Tim Daniell

Honorary Associate
Ecological Sciences
E: tim.daniell@hutton.ac.uk
T: +44 (0)344 928 5428 (*)

Currently a Honorary Associate of the Ecological Sciences programme at the James Hutton Institute and an honorary lecturer at Dundee University teaching Microbial Ecology, I have held postdoctoral positions at York, Lancaster and Durham Universities after completing a PhD at Warwick University and degree at Nottingham University.

Research

  • Arbuscular mycorrhizal ecology
    For many years I have been involved in mycorrhizal ecology focussing on the dynamics of arbuscular mycorrhizal (AM) fungi. I have been heavily involved in the development of the application of molecular methods to improve understanding of community dynamics of this key fungal group resulting in the publication of a number of high impact papers. Work has focussed on the impact of arable farming on AM fungi with published work highlighting the depauperate nature of the group under conventional farming. Additionally work in grasslands discovered both host preference and links to bacterial communities and recent work in a boreal system, through collaboration with the University of Tartu including Maarja Öpik, uncovered an unexpected high richness in AM fungi, linked community structure to functional differences and identified a link between community structure and plant functional group. Current projects include: work primarily by Jane Davidson further exploring community dynamics in arable systems, a PhD student, Alex van den Bos, co supervised by Alison Bennett and Dave Johnson (University of Aberdeen) exploring the effect of tillage on AM fungi community structure and function and work with Alison Bennett and Sandra Caul exploring the role of plant breeding in reducing crop response to AM fungi.
  • Microbial nitrogen cycling
    Since appointment at the Institute I have been involved in the area of microbial nitrogen cycling in soil. This work area has recently been expanded mainly through an active collaboration with Liz Baggs at Aberdeen). This collaboration has taken the form of joint studentships funded either through NERC CASE or the Institute/University joint scheme. Miriam Herold undertook a project examining the relative role of fungal and bacterial denitrification in arable systems mainly utilising a long term pH gradient at SAC Craibstone. Maddy Giles is exploring the role of rhizodeposition in driving denitrification using artificial root systems. Marcin Skiba, who is also jointly supervised by Tim George, is undertaking a project examining the mechanisms lying behind variation in biological nitrification inhibition (BNI) observed between barley cultivars. Other work in this area, undertaken primarily by Susan Mitchell, is exploring the differences in nitrous oxide emission observed between different barley lines that may provide breeding targets to aid reduced arable farming environmental impacts.
  • Free-living nematode dynamics
    Nematodes provide an opportunity to understand the soil food web since they are a keystone group with representation at most trophic levels within the soil food web. For this reason free living nematodes have often been suggested as an ideal group for the estimation of soil health although issues associated with sample processing due to time consuming traditional identification have often limited application. A student at the Institute, Suzanne Donn, funded by the BBSRC and supervised jointly with Roy Neilson and Bryan Griffiths (currently at SAC Edinburgh) developed and tested a molecular method based on terminal restriction length polymorphism (T-RFLP). This method allows a massive increase in the numbers of samples that can be analysed which will allow the application of nematode community dynamics to be considered as an indicator of soil health for monitoring purposes. The methodology has been tested in other systems as part of joint student projects undertaken by Xiaoyun Chen, in Ireland also supervised by Bryan Griffiths, Roy Neilson and Vincent O’Flaherty (UNI Galway), and Stefanie Vink on the Machair of the Western Isles (supervised jointly with Roy Neilson and David Robinson, University of Aberdeen). Recently we have undertaken a project, employing Lea Wiesel, exploring spatial structure in a sand dune system to further test and develop the methodology.
  • EnPrint
    The intransigent nature of soil ecology driven largely by the lack of culturability and high diversity of the associated microbial community has driven a reliance on molecular methodology. These tools have been developed to be robust in relation to co-extracted inhibitors and provide the high throughput of samples required to allow the testing of ecological hypotheses. These tools have other applications that are being exploited through the spin out company EnPrint. Recent developments include a project co-funded by the Technology Strategy Board and Scottish Water to quantify and identify Cryptosporidium species in regulatory water samples.

Publications

Journals

Books / chapters

  • Bennett, A.E.; Daniell, T.J.; White, P.J. (2013) Benefits of breeding crops for yield response to soil organisms., In: de Bruijn, F.J. (ed.). Molecular Microbial Ecology of the Rhizosphere. Wiley-Blackwell, Hoboken, New Jersey. Volume 1, pp17-28.
  • Daniell, T.J. (2011) Biodiversity in arable soil., In: Pakeman, R.J. (ed.). Biodiversity and Farming. A summary of research outputs from the Scottish Government’s “Environment – Land Use and Rural Stewardship” research programme. Macaulay Land Use Research Institute, Aberdeen, 12-13.
  • Neilson, R.; Donn, S.; Griffiths, B.S.; Daniell, T.J.; Rybarczyk, K.D.; van den Elsen, S.; Mooyman, P.; Helder, J. (2009) Molecular tools for analysing nematode assemblages., In: Wilson, M.J. & Kakouli-Duarte, T. (eds.). Nematodes as Environmental Indicators. CABI, Wallingford, pp188-207.
  • Opik, M.; Saks, U.; Kennedy, J.; Daniell, T.J. (2008) Global diversity patterns of arbuscular mycorrhizal fungi – community composition and links with functionality., In: Varma, A. (ed.). Mycorrhiza: Genetics and Molecular Biology, ECO-function, Biotechnology, ECO-physiology, Structure and Systematics. Springer, Berlin, Heidelberg, 3rd edition, pp89-111.
  • Walters, D.R.; Daniell, T.J. (2007) Microbial induction of resistance to pathogens., In: Walters, D.R., Newton, A.C. & Lyon, G.D. (eds.). Induced Resistance for Plant Defence: A Sustainable Approach to Crop Protection. Blackwell Publishing, Oxford, Chapter 8, 143-156.
  • Whigham, D.F.; O’Neill, J.; McCormick, M.; Smith, C.; Rasmussen, H.; Caldwell, B.; Daniell, T.J. (2002) Interactions between decomposing wood, mycorrhizas, and terrestrial orchid seeds and protocorms., In: Kindlmann, P., Willems, J.H. & Whigham, D.F. (eds.). Trends and Fluctuations and Underlying Mechanisms in Terrestrial
    Orchid Populations. Backhuys Publishers, Leiden, The Netherlands, pp117-131.
  • Clapp, J.P.; Helgason, T.; Daniell, T.J.; Young, J.P.W. (2002) Genetic studies of the structure and diversity of arbuscular mycorrhizal fungal communities., In: van der Heiden, M. & Sanders, I. (eds.). Mycorrhizal Ecology. Springer-Verlag, Heidelberg, pp201-221.

Technical / contract reports

  • Squire, G.; Cammarero, D.; Daniell, T.; Newton, A.C.; White, P.J. (2016) Agriculture and forestry climate change report card technical paper. 3. Arable Crops., Living With Environmental Change (LWEC) Network with additional support from the Scottish Government.
  • Hough, R.L.; Bengough, A.G.; Chapman, S.J.; Daniell, T.; Matthews, R.; Squire, G.; Towers, W.; White, P.J. (2014) Heat in the soil form (NIA-NGGT0017)., Interim Report for National Grid.
  • Rivington, M.; Dinnie, E.; Craig, T.; Heslop, S.; Slee, B.; Matthews, R.; Nijnik, M.; Morris, S.; Stewart, D.; Martin-Ortega, J.; Dawson, L.A.; Daniell, T. (2013) Climate: public understanding and policy implications., The James Hutton Institute response to the UK Parliament House of Commons Select Committee Inquiry, April 2013.
  • Neilson, R.; Wiesel, L.; Daniell, T.J. (2012) Validation of a high-throughput nematode molecular tool as a bio-indicator of soil health and quality., Final Report for Genomia, 1-18.
  • Neilson, R.; Donn, S.; Chen, X.Y.; Griffiths, B.S.; O’Flaherty, V.; Daniell, T.J. (2011) Molecular methods for monitoring soil nematodes and their potential use as biologicalindicators of soil health., Annual Report of the Scottish Crop Research Institute for 2010, pp37-38.
  • Wheatley, R.E.; Hawes, C.; Daniell, T.J.; Birch, A.N.E. (2006) Management impacts on arable diversity and function., Annual Report of the Scottish Crop Research Institute for 2006, pp40-41.
  • Forster, B.P.; Bengough, A.G.; Ellis, R.P.; Thomas, W.T.B.; Clark, S.; Gordon, D.C.; El-Meniae, R.; Keith, R.; Waugh, R.; Hedley, P.E.; Daniell, T.J. (2002) Genomics of the root-soil interface., Annual Report of the Scottish Crop Research Institute for 2001/2002, pp153-154.

Conference papers

  • Neilson, R.; Roberts, D.M.; Loades, K.W.; Lozana, A.; Daniell, T. (2018) Healthy soils for crop production., Crop Protection in Northern Britain 2018: The Dundee Conference, Environmental Management and Crop Production, Apex City Quay Hotel, Dundee, 27-28 February 2018. Conference Proceedings, 17-20.
  • Daniell, T. (2018) Can we reduce detrimental impacts of nitrogen fertilisation by crop plant selection?, Crop Protection in Northern Britain 2018: The Dundee Conference, Environmental Management and Crop Production, Apex City Quay Hotel, Dundee, 27-28 February 2018. Conference Proceedings, pp3-4.
  • George, T.S.; French, A.; Brown, L.K.; Daniell, T.J.; Karley, A.J.; Ramsay, L.; White, P.J. (2013) Genotypic variation in the ability of plants to tolerate manganese deficiency in cereals grown in calcareous systems: the role of root phytases., XVII International Plant Nutrition Colloquium and Boron Satellite Meeting, Sabanci University, Istanbul, Turkey, 19-22 August 2013.
  • Daniell, T.J. (2013) The plant as a driver of soil N dynamics?, Enhancing Agricultural Sustainability and Resource Use Efficiency: A Comparison of the Most Important Swiss Arable Farming Systems, Agroscope, Zurich, Switzerland.
  • Daniell, T.J.; Mitchell, S.; Taylor, A.; Baggs, E.M.; Ramsay, L. (2013) Interaction between plant cultivar and greenhouse gas emission from arable soil – can the plant be used to minimise emissions?, 11th INTECOL Congress, Ecology: Into the next 100 years, ExCel Centre, London, 18-23 August 2013.
  • George, T.S.; French, A.; Brown, L.K.; Daniell, T.; Karley, A;. Ramsay, L.; White, P.J. (2013) Genotypic variation in the ability of plants to tolerate manganese deficiency in cereals grown in calcareous systems: the role of root phytases., In: XVII International Plant Nutrition Colloquium and Boron Satellite Meeting, Sabanci University, Istanbul, Turkey, 19-22 August 2013. Proceedings, pp39-40.
  • Daniell, T.; Mitchell, S.; Taylor, A.; Baggs, E.; Ramsay, L. (2013) Interaction between plant cultivar and greenhouse gas emission from arable soil – can the plant be used to minimise emissions?, 11th INTECOL Congress, Ecology: Into the next 100 years, ExCel Centre, London, 18-23 August 2013.
  • Daniell, T.; Davidson, J. (2013) Arbuscular mycorrhizal fungal dynamics in a range of crops under conventional agriculture, 7th International Conference on Mycorrhiza, New Delhi, India, 6-11 January 2013.
  • Gravouil, C.; Fountaine, J.M.; Toth, I.K.; Daniell, T.J.; Dickinson, M.F.; Newton, A.C. (2012) Pectobacterium atricepticum: pros and cons on non-host crop., Fitness Costs and Trade-offs in Plant-Parasite Interactions, BSPP Presidential Meeting 2012, Norwich.16-18 December 2012.
  • Neilson, R.; Wiesel, L.; Donn, S.; Griffiths, B.S.; Daniell, T.J. (2012) Monitoring environmental soil perturbation using molecular profiling of soil nematode communities., Sino-European Symposium on Environment and Health, Galway, Ireland, 20-25 August 2012.
  • Neilson, R.; Wiesel, L.; Donn, S.; Griffiths, B.S.; Daniell, T.J. (2012) Using soil nematode community profiling as a proxy for monitoring enviornmental perturbation on soil., Challenges for Scotland’s Biodiversity Conservation: From the Soils to the Skies, Royal Botanic Gardens, Edinburgh, 8-9 March 2012.
  • Hallett, P.D.; Barre, P.; Bengough, A.G.; Loades, K.W.; Duckett, N.R.; Knappett, J.A.; Paterson, E.; Daniell, T.; Caul, S.; Zhang, B. (2012) Influence of plant roots on the physical behaviour of soils., The 8th Symposium of the International Society of Root Research (ISRR); Roots to the Future, The James Hutton Institute, Dundee, 26-29 June 2012.
  • Skiba, M.W.; George, T.S.; Baggs, E.M.; Daniell, T.J. (2011) Influence of different barley cultivars on nitrification in soil., British Society of Soil Science Early Researchers’ Conference, University of York, 23-24 March 2011.
  • Griffiths, B.S.; Chen, X.; Daniell, T.J.; Neilson, R.; O’Flaherty, V. (2011) Long-term effects of P fertiliser on nematode community structure assessed by molecular and morphological methods., 50th Annual Meeting of the Society of Nematologists, Corvallis, Oregon, USA, 17-20 July 2011 (Talk).
  • Giles, M.E.; Daniell, T.J.; Baggs, E.M. (2011) What is the influence of rhizodeposited carbon on the production of N2O and N2 during denitrification?, Rhizosphere 3 International Conference, Perth, Australia, 25-30 September 2011.
  • Daniell, T.J.; King, D.; Ramsay, L.; Baggs, E.M. (2011) Variation in soil N2O emission across barley (Hordeum Vulgare) cultivars., Rhizosphere 3 International Conference, Perth, Australia, 25-30 September 2011.
  • Daniell, T.J.; Davidson, J.; Donn, S. (2011) Evidence for preference in the arable arbuscular mycorrhizal symbiosis., Rhizosphere 3 International Conference, Perth, Australia, 25-30 September 2011.
  • George, T.S.; Fankem, H.; Daniell, T.J. (2011) Selection of phosphate solubulising plant growth promoting microorganisms for use is Sub-Saharan Africa., Rhizosphere 3 International Conference, Perth, Australia, 25-30 September 2011.
  • Chen, X.; Griffiths, B.S.; Daniell, T.J.; Neilson, R.; O’Flaherty, V. (2011) Long-term effects of P fertiliser on nematode community structure assessed by molecular and morphological methods., Agricultural Research Forum, Tullamore, Ireland, 14-15 March 2011.
  • Chen, X.Y.; Griffiths, B.S.; Daniell, T.J.; Neilson, R.; O’Flaherty, V. (2010) Long-term effects of P fertiliser on nematode community structure assessed by molecular and morphological methods., European Society of Nematologists Biennial Meeting. Vienna, Austria, 19-23 September 2010.
  • Vink, S.; Neilson, R.; Robinson, D.; Daniell, T.J. (2009) The effect of moisture and plant communities on the mycorrhizal community structure in a low input agricultural system., Plant Soil Interactions. Joint Meeting of the Scottish Root Group and the Scottish Soils Discussion Group of the British Society of Soil Science. Aberdeen, 3 November 2009.
  • Vink, S.; Daniell, T.J.; Robinson, D.; Neilson, R. (2009) Earth’s fragile systems: the Machair of Scotland – a case study. Forming bridges in a changing world., Joint SON/SES Meeting, Burlington, USA, 12-15 July 2009, 203.
  • Chen, X.Y.; Griffiths, B.S.; Daniell, T.J.; Neilson, R.; O’Flaherty, V. (2009) High-throughput sequencing of soil nematode communities for ecological research., British Society of Soil Science and Soil Science Society of Ireland Autumn Meeting, Wexford, Ireland, 9-11 September 2009.
  • Fankem, H.; Din, N.; Nwaga, D.; Daniell, T.J.; George, T.S. (2009) Preliminary selection of phosphate solubilising plant growth promoting microorganisms., Society for Experimental Biology Annual Main Meeting, Glasgow, 28 June – 1 July 2009.
  • Clark, E.; Karley, A.J.; Daniell, T.J.; Wishart, J.; Hubbard, S.F. (2009) The community composition and influence on aphid performance of the bacteria associated with the cabbage aphid, Brevicoryne brassicae., 8th International Symposium on Aphids, Catania, Italy, 8-12 June 2009.
  • Vink, S.; Neilson, R.; Robinson, D.; Daniell, T.J. (2009) Belowground microbial communities in a low input agricultural system., 15th Molecular Microbial Ecology Group Meeting, University of Aberdeen, 29-30 July 2009.
  • Fankem, H.; Din, N.; Nwaga, D.; Daniell, T.J.; George, T.S. (2009) Phosphate solubilization by rhizosphere fungi (Aspergillus and Penicillium) isolated from Cameroonian soils and their effect on growth and nutrient uptake of barley., 15th Molecular Microbial Ecology Group Meeting, University of Aberdeen, 29-30 July 2009.
  • Donn, S.; Griffiths, B.S.; Neilson, R.; Daniell, T.J. (2009) T-RFLP analysis of nematode assemblages., British Society for Soil Science Spring Conference, Predicting the Future for Highly Organic Soils, Edinburgh, 5-7 May 2009.
  • Fankem, H.; Din, N.; Nwaga, D.; Daniell, T.J.; George, T.S. (2009) Phosphate solubilization by rhizosphere fungi (Aspergillus and Penicillium) isolated from Cameroonian soils and their effect on growth and nutrient uptake of barley., 8th International Plant Growth-Promoting Rhizobacteria Workshop, Portland, Oregon, USA, 17-22 May 2009.
  • George, T.S.; Brown, L.K.; Daniell, T.J.; Gregory, P.J.; Richardson, A.E. (2009) Microbial community structure in the rhizosphere of tobacco plants engineered to release fungal phytase from roots., 7th International Symposium of the Society for Root Research: Root Research and Applications, Vienna, Austria, 2-4 September 2009.

Conference posters / abstracts

  • Loades, K.W.; Taylor, A.; Neilson, R.; Preedy, K.; Daniell, T.J.; Griffiths, B.; Roberts, D.M.; Beattie, P.; Anderson, E. (2018) SoilBio – Measurement of soil physical condition using the soil biological community., European Geosciences Union General Assembly 2018, Vienna, Austria, 8-13 April 2018. SSS7.1/HS8.3.9 – Interactions and Feedbacks between Soil Structure and Biogeochemical Processes in Micro-Aggregates and Beyond (co-organized). Geophysical Research Abstracts, Volume 20, EGU2018-19209.
  • Mwafulirwa, L.; Paterson, E.; Daniell, T.; Russell, J.; Hackett, C.; Cairns, J.E.; Thierfelder, C.; Baggs, E.M. (2018) From barley to maize: Exploiting the potential of genotype selection to optimize root-soil interactions., 21st World Congress of Soil Science (12-17 August 2018), Rio de Janeiro, Brazil, 12-17 August 2018. (Poster).
  • Mwafulirwa, L.; Baggs, E.M.; Russell, J.; Daniell, T.; Cairns, J.E.; Thierfelder, C.; Hackett, C.; Paterson, E. (2017) Root trait selection for sustainable soil health: From barley to maize – exploiting the potential of genotype selection to optimize root-soil interactions., The James Hutton Institute Annual Research Symposium, Dundee, United Kingdom, 22 November 2017. (Poster)
  • Daniell, T.J.; Langarica-Fuentes, A.; Mitchell, S.; Manrubia Freixa, M.; Taylor, A.; Baggs, L.; Cameron, D. (2015) Root exudates can control soil denitrification dynamics., 20th European Nitrogen Cycling Meeting, Thistle Aberdeen Airport Hotel, Aberdeen, 28-30 September 2015.
  • Hopkins, D.W.; Wheatley, R.E.; Coakley, C.M.; Daniell, T.J.; Mitchell, S.; Newton, A.C.; Neilson, R. (2015) Soil carbon and nitrogen and barley yield responses to repeated additions of compost and slurry., 5th International Symposium on Soil Organic Matter: SOM 2015, Gottingen, Germany, 20-24 September 2015.
  • Holden, N.J.; Daniell, T.; Marshall, J. (2013) Root and soil-borne Escherichia coli isolates express type 1 fimbriae at low temperature., BSSS Rhizosphere Interactions, A one day Symposium, the James Hutton Institute, Dundee, 18 March 2013.
  • van den Bos, A.; Davidson, J.; Bennett, A.E.; Johnson, D.; Daniell, T.J. (2013) Tillage regime and depth shape the community structure of AM fungi colonizing barley., 7th International Conference on Mycorrhiza, New Delhi, India, 6-11 January 2013 (Poster).
  • Daniell, T.J.; Davidson, J. (2013) Arbuscular mycorrhizal fungal dynamics in a range of crops under conventional agriculture., 7th International Conference on Mycorrhiza, New Delhi, India, 6-11 January 2013 (Abstract).
  • van den Bos, A.; Davidson, J.; Bennett, A.E.; Johnson, D.; Daniell, T.J. (2013) A molecular assessment of AM fungal community structure in barley under different disturbance regimes., 11th INTECOL Congress, Ecology: Into the next 100 years, ExCel Centre, London, 18-23 August 2013.
  • van den Bos, A.; Davidson, J.; Bennett, A.E.; Johnson, D.; Daniell, T.J. (2012) Physical disturbance as a driver of community structure in arbuscular mycorrhizal fungi., British Ecological Society Annual Meeting, Birmingham, 17-20 December 2012 (Poster).
  • Gravouil, C.; Fountaine, J.M.; Daniell, T.J.; Toth, I.K.; Dickinson, M.; Newton, A.C. (2012) Using innate beneficial microbes to promote resistance., EFPP Conference on Integrated Pest Management, Wageningen, 1-5 October 2012 (Abstract).
  • Daniell, T.J.; Davidson, J.; Caul S.; van den Bos, A.; Becker, A.; Bennett, A.E. (2012) Do we understand AM fungal dynamics sufficiently to utilise the symbiosis to maintain crop yield in the future?, ISME 14, Copenhagen, August 2012 (Poster).
  • Skiba, M.W.; George, T.S.; Baggs, E.M.; Daniell, T.J. (2011) Biological Nitrification Inhibition (BNI) in arable plants – a potential for reducing nitrogen losses from agriculture., Theo Murphy Meeting. International Scientific Meeting on Nitrous Oxide, the Forgotten Greenhouse Gas, The Kavli Royal Society International Centre, Newport Pagnall, 23-24 May 2011 (Poster).
  • Skiba, M.W.; George, T.S.; Baggs, E.M.; Daniell, T.J. (2011) Plant and soil microbe interactions in agriculture – nitrification inhibition as a case study., The Rank Prize Fund Mini-Symposium on Roots for Improving Resource Acquisition in Crops, Grasmere, 11-14 April 2011 (Poster).
  • Daniell, T.J.; Skiba, M.W.; King, D.; Mitchell, S.M.; Baggs, E.M.; George, T.S. (2010) Effects of barley cultivar on microbial community structure: a hierarchical approach., 13th International Symposium on Microbial Ecology (ISME13), Seattle, WA, USA, 22-27 August 2010 (Poster).
  • Herold, M.B.; Baggs, E.M.; Daniell, T.J. (2010) Effects of pH and disturbance on nitrous oxide emission from arable soil – a role for fungal denitrification?, 13th International Symposium on Microbial Ecology (ISME13), Seattle, WA, USA, 22-27 August 2010 (Poster).
  • Giles, M.E.; Daniell, T.J.; Baggs, E.M. (2010) Nitrous oxide production in soil in response to addition of different C compounds., Biochemical Society. Enzymology and Ecology of the Nitrogen Cycle, Birmingham, 15-17 September 2010 (Poster).
  • Skiba, M.W.; George, T.S.; Baggs, E.M.; Daniell, T.J. (2010) Biological nitrification inhibition under different barley cultivars., Biochemical Society. Enzymology and Ecology of the Nitrogen Cycle, Birmingham, 15-17 September 2010 (Poster).
  • Hallett, P.D.; Caul, S.; Daniell, T.J.; Barre, P.; Paterson, E. (2010) The rheology of rhizosphere formation by root exudates and soil microbes., Proceedings of the 19th World Congress of Soil Science, Brisbane, Australia, 1-6 August 2010. (Poster)
  • Fountaine, J.M.; Gravouil, C.; Daniell, T.J.; Harling, R.; Shepherd, T.; Taylor, J.; Dickinson, M.; Newton, A.C. (2009) Leaf wax and cultivar effects on phylloplane organisms and disease in barley., Association of Applied Biologists. International Conference on Positive Plant Microbial Interactions in Relation to Plant Performance and Ecosystem Function, Grantham, Lincs, 15-16 December 2009. (Poster)