canopy reflectance and yield loss due to disease in barley. Annals of Applied Biology 145, 95-106.

Durban, M.L., Hackett, C.A., McNicol, J.W., Newton, A.C., Thomas, W.T.B. and Currie, I.D. (2003). The practical use of semiparametric models in field trials. Journal of Agricultural, Biological, and Environmental Statistics 8, 48-66.

Hackett, C.A. and Broadfoot, L.B. (2003). The effects of genotyping errors, missing values, and segregation distortion in molecular marker data on the construction of linkage maps. Heredity 90, 33-38.

Hackett, C.A., Pande, B. and Bryan, G.J. (2003). Constructing linkage maps in autotetraploid species using simulated annealing. Theoretical and Applied Genetics 106, 1107-1115.

Hackett, C.A. and Luo, Z.W. (2003). TetraploidMap: construction of a linkage map in autotetraploid species. Journal of Heredity 94, 358-359.

Hackett, C.A. (2002). Response to K. W. Broman and T. S. Speed: A model selection approach for the identification of quantitative trait loci in experimental crosses. Journal of the Royal Statistical Society, Series A 64, 737-775.

Ivandic, V., Hackett, C.A., Nevo, E., Thomas, W.T.B., Keith, R. and Forster, B.P. (2002). Analysis of simple sequence repeats (SSRs) in wild barley from the Fertile Crescent: associations with ecology, geography and flowering time. Plant Molecular Biology 48, 511-527.

Hackett, C.A., Meyer, R.C. and Thomas, W.T.B. (2001). Multitrait QTL mapping in barley using multivariate regression. Genetical Research 77, 95-106.

Hackett, C.A., Bradshaw, J.E. and McNicol, J.W. (2001). Interval mapping of QTLs in autotetraploid species. Genetics 159, 1819-1832.

Hackett, C.A. (2001). A comment of XIE and XU: 'mapping quantitive trait loci in tetraploid species. Genetical Research 78, 187-189.

Luo, Z.W., Hackett, C.A., Bradshaw, J.E., McNicol, J.W. and Milbourne, D.M. (2001). Construction of a genetic linkage map in tetraploid species using microsatellite markers. Genetics 157, 1369-1385.

Newton, A.C., Searle, J., Hackett, C.A. and Cooke, D.E.L. (2001). Variability in pathotype, aggressiveness, RAPD profile, and rDNA ITS1 sequences of UK isolates of Rhynchosporium secalis. Journal of Plant Disease and Protection 108, 446-458.

Hackett, C.A., Wachira, F.N., Paul, S., Powell, W. and Waugh, R. (2000). Construction of a genetic linkage map for tea (Camellia sinensis). Heredity 85, 346-355.

Ivandic, V., Hackett, C.A., Zhang, Z.J., Staub, J.E., Nevo, E., Thomas, W.T.B. and Forster, B.P. (2000). Phenotypic responses of wild barley to experimentally imposed water stress. Journal of Experimental Botany 51, 2021-2029.

Luo, Z.W., Hackett, C.A., Bradshaw, J.E., McNicol, J.W. and Milbourne, D.M. (2000). Predicting parental genotypes and gene segregation for tetrasomic inheritance. Theoretical and Applied Genetics 100, 1067-1073.

Birch, A.N.E., Geoghegan, I.E., Majerus, M.E.N., McNicol, J.W., Hackett, C.A., Gatehouse, A.M.R. and Gatehouse, J.A. (1999). Tri-trophic interactions involving pest aphids, predatory 2-spot ladybirds and transgenic potatoes expressing snowdrop lectin for aphid resistance. Molecular Breeding 5, 75-83.

Bruce, A., Wheatley, R.E., Humphris, S.N., Hackett, C.A. and Florence, M.E.J. (1999). Production of volatile organic compounds by Trichoderma in media containing different amino acids and their effect on selected wood decay fungi. Holzforschung 54, 481-486.

Durban, M.L., Hackett, C.A. and Currie, I.D. (1999). Approximate standard errors in semi-parametric models. Biometrics 55, 699-703.

Bradshaw, J.E., Hackett, C.A., Meyer, R.C., Milbourne, D.M., McNicol, J.W., Phillips, M.S. and Waugh, R. (1998). Identification of AFLP and SSR markers associated with quantitative resistance to Globodera pallida (Stone) in tetraploid potato (Solanum tuberosum subsp. tuberosum) with a view to marker assisted sel. Theoretical and Applied Genetics 97, 202-210.

Hackett, C.A., Bradshaw, J.E., Meyer, R.C., McNicol, J.W., Milbourne, D.M. and Waugh, R. (1998). Linkage analysis in tetraploid potato: a simulation study. Genetical Research 71, 143-154.

Meyer, R.C., Milbourne, D.M., Hackett, C.A., Bradshaw, J.E., McNicol, J.W. and Waugh, R. (1998). Linkage analysis in tetraploid potato and association of markers with quantitative resistance to late blight (Phytophthora infestans). Molecular and General Genetics 259, 150-160.

Newton, A.C., Hackett, C.A. and Guy, D.C. (1998). Diversity and complexity of Erysiphe graminis f. sp. hordei collected from barley cultivar mixtures or barley plots treated with a resistance elicitor. European Journal of Plant Pathology 104, 925-931.

Newton, A.C., Hackett, C.A. and Guy, D.C. (1998). The effects of resistance elicitors and cultivar mixtures on the complexity of mildew populations. European Journal of Plant Pathology 104, 925-931.

Phillips, M.S., Trudgill, D.L., Hackett, C.A., Hancock, M., Holliday, J.M. and Spaull, A.M. (1998). A basis for prediction modelling of the relationship of potato yields to population density of the potato cyst nematode Globodera pallida. Journal of Agricultural Science 130, 45-51.

Cruz, E., Euerby, M.R., Johnson, C.M. and Hackett, C.A. (1997). Chromatographic classification of commercially available reverse-phase HPLC columns. Chromatographia 44, 151-161.

Durham, R.C., Allan, T. and Hackett, C.A. (1997). On predicting improvement and relapse in generalised anxiety disorder following psychotherapy. British Journal of Clinical Psychology 36, 101-119.

Forster, B.P., Russell, J.R., Ellis, R.P., Handley, L.L., Robinson, D., Hackett, C.A., Nevo, E., Waugh, R., Gordon, D.C., Keith, R. and Powell, W. (1997). Locating genotypes and genes for abiotic stress tolerance in barley: a strategy using maps, markers and the wild species. New Phytologist 137, 141-147.

Gordon, S.C., Cormack, M.R. and Hackett, C.A. (1997). Arthropod contamination of red raspberry (Rubus idaei) harvested by machine in Scotland. Journal of Horticultural Science 72, 667-685.

Hackett, C.A. and Griffiths, B.S. (1997). Statistical analysis of the time-course of Biolog substrate utilisation. Journal of Microbiological Methods 30, 63-69.

Hackett, C.A. (1997). Model diagnostics for fitting QTL models to trait and marker data by interval mapping. Heredity 79, 319-328.

Newton, A.C., Ellis, R.P., Hackett, C.A. and Guy, D.C. (1997). The effect of component number on Rhynchosporium secalis infection and yield in mixtures of winter barley cultivars. Plant Pathology 45, 930-938.

Pakniyat, H., Powell, W., Baird, E., Handley, L.L., Robinson, D., Scrimgeour, C.M., Nevo, E., Hackett, C.A., Caligari, P.D.S. and Forster, B.P. (1997). AFLP variation in wild barley (Hordeum spontaneum C. Koch) with reference to salt tolerance and associated site-of-origin eco-geography. Genome 40, 332-341.

Wheatley, R.E., Hackett, C.A., Bruce, A. and Kundzewicz, A. (1997). Effect of substrate composition on production and inhibitory activity against wood decay fungi of volatile organic compounds from Trichoderma spp. International Biodeterioration and Biodegradation 39, 199-205.

Trudgill, D.L., Phillips, M.S. and Hackett, C.A. (1996). The basis of predictive modelling for estimating yield loss and planning potato-cyst nematode management. Pesticide Science 47, 89-94.

Yanai, J., Linehan, D.J., Robinson, D., Young, I.M., Hackett, C.A., Kyuma, K. and Kosaki, T. (1996). Effects of inorganic nitrogen application on the dynamics of the soil solution composition in the root zone of maize. Plant and Soil 180, 1-9..

Hackett, C.A. and Weller, J.I. (1995). Genetic mapping of quantitative trait loci for traits with ordinal distributions. Biometrics 51, 1252-1263.

Hackett, C.A., Reglinski, T. and Newton, A.C. (1995). Use of additive models to represent trends in barley field trials. Annals of Applied Biology 127, 391-403.

Lanham, P.G., Brennan, R.M., Hackett, C.A. and McNicol, R.J. (1995). RAPD fingerprinting of blackcurrant (Ribes nigrum L.) cultivars. Theoretical and Applied Genetics 90, 166-172.

Nyange, N.E., Williamson, B., McNicol, R.J., Lyon, G.D. and Hackett, C.A. (1995). In vitro selection of Coffea arabica callus for resistance to partially purified phytotoxic culture filtrates from Colletotrichum kahawae. Annals of Applied Biology 127, 425-439.

Nyange, N.E., Williamson, B., McNicol, R.J. and Hackett, C.A. (1995). In vitro screening of coffee genotypes for resistance to coffee berry disease (Collectotrichum kahawae). Annals of Applied Biology 127, 251-261.

Wachira, F.N., Waugh, R., Hackett, C.A. and Powell, W. (1995). Detection of genetic diversity in tea (Camellia sinensis) using RAPD markers. Genome 38, 201-210.

Boag, B., Legg, R.K., Neilson, R., Palmer, L.F. and Hackett, C.A. (1994). The use of Taylor's power law to describe the aggregated distribution of earthworms in permanent pasture and arable soil in Scotland. Pedobiologia 38, 303-306.

Breese, W.A., Shattock, R.C., Williamson, B. and Hackett, C.A. (1994). In vitro spore germination and infection of cultivars of Rubus and Rosa by downy mildews from both hosts. Annals of Applied Biology 125, 73-85.

Newton, A.C. and Hackett, C.A. (1994). Subjective components of mildew assessment on spring barley. European Journal of Plant Pathology 100, 395-412.

Barua, U.M., Chalmers, K.J., Thomas, W.T.B., Hackett, C.A., Lea, V., Jack, P., Forster, B.P., Waugh, R. and Powell, W. (1993). Molecular mapping of genes determining height, time to heading and growth habit in barley (Hordeum vulgare). Genome 36, 1080-1087.

Barua, U.M., Chalmers, K.J., Hackett, C.A., Thomas, W.T.B., Powell, W. and Waugh, R. (1993). Identification of RAPD markers linked to a Rhynchosporium secalis resistance locus in barley using near-isogenic lines and bulked segregant analysis. Heredity 71, 177-184.

Chalmers, K.J., Barua, U.M., Hackett, C.A., Thomas, W.T.B., Waugh, R. and Powell, W. (1993). Identification of RAPD markers linked to genetic factors controlling the milling energy requirements of barley. Theoretical and Applied Genetics 87, 314-320.

Neilson, R., Boag, B. and Hackett, C.A. (1993). Observations on the use of Taylor's power law to describe the horizontal spatial distribution of marine nematodes in an intertidal estuarine environment. Russian Journal of Nematology 1, 55-64.

Boag, B., Hackett, C.A. and Topham, P.B. (1992). The use of Tayler's Power Law to describe the aggregated distribution of gastro-intestinal nematodes of sheep. International Journal of Parasitology 22, 267-270.

Gonzales, J.A., Phillips, M.S. and Hackett, C.A. (1992). Morphological variability of potato cyst nematodes (Globodera Spp) in the Canary Islands. Annals of Applied Biology 120, 315-328.

Hackett, C.A., Forster, B.P., McNicol, J.W. and Macaulay, M. (1992). Statistical analysis of a linkage experiment in barley involving quantitative trait loci for height and ear emergence time and two genetic markers on chromosome 4. Theoretical and Applied Genetics 85, 120-126.

Phillips, M.S., Hackett, C.A. and Trudgill, D.L. (1991). The relationship between the initial and final population densities of the potato cyst nematode Globodera pallida for partially resistant potatoes. Journal of Applied Ecology 28, 109-119.

Category: "Book Chapter"

Milbourne, D.M., Bradshaw, J.E. and Hackett, C.A. (2008). Molecular mapping and breeding in polyploid crop plants. In "Principles & Practices of Plant Genomics". Eds. Chittaranjan Kole &. Albert G. Abbott.. Science Publishers, Inc, New Hampshire, USA.