• United Kingdom

Accepting PhD Students

19992020

Research output per year

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Research Output

2020

A high-throughput genomic screen identifies a role for the plasmid-borne type II secretion system of Escherichia coli O157:H7 (Sakai) in plant-microbe interactions

Holmes, A., Pritchard, L., Hedley, P. E., Morris, J., McAteer, S. P., Gally, D. L. & Holden, N. J., 12 Jul 2020, In : Genomics. 112, 6, p. 4242-4253 12 p.

Research output: Contribution to journalArticle

A high-throughput genomic screen identifies a role for the plasmid-borne type II secretion system of Escherichia coli O157:H7 (Sakai) in plant-microbe interactions

Holmes, A., Pritchard, L., Hedley, P., Morris, J., McAteer, S. P., Gally, D. L. & Holden, N. J., 13 Apr 2020, Cold Spring Harbor, N.Y., 30 p.

Research output: Working paper

Open Access
File
1 Downloads (Pure)

Corrigendum: Pectobacterium parvum sp. nov., having a salmonella SPI-1-like type iii secretion system and low virulence (Int J Syst Evol Microbiol, 2020, 10.1099/ijsem.0.004057)

Pasanen, M., Waleron, M., Schott, T., Cleenwerck, I., Misztak, A., Waleron, K., Pritchard, L., Bakr, R., Degefu, Y., van der Wolf, J., Vandamme, P. & Pirhonen, M., 1 Jan 2020, In : International Journal of Systematic and Evolutionary Microbiology. 70, 4, 1 p., 004111.

Research output: Contribution to journalComment/debate

Open Access
File
1 Downloads (Pure)

Dataset of Escherichia coli O157: H7 genes enriched in adherence to spinach root tissue

Holmes, A., Pritchard, L., Hedley, P., Morris, J., McAteer, S. P., Gally, D. L. & Holden, N. J., 31 Aug 2020, In : Data in Brief. 31, 5 p., 105769.

Research output: Contribution to journalArticle

Open Access
File
1 Downloads (Pure)

Diversity of woody-host infecting Phytophthora species in public parks and botanic gardens as revealed by metabarcoding, and opportunities for mitigation through best practice

Green, S., Riddell, C. E., Frederickson-Matika, D., Armstrong, A., Elliot, M., Forster, J., Hedley, P. E., Morris, J., Thorpe, P., Cooke, D. E. L., Sharp, P. & Pritchard, L., 21 Feb 2020, In : Sibbaldia. 18, p. 67-88 22 p.

Research output: Contribution to journalArticle

Open Access
File
1 Downloads (Pure)

Pectobacterium parvum sp. nov. having a Salmonella SPI-1-like Type III secretion system and low virulence

Pasanen, M., Waleron, M., Schott, T., Cleenwerk, I., Misztak, A., Waleron, K., Pritchard, L., Bakr, R., Degefu, Y., van der Wolf, J., Vandamme, P. & Pirhonen, M., 20 Feb 2020, In : International Journal of Systematic and Evolutionary Microbiology. 70, 4, p. 2440-2448 9 p.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
3 Downloads (Pure)
2019

Easily phylotyping E. coli via the EzClermont web app and command-line tool

Waters, N. R., Abram, F., Brennan, F., Holmes, A. & Pritchard, L., 31 Dec 2019, Cold Spring Harbor, NY, 6 p.

Research output: Working paper

Open Access
File
2 Downloads (Pure)

find_differential_primers.py v0.1.4: automated discovery of diagnostic PCR or qPCR primers

Pritchard, L. & McLeod, R., 8 Oct 2019

Research output: Non-textual formSoftware

Open Access

Metabarcoding reveals a high diversity of woody host-associated Phytophthora spp. in soils at public gardens and amenity woodlands in Britain

Riddell, C. E., Frederickson-Matika, D., Armstrong, A. C., Elliot, M., Forster, J., Hedley, P. E., Morris, J., Thorpe, P., Cooke, D. EL., Pritchard, L., Sharp, P. M. & Green, S., 16 May 2019, In : PeerJ. 7, 31 p., e6931.

Research output: Contribution to journalArticle

Open Access
File
1 Downloads (Pure)

pyani v0.2.8: average nucleotide identity (ANI) and related measures for whole genome comparisons

Pritchard, L., Cock, P. & Esen, Ö., 5 Mar 2019

Research output: Non-textual formSoftware

Open Access

Toward collaborative open data science in metabolomics using Jupyter Notebooks and cloud computing

Mendez, K. M., Pritchard, L., Reinke, S. N. & Broadhurst, D. I., 31 Oct 2019, In : Metabolomics. 15, 16 p., 125.

Research output: Contribution to journalArticle

Open Access
File
3 Citations (Scopus)
27 Downloads (Pure)

We need to talk about metabarcoding: identification of Phytophthora species in environmental samples

Pritchard, L., Cock, P., Thorpe, P., Clark, B., Randall, E., Green, S. & Cooke, D., 9 Jul 2019. 1 p.

Research output: Contribution to conferencePoster

Open Access
File
2 Downloads (Pure)
2018

Absence of curli in soil-persistent Escherichia coli is mediated by a C-di-GMP signaling defect and suggests evidence of biofilm-independent niche specialization

Somorin, Y. M., Vollmerhausen, T., Waters, N., Pritchard, L., Abram, F., Brennan, F. & O'Byrne, C., 22 Jun 2018, In : Frontiers in Microbiology. 9, 13 p., 1340.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
4 Downloads (Pure)

riboSeed: leveraging prokaryotic genomic architecture to assemble across ribosomal regions

Waters, N. R., Abram, F., Brennan, F., Holmes, A. & Pritchard, L., 20 Jun 2018, In : Nucleic Acids Research. 46, 11, 10 p., e68.

Research output: Contribution to journalArticle

Open Access
File
1 Citation (Scopus)
1 Downloads (Pure)

Toward assessing farm-based anaerobic digestate public health risks: comparative investigation with slurry, effect of pasteurization treatments, and use of miniature bioreactors as proxies for pathogen spiking trials

Nolan, S., Waters, N. R., Brennan, F., Auer, A., Fenton, O., Richards, K., Bolton, D. J., Pritchard, L., O'Flaherty, V. & Abram, F., 20 Jul 2018, In : Frontiers in Sustainable Food Systems. 2, 11 p., 41.

Research output: Contribution to journalArticle

Open Access
File
5 Citations (Scopus)
5 Downloads (Pure)
2017

Metagenomic analysis of the gut microbiome of the common black slug arion ater in search of novel lignocellulose degrading enzymes

Joynson, R., Pritchard, L., Osemwekha, E. & Ferry, N., 8 Nov 2017, In : Frontiers in Microbiology. 8, 11 p., 2181.

Research output: Contribution to journalArticle

Open Access
File
4 Citations (Scopus)
6 Downloads (Pure)
1 Downloads (Pure)
2016

Genomics and taxonomy in diagnostics for food security: soft-rotting enterobacterial plant pathogens

Pritchard, L., Glover, R. H., Humphris, S., Elphinstone, J. G. & Toth, I. K., 7 Jan 2016, In : Analytical Methods. 8, 1, p. 12-24 13 p.

Research output: Contribution to journalReview article

143 Citations (Scopus)
2015

Detection of the bacterial potato pathogens pectobacterium and dickeya spp. using conventional and real-time PCR

Humphris, S. N., Cahill, G., Elphinstone, J. G., Kelly, R., Parkinson, N. M., Pritchard, L., Toth, I. K. & Saddler, G. S., 1 Jan 2015, In : Methods in Molecular Biology. 1302, p. 1-16 17 p.

Research output: Contribution to journalArticle

13 Citations (Scopus)

Epidemiology of Dickeya dianthicola and Dickeya solani in ornamental hosts and potato studied using variable number tandem repeat analysis

Parkinson, N., Pritchard, L., Bryant, R., Toth, I. & Elphinstone, J., 31 Jan 2015, In : European Journal of Plant Pathology. 141, 1, p. 63-70 8 p.

Research output: Contribution to journalArticle

10 Citations (Scopus)

Why genomics research on pectobacterium and dickeya makes a difference

Toth, I., Humphris, S., Campbell, E. & Pritchard, L., 12 Mar 2015, In : American Journal of Potato Research. 92, 2, p. 218-222 5 p.

Research output: Contribution to journalArticle

5 Citations (Scopus)
2014

Dickeya solani sp. nov., a pectinolytic plant-pathogenic bacterium isolated from potato (Solanum tuberosum)

van der Wolf, J. M., Nijhuis, E. H., Kowalewska, M. J., Saddler, G. S., Parkinson, N., Elphinstone, J. G., Pritchard, L., Toth, I. K., Lojkowska, E., Potrykus, M., Waleron, M., de Vos, P., Cleenwerck, I., Pirhonen, M., Garlant, L., Hélias, V., Pothier, J. F., Pflüger, V., Duffy, B., Tsror, L. & 1 others, Manulis, S., 1 Mar 2014, In : International Journal of Systematic and Evolutionary Microbiology. 64, 3, p. 768-774 7 p.

Research output: Contribution to journalArticle

109 Citations (Scopus)

Galaxy as a platform for identifying candidate pathogen effectors

Cock, P. J. A. & Pritchard, L., 19 Mar 2014, Plant-Pathogen Interactions: Methods and Protocols. Birch, P., Jones, J. T. & Bos, J. I. B. (eds.). 2nd ed. New York: Springer, p. 3-15 13 p. (Methods in Molecular Biology; vol. 1127).

Research output: Chapter in Book/Report/Conference proceedingChapter

5 Citations (Scopus)

On the statistics of identifying candidate pathogen effectors

Pritchard, L. & Broadhurst, D., 19 Mar 2014, Plant-Pathogen Interactions: Methods and Protocols. Birch, P., Jones, J. T. & Bos, J. I. B. (eds.). 2nd ed. New York: Springer, p. 53-64 12 p. (Methods in Molecular Biology; vol. 1127).

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

The zigzag model of plant-microbe interactions: is it time to move on?

Pritchard, L. & Birch, P. R. J., 9 Nov 2014, In : Molecular Plant Pathology. 15, 9, p. 865-870 6 p.

Research output: Contribution to journalArticle

Open Access
31 Citations (Scopus)
2013

An RxLR effector from Phytophthora infestans prevents re-localisation of two plant NAC transcription factors from the endoplasmic reticulum to the nucleus

McLellan, H., Boevink, P. C., Armstrong, M. R., Pritchard, L., Gomez, S., Morales, J., Whisson, S. C., Beynon, J. L. & Birch, P. R. J., 10 Oct 2013, In : PLOS Pathogens. 9, 10, 16 p., e1003670.

Research output: Contribution to journalArticle

Open Access
File
107 Citations (Scopus)
3 Downloads (Pure)

Detection of phytopathogens of the genus Dickeya using a PCR primer prediction pipeline for draft bacterial genome sequences

Pritchard, L., Humphris, S., Saddler, G. S., Parkinson, N. M., Bertrand, V., Elphinstone, J. G. & Toth, I. K., 30 Jun 2013, In : Plant Pathology. 62, 3, p. 587-596 10 p.

Research output: Contribution to journalArticle

57 Citations (Scopus)

Draft genome sequences of 17 isolates of the plant pathogenic bacterium Dickeya

Pritchard, L., Humphris, S., Saddler, G. S., Elphinstone, J. G., Pirhonen, M. & Toth, I. K., 21 Nov 2013, In : Genome Announcements. 1, 6, 2 p., e00978-13.

Research output: Contribution to journalArticle

Open Access
File
15 Citations (Scopus)
1 Downloads (Pure)

Draft genome sequences of four Dickeya dianthicola and four Dickeya solani strains

Pritchard, L., Humphris, S., Baeyen, S., Maes, M., Van Vaerenbergh, J., Elphinstone, J., Saddler, G. & Toth, I., 25 Jul 2013, In : Genome Announcements. 1, 4, 2 p., e00087-12.

Research output: Contribution to journalArticle

Open Access
File
24 Citations (Scopus)

Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology

Cock, P. J. A., Grüning, B. A., Paszkiewicz, K. & Pritchard, L., 17 Sep 2013, In : PeerJ. 22 p., e167.

Research output: Contribution to journalArticle

Open Access
File
78 Citations (Scopus)
1 Downloads (Pure)

Mechanisms of plant colonization by human pathogenic bacteria: an emphasis on the roots and rhizosphere

Holden, N. J., Pritchard, L., Wright, K. & Toth, I. K., 3 May 2013, Molecular Microbial Ecology of the Rhizosphere. de Bruijn, F. J. (ed.). Hoboken, New Jersey: John Wiley & Sons Inc., Vol. 2. p. 1217-1226 10 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

2 Citations (Scopus)

Resistance gene enrichment sequencing (RenSeq) enables reannotation of the NB-LRR gene family from sequenced plant genomes and rapid mapping of resistance loci in segregating populations

Jupe, F., Witek, K., Verweij, W., Śliwka, J., Pritchard, L., Etherington, G. J., Maclean, D., Cock, P. J., Leggett, R. M., Bryan, G. J., Cardle, L., Hein, I. & Jones, J. D. G., 30 Nov 2013, In : Plant Journal. 76, 3, p. 530-544 15 p.

Research output: Contribution to journalArticle

Open Access
File
153 Citations (Scopus)
1 Downloads (Pure)

Using tablet for visual exploration of second-generation sequencing data

Milne, I., Stephen, G., Bayer, M., Cock, P. J. A., Pritchard, L., Cardle, L., Shawand, P. D. & Marshall, D., 31 Mar 2013, In : Briefings in Bioinformatics. 14, 2, p. 193-202 10 p.

Research output: Contribution to journalArticle

446 Citations (Scopus)
2012

Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia coli O104:H4 outbreak strains

Pritchard, L., Holden, N. J., Bielaszewska, M., Karch, H. & Toth, I. K., 5 Apr 2012, In : PLoS ONE. 7, 4, 8 p., e34498.

Research output: Contribution to journalArticle

Open Access
File
22 Citations (Scopus)
1 Downloads (Pure)

Genetic characterization of the HrpL regulon of the fire blight pathogen Erwinia amylovora reveals novel virulence factors

McNally, R. R., Toth, I. K., Cock, P. J. A., Pritchard, L., Hedley, P. E., Morris, J. A., Zhao, Y. & Sundin, G. W., 29 Feb 2012, In : Molecular Plant Pathology. 13, 2, p. 160-173 14 p.

Research output: Contribution to journalArticle

Open Access
File
44 Citations (Scopus)
11 Downloads (Pure)

Genome-wide analysis of the response of Dickeya dadantii 3937 to plant antimicrobial peptides

Rio-Alvarez, I., Rodríguez-Herva, J. J., Cuartas-Lanza, R., Toth, I., Pritchard, L., Rodríguez-Palenzuela, P. & López-Solanilla, E., 30 Apr 2012, In : Molecular Plant-Microbe Interactions. 25, 4, p. 523-533 11 p.

Research output: Contribution to journalArticle

17 Citations (Scopus)

Identification and localisation of the NB-LRR gene family within the potato genome

Jupe, F., Pritchard, L., Etherington, G. J., MacKenzie, K., Cock, P. JA., Wright, F., Sharma, S. K., Bolser, D., Bryan, G. J., Jones, J. DG. & Hein, I., 15 Feb 2012, In : BMC Genomics. 13, 14 p., 75.

Research output: Contribution to journalArticle

Open Access
File
163 Citations (Scopus)
2011

A systems biology perspective on plant-microbe interactions: biochemical and structural targets of pathogen effectors

Pritchard, L. & Birch, P., 30 Apr 2011, In : Plant Science. 180, 4, p. 584-603 20 p.

Research output: Contribution to journalReview article

44 Citations (Scopus)

Presence/absence, differential expression and sequence polymorphisms between PiAVR2 and PiAVR2-like in Phytophthora infestans determine virulence on R2 plants

Gilroy, E. M., Breen, S., Whisson, S. C., Squires, J., Hein, I., Kaczmarek, M., Turnbull, D., Boevink, P. C., Lokossou, A., Cano, L. M., Morales, J., Avrova, A. O., Pritchard, L., Randall, E., Lees, A., Govers, F., van West, P., Kamoun, S., Vleeshouwers, V. G. A. A., Cooke, D. E. L. & 1 others, Birch, P. R. J., 31 Aug 2011, In : New Phytologist. 191, 3, p. 763-776 14 p.

Research output: Contribution to journalArticle

80 Citations (Scopus)
2010

Genome-wide identification of HrpL-regulated genes in the necrotrophic phytopathogen Dickeya dadantii 3937

Yang, S., Peng, Q., Zhang, Q., Zou, L., Li, Y., Robert, C., Pritchard, L., Liu, H., Hovey, R., Wang, Q., Birch, P., Toth, I. K. & Yang, C-H., 19 Oct 2010, In : PLoS ONE. 5, 10, 10 p., e13472.

Research output: Contribution to journalArticle

Open Access
File
16 Citations (Scopus)

Reverse engineering gene regulatory networks related to quorum sensing in the plant pathogen Pectobacterium atrosepticum

Lin, K., Husmeier, D., Dondelinger, F., Mayer, C. D., Liu, H., Pritchard, L., Salmond, G. P. C., Toth, I. K. & Birch, P. R. J., 23 Sep 2010, Computational Biology. Fenyö, D. (ed.). New York: Springer, p. 253-281 29 p. (Methods in Molecular Biology; vol. 673).

Research output: Chapter in Book/Report/Conference proceedingChapter

3 Citations (Scopus)
2009

Colonization outwith the colon: plants as an alternative environmental reservoir for human pathogenic enterobacteria

Holden, N., Pritchard, L. & Toth, I., 1 Jul 2009, In : FEMS Microbiology Reviews . 33, 4, p. 689-703 15 p.

Research output: Contribution to journalReview article

94 Citations (Scopus)

Corrigendum: Bacterial chemoattraction towards jasmonate plays a role in the entry of Dickeya dadantii through wounded tissues

Antunez-Lamas, M., Cabrera, E., Lopez-Solanilla, E., Solano, R., González-Melendi, P., Chico, J. M., Toth, I., Birch, P., Pritchard, L., Liu, H. & Rodriguez-Palenzuela, P., 31 Dec 2009, In : Molecular Microbiology. 74, 6, p. 1543-1543 1 p.

Research output: Contribution to journalArticle

1 Citation (Scopus)

Genome sequence and analysis of the Irish potato famine pathogen Phytophthora infestans

Haas, B. J., Kamoun, S., Zody, M. C., Jiang, R. H. Y., Handsaker, R. E., Cano, L. M., Grabherr, M., Kodira, C. D., Raffaele, S., Torto-Alalibo, T., Bozkurt, T. O., Ah-Fong, A. M. V., Alvarado, L., Anderson, V. L., Armstrong, M. R., Avrova, A., Baxter, L., Beynon, J., Boevink, P. C., Bollmann, S. R. & 76 others, Bos, J. I. B., Bulone, V., Cai, G., Cakir, C., Carrington, J. C., Chawner, M., Conti, L., Costanzo, S., Ewan, R., Fahlgren, N., Fischbach, M. A., Fugelstad, J., Gilroy, E. M., Gnerre, S., Green, P. J., Grenville-Briggs, L. J., Griffith, J., Grünwald, N. J., Horn, K., Horner, N. R., Hu, C-H., Huitema, E., Jeong, D-H., Jones, A. M. E., Jones, J. D. G., Jones, R. W., Karlsson, E. K., Kunjeti, S. G., Lamour, K., Liu, Z., Ma, L., MacLean, D., Chibucos, M. C., McDonald, H., McWalters, J., Meijer, H. J. G., Morgan, W., Morris, P. F., Munro, C. A., O'Neill, K., Ospina-Giraldo, M., Pinzón, A., Pritchard, L., Ramsahoye, B., Ren, Q., Restrepo, S., Roy, S., Sadanandom, A., Savidor, A., Schornack, S., Schwartz, D. C., Schumann, U. D., Schwessinger, B., Seyer, L., Sharpe, T., Silvar, C., Song, J., Studholme, D. J., Sykes, S., Thines, M., van de Vondervoort, P. J. I., Phuntumart, V., Wawra, S., Weide, R., Win, J., Young, C., Zhou, S., Fry, W., Meyers, B. C., van West, P., Ristaino, J., Govers, F., Birch, P. R. J., Whisson, S. C., Judelson, H. S. & Nusbaum, C., 9 Sep 2009, In : Nature. 461, 7262, p. 393-398 6 p.

Research output: Contribution to journalArticle

Open Access
863 Citations (Scopus)

Microarray comparative genomic hybridisation analysis incorporating genomic organisation, and application to enterobacterial plant pathogens

Pritchard, L., Liu, H., Booth, C., Douglas, E., François, P., Schrenzel, J., Hedley, P. E., Birch, P. R. J. & Toth, I. K., 21 Aug 2009, In : PLoS Computational Biology. 5, 8, 17 p., e1000473.

Research output: Contribution to journalArticle

Open Access
File
7 Citations (Scopus)

Towards understanding the virulence functions of RXLR effectors of the oomycete plant pathogen Phytophthora infestans

Birch, P. R. J., Armstrong, M., Bos, J., Boevink, P., Gilroy, E. M., Taylor, R. M., Wawra, S., Pritchard, L., Conti, L., Ewan, R., Whisson, S. C., van West, P., Sadanandom, A. & Kamoun, S., 31 Mar 2009, In : Journal of Experimental Botany. 60, 4, p. 1133-1140 8 p.

Research output: Contribution to journalArticle

64 Citations (Scopus)
2008

Oomycete RXLR effectors: delivery, functional redundancy and durable disease resistance

Birch, P. RJ., Boevink, P. C., Gilroy, E. M., Hein, I., Pritchard, L. & Whisson, S. C., 1 Aug 2008, In : Current Opinion in Plant Biology. 11, 4, p. 373-379 7 p.

Research output: Contribution to journalReview article

112 Citations (Scopus)

Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum

Liu, H., Coulthurst, S. J., Pritchard, L., Hedley, P. E., Ravensdale, M., Humphris, S., Burr, T., Takle, G., Brurberg, M-B., Birch, P. R. J., Salmond, G. P. C. & Toth, I. K., 20 Jun 2008, In : PLOS Pathogens. 4, 6, 11 p., e1000093.

Research output: Contribution to journalArticle

Open Access
File
160 Citations (Scopus)

What will a genome sequence do for fire blight research? Pectobacterium atrosepticum and potato - A case study

Toth, I. K., Birch, P. R. J., Liu, H., Pritchard, L., Humphris, S., Ravensdale, M., Moleleki, L., Robert, C., Hedley, P. & Gilroy, E. M., 1 Oct 2008, In : Acta Horticulturae. 793, p. 157-162 6 p.

Research output: Contribution to journalConference article

2007

A novel non-protein-coding infection-specific gene family is clustered throughout the genome of Phytophthora infestans

Avrova, A. O., Whisson, S. C., Pritchard, L., Venter, E., De Luca, S., Hein, I. & Birch, P. R. J., 1 Mar 2007, In : Microbiology. 153, 3, p. 747-759 13 p.

Research output: Contribution to journalArticle

24 Citations (Scopus)