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Dr Robert Griffiths

Professor in Environmental Microbiology

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ORCID: 0000-0002-3341-4547

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Rob Griffiths is an environmental microbiologist whose research focuses on understanding the "natural" and human associated drivers of microbial biodiversity, and understanding the role of microbiomes in environmental health. He uses molecular, biogeochemical and data-driven approaches to uncover fundamental ecological processes operating on microbial communities and impacting functional outcomes.

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  1. Bacterial Physiological Adaptations to Contrasting Edaphic Conditions Identified Using Landscape Scale Metagenomics

    A., M. A., C., T. B., S., W. A., Mark, B. & I., G. R., 5 Jul 2017, In: mBio. 8, 4

    Research output: Contribution to journal › Article › peer-review

  2. Microbial biodiversity and ecosystem functioning under controlled conditions and in the wild: Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic Perspective

    Bell, T., Gessner, M. O., Griffiths, R. I., McLaren, J. R., Morin, P. J., van der Heijden, M., van der Putten, W. H., Naeem, S. (ed.), Bunker, D. E. (ed.), Hector, A. (ed.), Loreau, M. (ed.) & Perrings, C. (ed.), Jul 2009, Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic . Oxford University Press USA, p. 121-133

    Research output: Chapter in Book/Report/Conference proceeding › Chapter

  3. Protists have divergent effects on bacterial diversity along a productivity gradient

    Bell, T., Bonsall, M. B., Buckling, A., Whiteley, A. S., Goodall, T. & Griffiths, R. I., 10 Mar 2010, In: Biology letters. 6, 5, p. 639-642 4 p.

    Research output: Contribution to journal › Article › peer-review

  4. Climate change alters temporal dynamics of alpine soil microbial functioning and biogeochemical cycling via earlier snowmelt

    Broadbent, A. A. D., Snell, H. S. K., Michas, A., Pritchard, W. J., Newbold, L., Cordero, I., Goodall, T., Schallhart, N., Kaufmann, R., Griffiths, R. I., Schloter, M., Bahn, M. & Bardgett, R. D., Aug 2021, In: The ISME Journal. 15, 8, p. 2264-2275 12 p.

    Research output: Contribution to journal › Article › peer-review

  5. Environmental and microbial controls on microbial necromass recycling, an important precursor for soil carbon stabilization

    Buckeridge, K. M., Mason, K. E., McNamara, N. P., Ostle, N., Puissant, J., Goodall, T., Griffiths, R. I., Stott, A. W. & Whitaker, J., 22 Oct 2020, In: Communications Earth and Environment. 1, 1, 36.

    Research output: Contribution to journal › Article › peer-review

  6. Zones of influence for soil organic matter dynamics: A conceptual framework for data and models

    Cagnarini, C., Blyth, E., Emmett, B. A., Evans, C. D., Griffiths, R. I., Keith, A., Jones, L., Lebron, I., McNamara, N. P., Puissant, J., Reinsch, S., Robinson, D. A., Rowe, E. C., Thomas, A. R. C., Smart, S. M., Whitaker, J. & Cosby, B. J., 6 Aug 2019, In: Global Change Biology. 25, 12, p. 3996-4007 12 p.

    Research output: Contribution to journal › Article › peer-review

  7. Plants with arbuscular mycorrhizal fungi efficiently acquire Nitrogen from substrate additions by shaping the decomposer community composition and their net plant carbon demand

    Chowdhury, S., Lange, M., Malik, A. A., Goodall, T., Huang, J., Griffiths, R. I. & Gleixner, G., Jun 2022, In: Plant and Soil. 475, 1, p. 473-490 18 p.

    Research output: Contribution to journal › Article › peer-review

  8. Nutrient Source and Mycorrhizal Association jointly alters Soil Microbial Communities that shape Plant-Rhizosphere-Soil Carbon-Nutrient Flows

    Chowdhury, S., Lange, M., Malik, A. A., Goodall, T., Huang, J., Griffiths, R. I. & Gleixner, G., 19 Jul 2020, In: bioRxiv.

    Research output: Contribution to journal › Article › peer-review

  9. Field scale molecular analysis for the monitoring of bacterial community structures during on-site diesel bioremediation

    Ciric, L., Griffiths, R. I., Philp, J. C. & Whiteley, A. S., Jul 2010, In: Bioresource technology . 101, 14, p. 5235-5241 7 p.

    Research output: Contribution to journal › Article › peer-review

  10. Grassland biodiversity restoration increases resistance of carbon fluxes to drought

    Cole, A. J., Griffiths, R. I., Ward, S. E., Whitaker, J., Ostle, N. J. & Bardgett, R. D., 19 Apr 2019, In: Journal of Applied Ecology. 56, 7, p. 1806-1816 11 p.

    Research output: Contribution to journal › Article › peer-review

  11. Ecological network analysis reveals the inter-connection between soil biodiversity and ecosystem function as affected by land use across Europe: Soil biodiversity and ecosystem functions across Europe: A transect covering variations in bio-geographical zones, land use and soil properties

    Creamer, R. E., Hannula, S. E., Leeuwen, J. P. V., Stone, D., Rutgers, M., Schmelz, R. M., Ruiter, P. C. D., Hendriksen, N. B., Bolger, T., Bouffaud, M. L., Buee, M., Carvalho, F., Costa, D., Dirilgen, T., Francisco, R., Griffiths, B. S., Griffiths, R., Martin, F., Silva, P. M. D., Mendes, S., Morais, P. V., Pereira, C., Philippot, L., Plassart, P., Redecker, D., Römbke, J., Sousa, J. P., Wouterse, M. & Lemanceau, P., Jan 2016, In: Applied Soil Ecology. 97, p. 112-124 13 p.

    Research output: Contribution to journal › Article › peer-review

  12. Comparison of greenhouse gas fluxes from tropical forests and oil palm plantations on mineral soil

    Drewer, J., Leduning, M. M., Griffiths, R. I., Goodall, T., Levy, P. E., Cowan, N., Comynn-Platt, E., Hayman, G., Sentian, J., Majalap, N. & Skiba, U. M., 4 Mar 2021, In: Biogeosciences. 18, 5, p. 1559-1575 17 p.

    Research output: Contribution to journal › Article › peer-review

  13. Differences in soil micro-eukaryotic communities over soil pH gradients are strongly driven by parasites and saprotrophs

    Dupont, A. Ö. C., Griffiths, R. I., Bell, T. & Bass, D., 15 Jan 2016, In: Environmental Microbiology. 18, 6, p. 2010-2024 15 p.

    Research output: Contribution to journal › Article › peer-review

  14. Sustainable futures over the next decade are rooted in soil science

    Evans, D. L., Janes-Bassett, V., Borrelli, P., Chenu, C., Ferreira, C. S. S., Griffiths, R. I., Kalantari, Z., Keesstra, S., Lal, R., Panagos, P., Robinson, D. A., Seifollahi-Aghmiuni, S., Smith, P., Steenhuis, T. S., Thomas, A. & Visser, S. M., 19 Jan 2022, In: European Journal of Soil Science. 73, 1, p. e13145

    Research output: Contribution to journal › Article › peer-review

  15. The effect of root-associated microbes on plant growth and chemical defence traits across two contrasted elevations

    Formenti, L., Caggìa, V., Puissant, J., Goodall, T., Glauser, G., Griffiths, R. & Rasmann, S., 10 Jan 2021, In: Journal of Ecology. 109, 1, p. 38-50 13 p.

    Research output: Contribution to journal › Article › peer-review

  16. Published

    Divergent national-scale trends of microbial and animal biodiversity revealed across diverse temperate soil ecosystems

    George, P., Lallias, D., Creer, S., Seaton, F., Kenny, J. G., Eccles, R. M., Griffiths, R., Lebron, I., Emmett, B., Robinson, D. & Jones, D. L., 7 Mar 2019, In: Nature Communications. 10, 1, p. 1107 1107.

    Research output: Contribution to journal › Article › peer-review

  17. Closely related protist strains have different grazing impacts on natural bacterial communities

    Glücksman, E., Bell, T., Griffiths, R. I. & Bass, D., 3 Dec 2010, In: Environmental Microbiology. 12, 12, p. 3105-3113 9 p.

    Research output: Contribution to journal › Article › peer-review

  18. Mapping and validating predictions of soil bacterial biodiversity using European and national scale datasets: Soil biodiversity and ecosystem functions across Europe: A transect covering variations in bio-geographical zones, land use and soil properties

    Griffiths, R. I., Thomson, B. C., Plassart, P., Gweon, H. S., Stone, D., Creamer, R. E., Lemanceau, P. & Bailey, M. J., Jan 2016, In: Applied Soil Ecology. 97, p. 61-68 8 p.

    Research output: Contribution to journal › Article › peer-review

  19. Selecting cost effective and policy-relevant biological indicators for European monitoring of soil biodiversity and ecosystem function

    Griffiths, B. S., Römbke, J., Schmelz, R. M., Scheffczyk, A., Faber, J. H., Bloem, J., Pérès, G., Cluzeau, D., Chabbi, A., Suhadolc, M., Sousa, J. P., Martins da Silva, P., Carvalho, F., Mendes, S., Morais, P., Francisco, R., Pereira, C., Bonkowski, M., Geisen, S., Bardgett, R. D., de Vries, F. T., Bolger, T., Dirilgen, T., Schmidt, O., Winding, A., Hendriksen, N. B., Johansen, A., Philippot, L., Plassart, P., Bru, D., Thomson, B., Griffiths, R. I., Bailey, M. J., Keith, A., Rutgers, M., Mulder, C., Hannula, S. E., Creamer, R. & Stone, D., Oct 2016, In: Ecological Indicators. 69, p. 213-223 11 p.

    Research output: Contribution to journal › Article › peer-review

  20. The functions and components of the Sourhope soil microbiota

    Griffiths, R. I., Bailey, M. J., McNamara, N. P. & Whiteley, A. S., Sept 2006, In: Applied Soil Ecology. 33, 2, p. 114-126 13 p.

    Research output: Contribution to journal › Article › peer-review

  21. The bacterial biogeography of British soils

    Griffiths, R. I., Thomson, B. C., James, P., Bell, T., Bailey, M. & Whiteley, A. S., 20 Apr 2011, In: Environmental Microbiology. 13, 6, p. 1642-1654 13 p.

    Research output: Contribution to journal › Article › peer-review

  22. 13CO2 pulse labelling of plants in tandem with stable isotope probing: methodological considerations for examining microbial function in the rhizosphere

    Griffiths, R. I., Manefield, M., Ostle, N., McNamara, N., O'Donnell, A. G., Bailey, M. J. & Whiteley, A. S., Jul 2004, In: Journal of Microbiological Methods. 58, 1, p. 119-129 11 p.

    Research output: Contribution to journal › Article › peer-review

  23. Influence of depth and sampling time on bacterial community structure in an upland grassland soil

    Griffiths, R. I., Whiteley, A. S., O'Donnell, A. G. & Bailey, M. J., Feb 2003, In: Fems Microbiology Ecology. 43, 1, p. 35-43 9 p.

    Research output: Contribution to journal › Article › peer-review

  24. Niche specialization of terrestrial archaeal ammonia oxidizers

    Gubry-Rangin, C., Hai, B., Quince, C., Engel, M., Thomson, B. C., James, P., Schloter, M., Griffiths, R. I., Prosser, J. I. & Nicol, G. W., 8 Dec 2011, In: Proceedings of the National Academy of Sciences. 108, 52, p. 21206-21211 6 p.

    Research output: Contribution to journal › Article › peer-review

  25. PIPITS: an automated pipeline for analyses of fungal internal transcribed spacer sequences from the Illumina sequencing platform

    Gweon, H. S., Oliver, A., Taylor, J., Booth, T., Gibbs, M., Read, D. S., Griffiths, R. I. & Schonrogge, K., 22 Apr 2015, In: Methods in Ecology and Evolution. 6, 8, p. 973-980 8 p.

    Research output: Contribution to journal › Article › peer-review

  26. Mapping natural capital: optimising the use of national scale datasets

    Henrys, P. A., Bee, E. J., Watkins, J. W., Smith, N. A. & Griffiths, R. I., Jun 2015, In: Ecography. 38, 6, p. 632-638 7 p.

    Research output: Contribution to journal › Article › peer-review

  27. Raman-FISH: combining stable-isotope Raman spectroscopy and fluorescence in situ hybridization for the single cell analysis of identity and function

    Huang, W. E., Stoecker, K., Griffiths, R., Newbold, L., Daims, H., Whiteley, A. S. & Wagner, M., 15 Jun 2007, In: Environmental Microbiology. 9, 8, p. 1878-1889 12 p.

    Research output: Contribution to journal › Article › peer-review

  28. Raman Microscopic Analysis of Single Microbial Cells: Analytical Chemistry

    Huang, W. E., Griffiths, R. I., Thompson, I. P., Bailey, M. J. & Whiteley, A. S., 2004, In: Analytical Chemistry. 76, 15, p. 4452-4458 7 p.

    Research output: Contribution to journal › Article › peer-review

  29. Rapid Method for Coextraction of DNA and RNA from Natural Environments for Analysis of Ribosomal DNA- and rRNA-Based Microbial Community Composition

    I., G. R., S., W. A., G., OD. A. & J., B. M., Dec 2000, In: Applied and Environmental Microbiology. 66, 12, p. 5488-5491 4 p.

    Research output: Contribution to journal › Article › peer-review

  30. Physiological and Community Responses of Established Grassland Bacterial Populations to Water Stress

    I., G. R., S., W. A., G., OD. A. & J., B. M., Dec 2003, In: Applied and Environmental Microbiology. 69, 12, p. 6961-6968 8 p.

    Research output: Contribution to journal › Article › peer-review

  31. Published

    pH and exchangeable aluminum are major regulators of microbial energy flow and carbon use efficiency in soil microbial communities

    Jones, D. L., Cooledge, E., Hoyle, F., Griffiths, R. & Murphy, D., Nov 2019, In: Soil Biology and Biochemistry. 138, 107584.

    Research output: Contribution to journal › Article › peer-review

  32. Published

    Beyond Taxonomic Identification: Integration of Ecological Responses to a Soil Bacterial 16S rRNA Gene Database

    Jones, B., Goodall, T., George, P. B. L., Gweon, H. S., Puissant, J., Read, D. S., Emmett, B., Robinson, D. A., Jones, D. L. & Griffiths, R. I., 19 Jul 2021, In: Frontiers in Microbiology. 12, 682886.

    Research output: Contribution to journal › Article › peer-review

  33. Legacy effects of drought on plant–soil feedbacks and plant–plant interactions

    Kaisermann, A., de Vries, F. T., Griffiths, R. I. & Bardgett, R. D., 16 Jun 2017, In: New Phytologist. 215, 4, p. 1413-1424 12 p.

    Research output: Contribution to journal › Article › peer-review

  34. Plant diversity increases soil microbial activity and soil carbon storage

    Lange, M., Eisenhauer, N., Sierra, C. A., Bessler, H., Engels, C., Griffiths, R. I., Mellado-Vázquez, P. G., Malik, A. A., Roy, J., Scheu, S., Steinbeiss, S., Thomson, B. C., Trumbore, S. E. & Gleixner, G., 7 Apr 2015, In: Nature Communications. 6, 1, 6707.

    Research output: Contribution to journal › Article › peer-review

  35. Soil microbial communities with greater investment in resource acquisition have lower growth yield

    Malik, A. A., Puissant, J., Goodall, T., Allison, S. D. & Griffiths, R. I., May 2019, In: Soil Biology and Biochemistry. 132, p. 36-39 4 p.

    Research output: Contribution to journal › Article › peer-review

  36. Soil Fungal:Bacterial Ratios Are Linked to Altered Carbon Cycling

    Malik, A. A., Chowdhury, S., Schlager, V., Oliver, A., Puissant, J., Vazquez, P. G. M., Jehmlich, N., von Bergen, M., Griffiths, R. I. & Gleixner, G., 9 Aug 2016, In: Frontiers in Microbiology. 7

    Research output: Contribution to journal › Article › peer-review

  37. Land use driven change in soil pH affects microbial carbon cycling processes

    Malik, A. A., Puissant, J., Buckeridge, K. M., Goodall, T., Jehmlich, N., Chowdhury, S., Gweon, H. S., Peyton, J. M., Mason, K. E., van Agtmaal, M., Blaud, A., Clark, I. M., Whitaker, J., Pywell, R. F., Ostle, N., Gleixner, G. & Griffiths, R. I., 4 Sept 2018, In: Nature Communications. 9, 1, 3591.

    Research output: Contribution to journal › Article › peer-review

  38. Rhizosphere bacterial carbon turnover is higher in nucleic acids than membrane lipids: implications for understanding soil carbon cycling

    Malik, A. A., Dannert, H., Griffiths, R. I., Thomson, B. C. & Gleixner, G., 9 Apr 2015, In: Frontiers in Microbiology. 6

    Research output: Contribution to journal › Article › peer-review

  39. Linking microbial communities to soil carbon cycling under anthropogenic change using a trait-based framework

    Malik, A., Griffiths, R. & Allison, S., 4 May 2020.

    Research output: Contribution to conference › Paper

  40. Stable Isotope Probing: A Critique of Its Role in Linking Phylogeny and Function

    Manefield, M., Griffiths, R., Bailey, M. J. & Whiteley, A. S., 2006, Nucleic Acids and Proteins in Soil. Nannipieri, P. & Smalla, K. (eds.). Springer, p. 205-216

    Research output: Chapter in Book/Report/Conference proceeding › Chapter

  41. Functional and compositional comparison of two activated sludge communities remediating coking effluent

    Manefield, M., Griffiths, R. I., Leigh, M. B., Fisher, R. & Whiteley, A. S., 25 Feb 2005, In: Environmental Microbiology. 7, 5, p. 715-722 8 p.

    Research output: Contribution to journal › Article › peer-review

  42. Insights into the fate of a 13C labelled phenol pulse for stable isotope probing (SIP) experiments

    Manefield, M., Griffiths, R., McNamara, N. P., Sleep, D., Ostle, N. & Whiteley, A., May 2007, In: Journal of Microbiological Methods. 69, 2, p. 340-344 5 p.

    Research output: Contribution to journal › Article › peer-review

  43. The sensitivity of a forest soil microbial community to acute gamma-irradiation

    McNamara, N. P., Griffiths, R. I., Tabouret, A., Beresford, N. A., Bailey, M. J. & Whiteley, A. S., Oct 2007, In: Applied Soil Ecology. 37, 1, p. 1-9 9 p.

    Research output: Contribution to journal › Article › peer-review

  44. RNA Stable Isotope Probing, a Novel Means of Linking Microbial Community Function to Phylogeny

    Mike, M., S., W. A., I., G. R. & J., B. M., Nov 2002, In: Applied and Environmental Microbiology. 68, 11, p. 5367-5373 7 p.

    Research output: Contribution to journal › Article › peer-review

  45. The interactions and hierarchical effects of long-term agricultural stressors on soil bacterial communities

    Mombrikotb, S. B., Van Agtmaal, M., Johnstone, E., Crawley, M. J., Gweon, H. S., Griffiths, R. I. & Bell, T., 1 Oct 2022, In: Environmental Microbiology Reports. 14, 5, p. 711-718

    Research output: Contribution to journal › Article › peer-review

  46. Soil networks become more connected and take up more carbon as nature restoration progresses

    Morriën, E., Hannula, S. E., Snoek, L. B., Helmsing, N. R., Zweers, H., de Hollander, M., Soto, R. L., Bouffaud, M-L., Buée, M., Dimmers, W., Duyts, H., Geisen, S., Girlanda, M., Griffiths, R. I., Jørgensen, H-B., Jensen, J., Plassart, P., Redecker, D., Schmelz, R. M., Schmidt, O., Thomson, B. C., Tisserant, E., Uroz, S., Winding, A., Bailey, M. J., Bonkowski, M., Faber, J. H., Martin, F., Lemanceau, P., de Boer, W., van Veen, J. A. & van der Putten, W. H., 8 Feb 2017, In: Nature Communications. 8, 1, 14349.

    Research output: Contribution to journal › Article › peer-review

  47. Evolution of diversity explains the impact of pre-adaptation of a focal species on the structure of a natural microbial community

    Padfield, D., Vujakovic, A., Paterson, S., Griffiths, R., Buckling, A. & Hesse, E., 3 Sept 2020, In: The ISME Journal. 14, 11, p. 2877-2889 13 p.

    Research output: Contribution to journal › Article › peer-review

  48. Soil parameters, land use, and geographical distance drive soil bacterial communities along a European transect

    Plassart, P., Prévost-Bouré, N. C., Uroz, S., Dequiedt, S., Stone, D., Creamer, R., Griffiths, R. I., Bailey, M. J., Ranjard, L. & Lemanceau, P., 24 Jan 2019, In: Scientific Reports. 9, 1, 605.

    Research output: Contribution to journal › Article › peer-review

  49. Evaluation of the ISO Standard 11063 DNA Extraction Procedure for Assessing Soil Microbial Abundance and Community Structure

    Plassart, P., Terrat, S., Thomson, B., Griffiths, R., Dequiedt, S., Lelievre, M., Regnier, T., Nowak, V., Mark, B., Lemanceau, P., Bispo, A., Chabbi, A., Maron, P-A., Mougel, C. & Ranjard, L., 11 Sept 2012, In: PLoS ONE. 7, 9, p. 1-8 8 p.

    Research output: Contribution to journal › Article › peer-review

  50. Long-term cattle grazing shifts the ecological state of forest soils

    Proesmans, W., Andrews, C., Gray, A., Griffiths, R., Keith, A., Nielsen, U. N., Spurgeon, D., Pywell, R., Emmett, B. & Vanbergen, A. J., Apr 2022, In: Ecology and Evolution. 12, 4, e8786.

    Research output: Contribution to journal › Article › peer-review

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