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2024

Green, Sarah and Cooke, David E.L. and Barwell, Louise and Purse, Bethan and Cock, Peter and Frederickson-Matika, Debra and Randall, Eva and Keillor, Beatrix and Pritchard, Leighton and Thorpe, Peter and Pettit, Tim and Schlenzig, Alexandra and Barbrook, Jane (2024) The prevalence of Phytophthora in British plant nurseries : high-risk hosts and substrates and opportunities to influence practice. Plant Pathology. ISSN 1365-3059 (In Press)

Mazloom, Reza and Pierce-Ward, N. Tessa and Sharma, Parul and Pritchard, Leighton and Brown, C. Titus and Vinatzer, Boris A. and Heath, Lenwood S. (2024) LINgroups as a robust principled approach to compare and integrate multiple bacterial taxonomies. IEEE/ACM Transactions on Computational Biology and Bioinformatics. pp. 1-11. ISSN 1545-5963

Williamson, Gordon and Harris, Thomas and Bizior, Adriana and Hoskisson, Paul Alan and Pritchard, Leighton and Javelle, Arnaud (2024) Biological ammonium transporters : evolution and diversification. FEBS Journal, 291 (17). pp. 3786-3810. ISSN 1742-464X

Humphrey, Suzanne and Marouli, Angeliki and Thümmler, Katja and Mullin, Margaret and Pritchard, Leighton and Wall, Daniel M. (2024) Genomic characterization of prophage elements in Clostridium clostridioforme : an understudied component of the intestinal microbiome. Microbiology, 170 (8). 001486. ISSN 1465-2080

Kamat, Maya T. and Ormsby, Michael J. and Humphrey, Suzanne and Dixit, Shivendra and Thümmler, Katja and Lapsley, Craig and Crouch, Kathryn and Jukes, Caitlin and Hulme, Heather and Burchmore, Richard and Meikle, Lynsey M. and Pritchard, Leighton and Wall, Daniel M. (2024) Genomic diversity of novel strains of mammalian gut microbiome derived Clostridium XIVa strains is driven by mobile genetic element acquisition. Other. bioRxiv, Cold Spring Harbor, NY.

Williamson, Gordon and Bizior, Adriana and Harris, Thomas and Pritchard, Leighton and Hoskisson, Paul A. and Javelle, Arnaud (2024) Biological ammonium transporters from the Amt/Mep/Rh superfamily : mechanism, energetics, and technical limitations. Bioscience Reports, 44 (1). BSR20211209. ISSN 1573-4935

2023

Cock, Peter and Cooke, David E. L. and Thorpe, Peter and Pritchard, Leighton (2023) THAPBI PICT - a fast, cautious, and accurate metabarcoding analysis pipeline. PeerJ, 11. e15648. ISSN 2167-8359

Kiepas, Angelika B and Hoskisson, Paul A and Pritchard, Leighton (2023) 16S rRNA phylogeny and clustering is not a reliable proxy for genome-based taxonomy in Streptomyces. Other. bioRxiv, Ithaca, NY.

Hobbs, Emma E. M. and Gloster, Tracey M. and Pritchard, Leighton (2023) cazy_webscraper : local compilation and interrogation of comprehensive CAZyme datasets. Microbial Genomics, 9 (8). 001086. ISSN 2057-5858

2022

Hobbs, Emma E. M. and Gloster, Tracey MN. and Pritchard, Leighton (2022) cazy_webscraper : local compilation and interrogation of comprehensive CAZyme datasets. Preprint / Working Paper. bioRxiv, Long Island, New York, NY, USA.

McLellan, Hazel and Harvey, Sarah E. and Steinbrenner, Jens and Armstrong, Miles R. and He, Qin and Clewes, Rachel and Pritchard, Leighton and Wang, Wei and Wang, Shumei and Nussbaumer, Thomas and Dohai, Bushra and Luo, Qingquan and Kumari, Priyanka and Duan, Hui and Roberts, Ana and Boevink, Petra C. and Neumann, Christina and Champouret, Nicolas and Hein, Ingo and Falter-Braun, Pascal and Beynon, Jim and Denby, Katherine and Birch, Paul R. J. (2022) Exploiting breakdown in nonhost effector-target interactions to boost host disease resistance. Proceedings of the National Academy of Sciences of the United States of America, 119 (35). e2114064119. ISSN 1091-6490

Mazloom, Reza and Pritchard, Leighton and Brown, C. Titus and Vinatzer, Boris A. and Heath, Lenwood S.; (2022) LINgroups as a principled approach to compare and integrate multiple bacterial taxonomies. In: Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2022. Proceedings of the 13th ACM International Conference on Bioinformatics, Computational Biology and Health Informatics, BCB 2022 . ACM, USA, pp. 1-7. ISBN 9781450393867

Feeney, Morgan Anne and Newitt, Jake Terry and Addington, Emily and Algora-Gallardo, Lis and Allan, Craig and Balis, Lucas and Birke, Anna S. and Castaño-Espriu, Laia and Charkoudian, Louise K. and Devine, Rebecca and Gayrard, Damien and Hamilton, Jacob and Hennrich, Oliver and Hoskisson, Paul A. and Keith-Baker, Molly and Klein, Joshua G. and Kruasuwan, Worarat and Mark, David R. and Mast, Yvonne and McHugh, Rebecca E. and McLean, Thomas C. and Mohit, Elmira and Munnoch, John T. and Murray, Jordan and Noble, Katie and Otani, Hiroshi and Parra, Jonathan and Pereira, Camila F. and Perry, Louisa and Pintor-Escobar, Linamaria and Pritchard, Leighton and Prudence, Samuel M. M. and Russell, Alicia H. and Schniete, Jana K. and Seipke, Ryan F. and Sélem-Mojica, Nelly and Undabarrena, Agustina and Vind, Kristiina and van Wezel, Gilles P. and Wilkinson, Barrie and Worsley, Sarah F. and Duncan, Katherine R. and Fernández-Martínez, Lorena T. and Hutchings, Matthew I. (2022) ActinoBase : tools and protocols for researchers working on Streptomyces and other filamentous actinobacteria. Microbial Genomics, 8 (7). 000824. ISSN 2057-5858

Pritchard, Leighton and Sharma, Parul and Mazloom, Reza and Pierce, Tessa and Irber, Luiz and Harrington, Bailey and Heath, Lenwood and Brown, C Titus and Vinatzer, Boris (2022) genomeRxiv : a microbial whole-genome database and diagnostic marker design resource for classification, identification, and data sharing. Access Microbiology, 4 (5). ISSN 2516-8290

Pritchard, Leighton and Brown, C. Titus and Harrington, Bailey and Heath, Lenwood S. and Pierce-Ward, N. Tessa and Vinatzer, Boris A. (2022) Could a focus on the "why" of taxonomy help taxonomy better respond to the needs of science and society? Frontiers in Microbiology, 13. 887310. ISSN 1664-302X

Kiepas, Angelika and Hoskisson, Paul A and Pritchard, Leighton (2022) Improved and extended multilocus sequence typing (MLST) scheme for Streptomyces reveals complex taxonomic structure. In: Microbiology Society Annual Conference 2022, 2022-04-03 - 2022-04-07, Belfast International Conference Centre.

Pritchard, Leighton and Brown, C. Titus and Harrington, Bailey and Heath, Lenwood S. and Pierce-Ward, N. Tessa and Vinatzer, Boris A. (2022) Could a focus on the "why" of taxonomy help taxonomy better respond to the needs of science and society? Preprint / Working Paper. Preprints, Basel, Switzerland.

2021

Green, Sarah and Cooke, David E. L. and Dunn, Mike and Barwell, Louise and Purse, Bethan and Chapman, Daniel S. and Valatin, Gregory and Schlenzig, Alexandra and Barbrook, Jane and Pettit, Tim and Price, Colin and Pérez-Sierra, Ana and Frederickson-Matika, Debbie and Pritchard, Leighton and Thorpe, Peter and Cock, Peter and Randall, Eva and Keillor, Beatrix and Marzano, Mariella (2021) Phyto-threats : addressing threats to UK forests and woodlands from phytophthora; identifying risks of spread in trade and methods for mitigation. Forests, 12 (12). 1617. ISSN 1999-4907

Hugouvieux-Cotte-Pattat, Nicole and Jacot-des-Combes, Cécile and Briolay, Jérôme and Pritchard, Leighton (2021) Proposal for the creation of a new genus Musicola gen. nov., reclassification of Dickeya paradisiaca (Samson et al. 2005) as Musicola paradisiaca comb. nov. and description of a new species Musicola keenii sp. nov. International Journal of Systematic and Evolutionary Microbiology, 71 (10). 005037. ISSN 1466-5026

Pritchard, Leighton and Humphris, Sonia and Campbell, Emma and Watts, Lauren and Haynes, Ed and Pufal, Hollie and Cahill, Greig and Davey, Triona and Elphinstone, John and Toth, Ian (2021) Intraspecies-Resolution Metabarcoding : automated primer design and a plant pathology case study. In: Microbiology Society Annual Conference 2021, 2021-04-26 - 2021-04-30, Online.

Pritchard, Leighton and Harrington, Bailey and Irber, Luiz and Mazloom, Reza and Pierce, Tessa and Sharma, Parul and Heath, Lenwood and Brown, C Titus and Vinatzer, Boris (2021) genomeRxiv : a microbial whole-genome database for classification, identification, and data sharing. In: Microbiology Society Annual Conference 2021, 2021-04-26 - 2021-04-30, Online.

Hobbs, Emma and Gloster, Tracey and Chapman, Sean and Pritchard, Leighton (2021) Comprehensive evaluation of CAZyme prediction tools in fungal and bacterial species. In: Microbiology Society Annual Conference 2021, 2021-04-26 - 2021-04-30, Online.

Hobbs, Emma and Gloster, Tracey and Chapman, Sean and Pritchard, Leighton (2021) cazy_webscraper : For creating a local CAZy database. In: Microbiology Society Annual Conference 2021, 2021-04-26 - 2021-04-30, Online.

van der Wolf, Jan M. and Cahill, Greig and Van Gijsegem, Frédérique and Hélias, Valérie and Humphris, Sonia and Li, Xiang (Sean) and Lojkowska, Ewa and Pritchard, Leighton; Van Gijsegem, Frédérique and van der Wolf, Jan and Toth, Ian, eds. (2021) Isolation, detection and characterization of Pectobacterium and Dickeya species. In: Plant Diseases Caused by Dickeya and Pectobacterium Species. Springer, Cham, Switzerland, pp. 149-173. ISBN 9783030614591

2020

Holmes, Ashleigh and Pritchard, Leighton and Hedley, Peter E. and Morris, Jenny and McAteer, Sean P. and Gally, David L. and Holden, Nicola J. (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. Genomics, 112 (6). pp. 4242-4253. ISSN 1089-8646

Holmes, Ashleigh and Pritchard, Leighton and Hedley, Peter and Morris, Jenny and McAteer, Sean P. and Gally, David L. and Holden, Nicola J. (2020) Dataset of Escherichia coli O157 : H7 genes enriched in adherence to spinach root tissue. Data in Brief, 31. 105769. ISSN 2352-3409

Waters, Nicholas R. and Abram, Florence and Brennan, Fiona and Holmes, Ashleigh and Pritchard, Leighton (2020) Easily phylotyping E. coli via the EzClermont web app and command-line tool. Access Microbiology, 2 (9). ISSN 2516-8290

Holmes, Ashleigh and Pritchard, Leighton and Hedley, Peter and Morris, Jenny and McAteer, Sean P. and Gally, David L. and Holden, Nicola J. (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. Preprint / Working Paper. bioRxiv, Cold Spring Harbor, N.Y..

Green, Sarah and Riddell, Carolyn E. and Frederickson-Matika, Debbie and Armstrong, April and Elliot, Matt and Forster, Jack and Hedley, Peter E. and Morris, Jenny and Thorpe, Peter and Cooke, David E.L. and Sharp, Paul and Pritchard, Leighton (2020) Diversity of woody-host infecting Phytophthora species in public parks and botanic gardens as revealed by metabarcoding, and opportunities for mitigation through best practice. Sibbaldia, 18. pp. 67-88. ISSN 2513-9231

Pasanen, Miia and Waleron, Malgorzata and Schott, Thomas and Cleenwerk, Ilse and Misztak, Agnieszka and Waleron, Krysztof and Pritchard, Leighton and Bakr, Ramadan and Degefu, Yeshitila and van der Wolf, Jan and Vandamme, Peter and Pirhonen, Minna (2020) Pectobacterium parvum sp. nov. having a Salmonella SPI-1-like Type III secretion system and low virulence. International Journal of Systematic and Evolutionary Microbiology, 70 (4). pp. 2440-2448. ISSN 1466-5026

Pasanen, Miia and Waleron, Malgorzata and Schott, Thomas and Cleenwerck, Ilse and Misztak, Agnieszka and Waleron, Krzysztof and Pritchard, Leighton and Bakr, Ramadan and Degefu, Yeshitila and van der Wolf, Jan and Vandamme, Peter and Pirhonen, Minna (2020) 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). International Journal of Systematic and Evolutionary Microbiology, 70 (4). 004111. ISSN 1466-5026

2019

Waters, Nicholas R. and Abram, Florence and Brennan, Fiona and Holmes, Ashleigh and Pritchard, Leighton (2019) Easily phylotyping E. coli via the EzClermont web app and command-line tool. Preprint / Working Paper. bioRxiv, Cold Spring Harbor, NY.

Mendez, Kevin M. and Pritchard, Leighton and Reinke, Stacey N. and Broadhurst, David I. (2019) Toward collaborative open data science in metabolomics using Jupyter Notebooks and cloud computing. Metabolomics, 15. 125. ISSN 1573-3882

Pritchard, Leighton and McLeod, Rory (2019) find_differential_primers.py v0.1.4 : automated discovery of diagnostic PCR or qPCR primers. GitHub, [San Francisco, CA.].

Pritchard, Leighton and Cock, Peter and Thorpe, Peter and Clark, Beatrix and Randall, Eva and Green, Sarah and Cooke, David (2019) We need to talk about metabarcoding : identification of Phytophthora species in environmental samples. In: IS-MPMI XVIII 2019 Congress, 2019-07-14 - 2019-07-18, SEC Centre.

Riddell, Carolyn E. and Frederickson-Matika, Debbie and Armstrong, April C. and Elliot, Matt and Forster, Jack and Hedley, Pete E. and Morris, Jenny and Thorpe, Peter and Cooke, David EL and Pritchard, Leighton and Sharp, Paul M. and Green, Sarah (2019) Metabarcoding reveals a high diversity of woody host-associated Phytophthora spp. in soils at public gardens and amenity woodlands in Britain. PeerJ, 7. e6931. ISSN 2167-8359

2018

Nolan, Stephen and Waters, Nicholas R. and Brennan, Fiona and Auer, Agathe and Fenton, Owen and Richards, Karl and Bolton, Declan J. and Pritchard, Leighton and O'Flaherty, Vincent and Abram, Florence (2018) 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. Frontiers in Sustainable Food Systems, 2. 41. ISSN 2571-581X

Somorin, Yinka M. and Vollmerhausen, Tara and Waters, Nicholas and Pritchard, Leighton and Abram, Florence and Brennan, Fiona and O'Byrne, Conor (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. Frontiers in Microbiology, 9. 1340. ISSN 1664-302X

Waters, Nicholas R. and Abram, Florence and Brennan, Fiona and Holmes, Ashleigh and Pritchard, Leighton (2018) riboSeed : leveraging prokaryotic genomic architecture to assemble across ribosomal regions. Nucleic Acids Research, 46 (11). e68. ISSN 1362-4962

2017

Joynson, Ryan and Pritchard, Leighton and Osemwekha, Ekenakema and Ferry, Natalie (2017) Metagenomic analysis of the gut microbiome of the common black slug arion ater in search of novel lignocellulose degrading enzymes. Frontiers in Microbiology, 8. 2181. ISSN 1664-302X

Pritchard, Leighton (2017) Whole-genome bacterial classification : whole genome taxonomic reclassification and a universal prokaryotic identifier scheme. In: Microbiology Society Annual Conference 2017, 2017-04-03 - 2017-04-06, Edinburgh International Conference Centre.

2013

Jupe, Florian and Witek, Kamil and Verweij, Walter and Śliwka, Jadwiga and Pritchard, Leighton and Etherington, Graham J. and Maclean, Dan and Cock, Peter J. and Leggett, Richard M. and Bryan, Glenn J. and Cardle, Linda and Hein, Ingo and Jones, Jonathan D.G. (2013) 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. Plant Journal, 76 (3). pp. 530-544. ISSN 0960-7412

Pritchard, Leighton and Humphris, Sonia and Saddler, Gerry S. and Elphinstone, John G. and Pirhonen, Minna and Toth, Ian K. (2013) Draft genome sequences of 17 isolates of the plant pathogenic bacterium Dickeya. Genome Announcements, 1 (6). e00978-13. ISSN 2169-8287

McLellan, Hazel and Boevink, Petra C. and Armstrong, Miles R. and Pritchard, Leighton and Gomez, Sonia and Morales, Juan and Whisson, Stephen C. and Beynon, Jim L. and Birch, Paul R. J. (2013) An RxLR effector from Phytophthora infestans prevents re-localisation of two plant NAC transcription factors from the endoplasmic reticulum to the nucleus. PLOS Pathogens, 9 (10). e1003670. ISSN 1553-7366

Cock, Peter J.A. and Grüning, Björn A. and Paszkiewicz, Konrad and Pritchard, Leighton (2013) Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology. PeerJ. e167. ISSN 2167-8359

Pritchard, Leighton and Humphris, Sonia and Baeyen, Steve and Maes, Martine and Van Vaerenbergh, Johan and Elphinstone, John and Saddler, Gerry and Toth, Ian (2013) Draft genome sequences of four Dickeya dianthicola and four Dickeya solani strains. Genome Announcements, 1 (4). e00087-12. ISSN 2169-8287

2012

Pritchard, Leighton and Holden, Nicola J. and Bielaszewska, Martina and Karch, Helge and Toth, Ian K. (2012) Alignment-free design of highly discriminatory diagnostic primer sets for Escherichia coli O104:H4 outbreak strains. PLoS ONE, 7 (4). e34498. ISSN 1932-6203

McNally, R. Ryan and Toth, Ian K. and Cock, Peter J. A. and Pritchard, Leighton and Hedley, Pete E. and Morris, Jenny A. and Zhao, Youfu and Sundin, George W. (2012) Genetic characterization of the HrpL regulon of the fire blight pathogen Erwinia amylovora reveals novel virulence factors. Molecular Plant Pathology, 13 (2). pp. 160-173. ISSN 1464-6722

Jupe, Florian and Pritchard, Leighton and Etherington, Graham J and MacKenzie, Katrin and Cock, Peter JA and Wright, Frank and Sharma, Sanjeev Kumar and Bolser, Dan and Bryan, Glenn J and Jones, Jonathan DG and Hein, Ingo (2012) Identification and localisation of the NB-LRR gene family within the potato genome. BMC Genomics, 13. 75. ISSN 1471-2164

2010

Yang, Shihui and Peng, Quan and Zhang, Qiu and Zou, Lifang and Li, Yan and Robert, Christelle and Pritchard, Leighton and Liu, Hui and Hovey, Raymond and Wang, Qi and Birch, Paul and Toth, Ian K. and Yang, Ching-Hong (2010) Genome-wide identification of HrpL-regulated genes in the necrotrophic phytopathogen Dickeya dadantii 3937. PLoS ONE, 5 (10). e13472. ISSN 1932-6203

2009

Pritchard, Leighton and Liu, Hui and Booth, Clare and Douglas, Emma and François, Patrice and Schrenzel, Jacques and Hedley, Peter E. and Birch, Paul R. J. and Toth, Ian K. (2009) Microarray comparative genomic hybridisation analysis incorporating genomic organisation, and application to enterobacterial plant pathogens. PLoS Computational Biology, 5 (8). e1000473. ISSN 1553-734X

2008

Liu, Hui and Coulthurst, Sarah J. and Pritchard, Leighton and Hedley, Peter E. and Ravensdale, Michael and Humphris, Sonia and Burr, Tom and Takle, Gunnhild and Brurberg, May-Bente and Birch, Paul R. J. and Salmond, George P. C. and Toth, Ian K. (2008) Quorum sensing coordinates brute force and stealth modes of infection in the plant pathogen Pectobacterium atrosepticum. PLOS Pathogens, 4 (6). e1000093. ISSN 1553-7366

2004

Bell, K. S. and Sebaihia, M. and Pritchard, L. and Holden, M. T. G. and Hyman, L. J. and Holeva, M. C. and Thomson, N. R. and Bentley, S. D. and Churcher, L. J. C. and Mungall, K. and Atkin, R. and Bason, N. and Brooks, K. and Chillingworth, T. and Clark, K. and Doggett, J. and Fraser, A. and Hance, Z. and Hauser, H. and Jagels, K. and Moule, S. and Norbertczak, H. and Ormond, D. and Price, C. and Quail, M. A. and Sanders, M. and Walker, D. and Whitehead, S. and Salmond, G. P. C. and Birch, P. R. J. and Parkhill, J. and Toth, I. K. (2004) Genome sequence of the enterobacterial phytopathogen Erwinia carotovora subsp. atroseptica and characterization of virulence factors. Proceedings of the National Academy of Sciences of the United States of America, 101 (30). pp. 11105-11110. ISSN 0027-8424

2003

Pritchard, Leighton and Cardle, Linda and Quinn, Susanne and Dufton, Mark (2003) Simple intrasequence difference (SID) analysis : an original method to highlight and rank sub-structural interfaces in protein folds. Application to the folds of bovine pancreatic trypsin inhibitor, phospholipase A2, chymotrypsin and carboxypeptidase A. Protein Engineering, 16 (2). pp. 87-101. ISSN 0269-2139

2001

Pritchard, Leighton and Bladon, Peter and Mitchell, Jane M. O. and Dufton, Mark J. (2001) Evaluation of a novel method for the identification of coevolving protein residues. Protein Engineering, 14 (6). pp. 549-555. ISSN 0269-2139