Dr James Carolan

Biology,

Lecturer

Callan
2.29
(01) 7086367

Biography

1998 BA, Botany, Trinity College Dublin
2004 PhD, Trinity College Dublin
2004 Technical Officer; SBES, University College Dublin
2004-2008 Science Foundation Ireland Postdoctoral Fellow, UCD SBES
2007-2010 Assistant Lecturer, UCD SBES
2010-2011 SFI Postdoctoral Fellow, Department of Zoology, Trinity College Dublin
2011-2013 Assistant Lecturer, Department of Biology, Maynooth University
2013- Lecturer in Biology, Department of Biology, Maynooth University

Twitter: @JimCarolanMU
URL: https://www.researchgate.net/profile/James_Carolan

Research Interests

Throughout Nature, organisms interact with each other. Some of these interactions may be mutualistic and benefit both partners whereas others may be parasitic and involve one organism benefiting to the detriment of the other. Research in my group (Applied Proteomics Laboratory) investigates such interactions, specifically those involving important plant, insect and microbial species of economic, biomedical and agricultural significance. We adopt an integrated approach employing genomics, transcriptomics and proteomics to identify and investigate the interactions at the molecular and cellular level. My work has elucidated the molecular basis of many interactions and is leading us to the development of practical strategies for pest management and insect conservation. I have considerable expertise in non-model organism proteomics and data analysis and routinely develop bespoke proteomic strategies for groups and collaborators applying proteomic methodologies to their research for the first time.

Current research in our lab can be classified into four broad areas:

1. Aphid-plant interactions
A considerable component of our research involves the economically important plant pest, the aphid (the dreaded greenfy!). We are particularly interested in aphid-plant interactions and have developed methods to acquire and analyse aphid effectors (molecules that modulate or negate plant host defences) and saliva allowing us to identify the molecular determinants of plant resistance/susceptibility and aphid virulence/avirulence. This research which is conducted with numerous international collaborators is resulting in a more detailed understanding of the plant/aphid interaction and provides insight into host plant selection processes and the ongoing chemical arms race between plants and aphids that began 250 million years ago. I am a member of the International Aphid Genomics Consortium a group of over 120 International researchers responsible for sequencing and annotating the genomes of a number of aphid species including the recently published Acyrthosiphon pisum and coordinate the AphidAtlas project which involves the application of proteomic data to assist gene and genome annotation (proteogenomics). We are also interested in other aspects of aphid biology including symbiont interactions, immunology and reproduction.

2. Investigating the decline of a key ecological pollinator; the bumblebee
Bumblebees are key ecological service providers and play an essential role in the maintenance and productivity of both wild and commercial plant communities. However, these valuable pollinators are currently facing major declines due to a combination of factors including climate change, intensive agriculture, introduction of alien species, exposure to chemical toxins, and the spread of pathogens and parasites. Given their importance. little is known about the molecular level effects these factors have on bees and research in our group aims to address these knowledge gaps by characterising cellular and molecular level changes in bees to various stressors (pathogens, parasites and pesticides) in both native and commercial bees.We are also involved in a number of bumblebee conservation programmes and insect DNA barcoding studies and we have recently initiated the Bumblebee Nest Initiative on the Maynooth University campus in an attempt to provide nesting sites for emerging spring queens which will ultimately benefit the flora on campus with increased pollination services. I was a member of the Bumblebee Genome Initiative that published the genomes for Bombus terrestris and B. ignitus (see publications) and I was involved in immune gene and haemolymph protein annotation efforts.

3. Identification of natural bioadhesives with potential medical application
Many organisms have evolved highly adaptive mechanisms of adhesion that underpin crucial aspects of their habit. In collaboration with the UCD Nanofunctional Group we are investigating marine bioadhesive systems used by fish ectoparasites to attach to their slimy and wet host. We have sequenced the genome for one of these parasites and directly identified the protein components of the adhesive matrix using mass spectrometry based proteomics. These proteins are now being investigated further to determine their potential as synthetic bioadhesives.

4. Investigating the molecular basis of Ascariasis using a murine model
Ascariasis is a disease of humans caused by infection of the nematode Ascaris lumbricoides. It is very common in developing countries and it is estimated that over 800 million people are currently infected. In a collaborative effort with Professor Celia Holland (Trinity College Dublin) we apply quantitative proteomics to investigate host-parasite interactions between two murine strains with differential resistance to the nematode. Our work has uncovered clear intrinsic differences in the host liver proteome and the response to Ascaris which provides new insights into the molecular determinants of resistance. We plan to further expand this work in an attempt to identify novel molecular processes and targets for treating or even preventing this disease, one that affects almost one sixth of the human population.


Book Chapters

  Year Publication
2016 'Proteomic Insights into the Hidden World of Phloem Sap Feeding'
Rao S.A., Carolan J.C.*, Wilkinson, T.L (2016) 'Proteomic Insights into the Hidden World of Phloem Sap Feeding' In: Management of Insect Pests to Agriculture. Springer International Publishing. [DOI] [IR Link] [Details]
2012 'Breaching the Sieve Element-The Role of Saliva as the Molecular Interface Between Aphids and the Phloem'
Will T.;Carolan J.;Wilkinson T. (2012) 'Breaching the Sieve Element-The Role of Saliva as the Molecular Interface Between Aphids and the Phloem' In: Phloem: Molecular Cell Biology, Systemic Communication, Biotic Interactions. [DOI] [Details]
2012 'Molecular interactions between aphids and host plants'
Will, T., Carolan J.C. and Wilkinson, T.L. (2012) 'Molecular interactions between aphids and host plants' In: Phloem: Molecular Cell Biology, Systemic Communication, Biotic Interactions. Wiley-Blackwell. [DOI] [Details]

Peer Reviewed Journals

  Year Publication
2019 'Exposure to microplastics reduces attachment strength and alters the haemolymph proteome of blue mussels (Mytilus edulis)'
Green D.;Colgan T.;Thompson R.;Carolan J. (2019) 'Exposure to microplastics reduces attachment strength and alters the haemolymph proteome of blue mussels (Mytilus edulis)'. Environmental Pollution, 246 :423-434 [DOI] [Details]
2019 'Molecular characterization of Hydrellia lagarosiphon, a leaf mining biological control agent for Lagarosiphon major, reveals weak variance across large geographic areas in South Africa'
Mangan R.;Carolan J.;Baars J. (2019) 'Molecular characterization of Hydrellia lagarosiphon, a leaf mining biological control agent for Lagarosiphon major, reveals weak variance across large geographic areas in South Africa'. Biological Control, 132 :8-15 [DOI] [Details]
2018 'Bumblebees of the Azores (Apidae: Bombus)'
Oliver E. Prŷs-Jones and Paul H. Williams and James C. Carolan (2018) 'Bumblebees of the Azores (Apidae: Bombus)'. Journal of Natural History, 52 (5-6):345-349 [DOI] [Details]
2018 'Fast evolution and lineage-specific gene family expansions of aphid salivary effectors driven by interactions with host-plants'
Boulain H.;Legeai F.;Guy E.;Morlière S.;Douglas N.;Oh J.;Murugan M.;Smith M.;Jaquiéry J.;Peccoud J.;White F.;Carolan J.;Simon J.;Sugio A. (2018) 'Fast evolution and lineage-specific gene family expansions of aphid salivary effectors driven by interactions with host-plants'. Genome Biology and Evolution, 10 (6):1554-1572 [DOI] [Details]
2018 'The effect of entomopathogenic fungal culture filtrate on the immune response and haemolymph proteome of the large pine weevil, Hylobius abietis'
Namara LM;Griffin CT;Fitzpatrick D;Kavanagh K;Carolan JC; (2018) 'The effect of entomopathogenic fungal culture filtrate on the immune response and haemolymph proteome of the large pine weevil, Hylobius abietis'. Insect Biochemistry and Molecular Biology, [DOI] [Details]
2015 'The genomes of two key bumblebee species with primitive eusocial organization'
Sadd B.;Barribeau S.;Bloch G.;de Graaf D.;Dearden P.;Elsik C.;Gadau J.;Grimmelikhuijzen C.;Hasselmann M.;Lozier J.;Robertson H.;Smagghe G.;Stolle E.;Van Vaerenbergh M.;Waterhouse R.;Bornberg-Bauer E.;Klasberg S.;Bennett A.;Câmara F.;Guigó R.;Hoff K.;Mariotti M.;Munoz-Torres M.;Murphy T.;Santesmasses D.;Amdam G.;Beckers M.;Beye M.;Biewer M.;Bitondi M.;Blaxter M.;Bourke A.;Brown M.;Buechel S.;Cameron R.;Cappelle K.;Carolan J.;Christiaens O.;Ciborowski K.;Clarke D.;Colgan T.;Collins D.;Cridge A.;Dalmay T.;Dreier S.;du Plessis L.;Duncan E.;Erler S.;Evans J.;Falcon T.;Flores K.;Freitas F.;Fuchikawa T.;Gempe T.;Hartfelder K.;Hauser F.;Helbing S.;Humann F.;Irvine F.;Jermiin L.;Johnson C.;Johnson R.;Jones A.;Kadowaki T.;Kidner J.;Koch V.;Köhler A.;Kraus F.;Lattorff H.;Leask M.;Lockett G.;Mallon E.;Antonio D.;Marxer M.;Meeus I.;Moritz R.;Nair A.;Näpflin K.;Nissen I.;Niu J.;Nunes F.;Oakeshott J. (2015) 'The genomes of two key bumblebee species with primitive eusocial organization'. Genome Biology, 16 (1) [DOI] [Details]
2015 'Revealing the hidden niches of cryptic bumblebees in Great Britain: Implications for conservation'
Scriven, JJ;Woodall, LC;Tinsley, MC;Knight, MIE;Williams, PH;Carolan, JC;Brown, MJF;Goulson, D (2015) 'Revealing the hidden niches of cryptic bumblebees in Great Britain: Implications for conservation'. Biological Conservation, 182 :126-133 [DOI] [IR Link] [Details]
2015 'Prolonged pre-incubation increases the susceptibility of Galleria mellonella larvae to bacterial and fungal infection'
Browne, N;Surlis, C;Maher, A;Gallagher, C;Carolan, JC;Clynes, M;Kavanagh, K (2015) 'Prolonged pre-incubation increases the susceptibility of Galleria mellonella larvae to bacterial and fungal infection'. Virulence, 6 :458-465 [DOI] [IR Link] [Details]
2018 'Quantitative proteomics reveals divergent responses in Apis mellifera worker and drone pupae to parasitization by Varroa destructor'
Surlis C;Carolan JC;Coffey M;Kavanagh K; (2018) 'Quantitative proteomics reveals divergent responses in Apis mellifera worker and drone pupae to parasitization by Varroa destructor'. Journal of Insect Physiology, [DOI] [Details]
2017 'The effect of entomopathogenic fungal culture filtrate on the immune response of the greater wax moth, Galleria mellonella'
Mc Namara, L;Carolan, JC;Griffin, CT;Fitzpatrick, D;Kavanagh, K (2017) 'The effect of entomopathogenic fungal culture filtrate on the immune response of the greater wax moth, Galleria mellonella'. Journal of Insect Physiology, 100 :82-92 [DOI] [Details]
2016 'Proteomic analysis of Bayvarol® resistance mechanisms in the honey bee parasite Varroa destructor'
Surlis C.;Carolan J.;Coffey M.;Kavanagh K. (2016) 'Proteomic analysis of Bayvarol® resistance mechanisms in the honey bee parasite Varroa destructor'. Journal of Apicultural Research, :1-16 [DOI] [Details]
2013 'Proteomic Profiling of Cereal Aphid Saliva Reveals Both Ubiquitous and Adaptive Secreted Proteins'
Rao S.;Carolan J.;Wilkinson T. (2013) 'Proteomic Profiling of Cereal Aphid Saliva Reveals Both Ubiquitous and Adaptive Secreted Proteins'. PLoS ONE, 8 (2) [DOI] [IR Link] [Details]
2011 'Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum): A dual transcriptomic/proteomic approach'
Carolan J.;Caragea D.;Reardon K.;Mutti N.;Dittmer N.;Pappan K.;Cui F.;Castaneto M.;Poulain J.;Dossat C.;Tagu D.;Reese J.;Reeck G.;Wilkinson T.;Edwards O. (2011) 'Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum): A dual transcriptomic/proteomic approach'. Journal of Proteome Research, 10 (4):1505-1518 [DOI] [IR Link] [Details]
2016 'A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model'
Deslyper G;Colgan TJ;Cooper AJ;Holland CV;Carolan JC; (2016) 'A Proteomic Investigation of Hepatic Resistance to Ascaris in a Murine Model'. PLoS Neglected Tropical Diseases, 10 (8) [DOI] [IR Link] [Details]
2009 'The secreted salivary proteome of the pea aphid Acyrthosiphon pisum characterised by mass spectrometry'
Carolan J.;Fitzroy C.;Ashton P.;Douglas A.;Wilkinsonl T. (2009) 'The secreted salivary proteome of the pea aphid Acyrthosiphon pisum characterised by mass spectrometry'. Proteomics, 9 (9):2457-2467 [DOI] [IR Link] [Details]
2015 'A massive expansion of effector genes underlies gall-formation in the wheat pest Mayetiola destructor'
The International Hessian Fly Genomics Consortium: Zhao C., et al., including Carolan, J.C. (2015) 'A massive expansion of effector genes underlies gall-formation in the wheat pest Mayetiola destructor'. Current Biology, 25 :613-620 [DOI] [Details]
2015 'A depauperate immune repe​rtoire precedes evolution of sociality in bees. Genome Biology​, 16, 83'
Barribeau, SM, Sadd, BM, du Plessis, L, Brown, MJF, Buechel, SD, Cappelle, K, Carolan, JC et al. (2015) 'A depauperate immune repe​rtoire precedes evolution of sociality in bees. Genome Biology​, 16, 83'. Genome Biology, 16 [DOI] [Details]
2015 'The genomes of two key bumblebee species with primitive eusocial organization. Genome Biology'
The International Bumblebee Genomics Consortium (2015). Sadd B., et al., including Carolan, J.C. (2015) 'The genomes of two key bumblebee species with primitive eusocial organization. Genome Biology'. Genome Biology, 16 [DOI] [IR Link] [Details]
2013 'Proteomic profiling of cereal aphid saliva reveals both ubiquitous and adaptive secreted proteins'
Rao S.A., Carolan J.C.*, Wilkinson, T.L (2013) (2013) 'Proteomic profiling of cereal aphid saliva reveals both ubiquitous and adaptive secreted proteins'. PLoS ONE, 8 [DOI] [IR Link] [Details]
2012 'Cryptic bumblebee species: consequences for conservation and the trade in greenhouse pollinators'
Williams P.H., An J., Brown M.J.F., Carolan J.C., Goulson D., Huang J. & Ito M. (2012) 'Cryptic bumblebee species: consequences for conservation and the trade in greenhouse pollinators'. PLoS ONE, 7 [DOI] [IR Link] [Details]
2012 'Colour patterns do not diagnose species: quantitative evaluation of a DNA barcoded cryptic bumblebee complex'
Carolan J.C., Murray T.E., Fitzpatrick Ú., Crossley J., Schmidt H., Cederberg B., McNally L., Paxton R.J., Williams, P.H. & Brown, M.J.F (2012) 'Colour patterns do not diagnose species: quantitative evaluation of a DNA barcoded cryptic bumblebee complex'. PLoS ONE, 7 [DOI] [IR Link] [Details]
2011 'Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum) – a dual transcriptomic/proteomic approach'
Carolan, J.C., Caragea, D., Reardon, K.T., Mutti, N.S., Pappan, K., Dittmer, N, Cui, F., Reeck, G.R, Castaneto, M., Poulain, J., Dossat, C., Wilkinson, T.L., Tagu, D., Reese, J.C. and Edwards, O.R. (2011) 'Predicted effector molecules in the salivary secretome of the pea aphid (Acyrthosiphon pisum) – a dual transcriptomic/proteomic approach'. Journal of Proteome Research, 10 :1505-1518 [DOI] [IR Link] [Details]
2011 'Polyphenism in social insects: Insights from a transcriptome-wide analysis of gene expression in the life stages of the key pollinator, Bombus terrestris'
Colgan, T.J., Carolan, J.C., Bridgett, S.J., Sumner, S., Blaxter, M.L., Brown, M.J.F. (2011) 'Polyphenism in social insects: Insights from a transcriptome-wide analysis of gene expression in the life stages of the key pollinator, Bombus terrestris'. BMC Genomics, 12 [DOI] [IR Link] [Details]
2010 'Integrated metabonomic-proteomic analysis of an insect-bacterial symbiotic system'
Wang, Y., Carolan, J.C.*., Hao, F-H., Nicholson, J., Wilkinson, T.L. & Douglas, A.E. (2010) 'Integrated metabonomic-proteomic analysis of an insect-bacterial symbiotic system'. Journal of Proteome Research, 9 :1257-1267 [IR Link] [Details]
2010 'Genome Sequence of the Pea Aphid Acyrthosiphon pisum'
International Aphid Genomics Consortium (including Carolan, J.C.) (2010) 'Genome Sequence of the Pea Aphid Acyrthosiphon pisum'. PLoS Biology, 8 [DOI] [IR Link] [Details]
2009 'Isolation and characterisation of a cathepsin L gene from Strongylus vulgaris'
Nic An Ultaigh, S., Carolan, J.C., Britton, C., Murray, L. & Ryan, M.F (2009) 'Isolation and characterisation of a cathepsin L gene from Strongylus vulgaris'. Experimental Parasitology, 121 :293-299 [IR Link] [Details]
2006 'Phylogenetics of Papaver and related genera based on DNA sequences from ITS nuclear ribosomal DNA and plastid trnL intron and trnL–F intergenic Spacers'
Carolan, J.C., Hook, I.L.I., Chase, M.W., Kadereit, J.W. & Hodkinson, T.R. (2006) 'Phylogenetics of Papaver and related genera based on DNA sequences from ITS nuclear ribosomal DNA and plastid trnL intron and trnL–F intergenic Spacers'. Annals of Botany, 98 :141-155 [IR Link] [Details]
2005 'A proteomics approach to identify key components of aphid saliva'
Carolan, J.C. &Wilkinson.T.L. (2005) 'A proteomics approach to identify key components of aphid saliva'. Comparative Biochemistry and Physiology, 141 :S225-S236 [Details]
2002 'Using AFLP markers for species differentiation and assessment of genetic variability of in vitro-cultured Papaver bracteatum (section Oxytona)'
Carolan J.C., Hook, , I.L.I., Walsh, J.J. & Hodkinson, T.R. (2002) 'Using AFLP markers for species differentiation and assessment of genetic variability of in vitro-cultured Papaver bracteatum (section Oxytona)'. IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY, 38 :300-307 [IR Link] [Details]

Reviews

  Year Publication
2012 Unveiling cryptic species of the bumblebee subgenus Bombus s. str. worldwide with COI barcodes (Hymenoptera: Apidae).
Williams P.;Brown M.;Carolan J.;An J.;Goulson D.;Aytekin A.;Best L.;Byvaltsev A.;Cederberg B.;Dawson R.;Huang J.;Ito M.;Monfared A.;Raina R.;Schmid-Hempel P.;Sheffield C.;Å ima P.;Xie Z. (2012) Unveiling cryptic species of the bumblebee subgenus Bombus s. str. worldwide with COI barcodes (Hymenoptera: Apidae). Reviews [DOI] [Details]