Publications

*SEG member author underlined

2025

Bucher R., Batáry P., Baudry J., Beaumelle L., Čerevková A., de la Riva EG., Djoudi, EL., Dirilgen T., Gallé R., Kesse-Guyot E., O’Reilly A., Rembiałkowska E., Rusch A., G. Smith HG., Stanley DA., Roberts SPM., Ulrich W., Birkhofer K. Land-use impacts on crop yield: direct and indirect roles of arthropods and associated ecosystem services in European farmland. Landscape Ecology 40(5), 1-19

Dornelas M., Antão L. H., Bates A. E., Brambilla V., Chase J. M., Chow C. F., Dirilgen T.,… & Fryxell J. , 34(5), e70003. BioTIME 2.0: Expanding and improving a database of biodiversity time series. Global Ecology and Biogeography 34(5), e70003 https://doi.org/10.1111/geb.70003

2024

Brazel A.J., Turck F., and Ó Maoiléidigh D.S. Measuring CO₂ assimilation of Arabidopsis thaliana whole plants and seedlings. Plant Science 350:112295 https://doi.org/10.1016/j.plantsci.2024.112295

Kozlowski G., Fragnière Y., Clément B., Gilg O., Sittler B., Lang J., Meade C.V. Genome Size in the Arenaria ciliata Species Complex (Caryophyllaceae), with Special Focus on Northern Europe and the Arctic. Plants 13(5):635

Lončarević N., Liu U., Stefanaki A., Carapeto A., Ensslin A., Meade C., et al. Database of European vascular plants red lists as a contribution to more coherent plant conservation. Scientific Data 11:1138 https://doi.org/10.1038/s41597-024-03963-0

McGrane-Corrigan B., Mason O., and Moral R.A. Inferring Stochastic Group Interactions within Structured Populations via Coupled Autoregression. Journal of Theoretical Biology 584, 111793

Mooney B.C.*, Doorly C. M.*, Mantz M., Garcia P., Huesgen P. and Graciet E. Hypoxia represses pattern-triggered immune responses in Arabidopsis. Plant Physiology 10.1093/plphys/kiae432 (*Equal contribution)

Palma G.R., Mello R.F., Godoy W.A.C., Engel E., Lau D., Markham C., and Moral R.A. Forecasting insect abundance using time series embedding and machine learning. Ecological Informatics 85, 102934

Thorpe P., Altmann S., Lopez-Cobollo R., Douglas N., Iqbal J., Kanvil S., Simon.J.C., Carolan J.C., Bos J., Turnbull C. Multi-omics approaches define novel aphid effector candidates associated with virulence and avirulence phenotypes. BMC Genomics 25(1):1065 https://doi.org/10.1186/s12864-024-10984-x

2023

Brazel A.J.*, Fattorini R.*, McCarthy J., Rümpler F., Franzen R., Coupland G. and Ó Maoiléidigh D.S. AGAMOUS mediates timing of guard cell formation during gynoecium development. PLoS Genetics 19 (10), e1011000 (*Equal contribution)

Cassells M., Labaude S. and Griffin C.T. Beware glowing cadavers: Bioluminescence of nematode symbiont Photorhabdus protects nematode-infected host cadaver from nocturnal scavenging. Frontiers in Ecology and Evolution, 11

Cullen M.G., Bliss L., Stanley D.A., Carolan J.C. Investigating the effects of glyphosate on the bumblebee proteome and microbiota. Science of the Total Environment, 864.

Dirilgen T., Herbertsson L., O’Reilly A., Mahon, N. & Stanley, D.A. (2023) Moving Past Neonicotinoids and Honeybees: A Systematic Review of Existing Research on Bees and Insecticides Environmental Research, 235, 116612

Hoysted G.A., Field K.J., et al. Direct nitrogen, phosphorus and carbon exchanges between Mucoromycotina ‘fine root endophyte’ fungi and a flowering plant in novel monoxenic cultures. New Phytologist 238(1): 70-79

Moral R.A., Connolly J., Vishwakarma R., Byrne L., Hurley C., Finn J., Brophy C. Going beyond richness: Modelling the BEF relationship using species identity, evenness, richness and species interactions via the DImodels R package. Methods in Ecology and Evolution 14(9):2250-2258

Miricescu A.*, Brazel A.J.*^#, Beegan J., Wellmer F., and Graciet E.^#.Transcriptional analysis in multiple barley varieties identifies signatures of waterlogging response. Plant Direct 7(8):e518. (*Equal contribution; #co-corresponding authorship)

2022

Galligioni V., Movia D., Ruiz-Pérez D., Sánchez-Morgado J.M., Prina-Mello A. The Case for Modernizing Biomedical Research in Ireland through the Creation of an Irish 3Rs Centre. Animals (12)9:1078

Lillis P.E., Griffin C.T. and Carolan, J.C. The effect of temperature conditioning (9°C and 20°C) on the proteome of entomopathogenic nematode infective juveniles.PLoS ONE 17(4): e0266164

Vickneswaran M., Carolan J.C., Saunders M. White B. Establishing the extent of pesticide contamination in Irish agricultural soils. Heliyon, 9 (9).

2021

García‐Béjar B, Owens R.A., Briones A, Arévalo‐Villena M. Proteomic profiling and glycomic analysis of the yeast cell wall in strains with Aflatoxin B1 elimination ability. Environmental microbiology. 23(9): 5305-5319

Hoysted G.A., Bidartondo M.I., et al. Phenology and function in lycopod–Mucoromycotina symbiosis. New Phytologist 229(5): 2389-2394

Meade C.V., Bueno de Mesquita C.P., Schmidt S.K., Suding K.N. The presence of a foreign microbial community promotes plant growth and reduces filtering of root fungi in the arctic-alpine plant Silene acaulis. Plant Ecology & Diversity 13(5-6): 377-390

Ó Maoiléidigh D.S., van Driel A.D., Singh A., Sang Q., Le Bec N., Vincent C., Garcia de Olalla E.B., Vayssières A., Romera-Branchat M., Severing E., Martinez-Gallegos R, & Coupland G. Systematic analyses of the MIR172 family members of Arabidopsis define their distinct roles in regulation of APETALA2 during floral transition. PLoS Biology19(2): e3001043

Sahu N, Merényi Z, Bálint B, Kiss B, Sipos G, Owens R.A., Nagy, L. Hallmarks of Basidiomycete Soft- and White-Rot in Wood-Decay -Omics Data of Two Armillaria Species. Microorganisms. 9(1): 149

2020

Maher A., Alsaiyah M., Quinn S., Burke R., Wolff H., Bode H., and Griffin C.T. Competition and co-existence of two Photorhabdus symbionts with a nematode host. Microbial Ecology 81(1) 223-239

Movia D., Prina-Mello A. Preclinical Development of Orally Inhaled Drugs (OIDs) – Are Animal Models Predictive or Shall We Move Towards In Vitro Non-Animal Models? Animals 10(8):1259

Movia D., Bruni-Favier S., Prina-Mello A. In Vitro Alternatives to Acute Inhalation Toxicity Studies in Animal Models – A Perspective Front. Bioeng. Biotechnol. 8:549

2019

Green D.S., Colgan T.J., Thompson R.T., Carolan J.C. Exposure to microplastics reduces attachment strength and alters the haemolymph proteome of blue mussels (Mytilus edulis). Environmental Pollution 246: 423-434

Goslin K.*, Eschen-Lippold L.*, Naumann C., Linster E., Sorel M., Klecker M., de Marchi R., Kind A., Wirtz M., Lee J., Dissmeyer N. and Graciet E. Differential N-end rule degradation of RIN4/NOI fragments generated by the AvrRpt2 effector protease. Plant Physiology 180, 2272-2289. (*Equal contribution)

Hoysted G.A., Jacob A.S., et al. Mucoromycotina fine root endophyte fungi form nutritional mutualisms with vascular plants. Plant Physiology 181(2): 565-577

2018

Davidson I.C., Cott G.M., Devaney J.L. and Simkanin C. Differential effects of biological invasions on coastal blue carbon: A global review and meta‐analysis. Global Change Biology, 24(11), pp.5218-5230

Dirilgen T., Juceviča E., Melecis V., Querner P. and Bolger T. Analysis of spatial patterns informs sampling requirements and community assembly for Collembola in forest soils. Acta Oecologica, 86, 23-30

2017

Collins C., Hurley R., Almutlaqah N., O’Keeffe G., Keane T.M., Fitzpatrick D.A., Owens R.A. Proteomic Characterization of Armillaria mellea Reveals Oxidative Stress Response Mechanisms and Altered Secondary Metabolism Profiles. Microorganisms 5:E60

Devaney J.L., Lehmann M., Feller I.C. and Parker J.D. Mangrove microclimates alter seedling dynamics at the range edge. Ecology, 2513-2520

2016

Dirilgen T., Arroyo J., Dimmers W.J., Faber J., Stone D., Martins da Silva P., Carvalho F., Schmelz R., Griffiths B.S., Francisco R., Creamer R.E., Sousa J.P., Bolger T. Mite community composition across a European transect and its relationships to variation in other components of soil biodiversity. Applied Soil Ecology, 97, 86-97

2014

Devaney J.L., Jansen M.A. and Whelan P.M. Spatial patterns of natural regeneration in stands of English yew (Taxus baccata L.); Negative neighbourhood effects. Forest ecology and management, 321, pp.52-60

2012

Dang X.D., Kelleher C.T., Howard-Williams E., Meade C.V. Rapid identification of chloroplast haplotypes using High Resolution Melting analysis. Molecular Ecology Resources 12(5), 894-908