Selected Publications
Here are some examples of publications which have included work performed within the facility.
42: Development of a next generation SNP genotyping array for wheat
Amanda J Burridge, Mark Winfield, Alexandra Przewieslik-Allen, Keith J Edwards, Imteaz Siddique, Ruth Barral-Arca, Simon Griffiths, Shifeng Cheng, Zejian Huang, Cong Feng, Susanne Dreisigacker, Alison R Bentley, Gina Brown-Guedira, Gary L Barker
Plant Biotechnology Journal 2024; doi: 10.1111/pbi.14341
41: Population genetic structure of Morelet’s and American crocodiles in Belize: hybridization, connectivity and conservation
Clare J Wilkie, Marisa Tellez, Gareth Jones, Martin J Genner
Conservation Genetics 2024; doi: 10.1007/s10592-023-01590-7
40: Nuclear environmental DNA resolves fine-scale population genetic structure in an aquatic habitat
Zifang Liu, Mary A Kishe, Peter N Gambagambi, Asilatu H Shechonge, Benjamin P Ngatunga, Katie Smith, Andrew D Saxon, Alan G Hudson, Tyler Linderoth, George F Turner, Rupert A Collins, Martin J Genner
iScience 2024; 27(1): 108669. doi: 10.1016/j.isci.2023.108669
39: ELONGATED HYPOCOTYL5 (HY5) and HY5 HOMOLOG (HYH) maintain shade avoidance suppression in UV-B
Ashutosh Sharma, Ashley J Pridgeon, Wei Liu, Francisca Segers, Bhavana Sharma, Gareth I Jenkins, Keara A Franklin
The Plant Journal 2023; 115(5): 1394-1407. doi: 10.1111/tpj.16328
38: Case report: Molecular characterisation of adipose-tissue derived cells from a patient with ROHHAD syndrome
Kalina M Biernacka, Dinesh Giri, Katherine Hawton, Francisca Segers, Claire M Perks, Julian P Hamilton-Shield
Frontiers in Pediatrics 2023; 11: 1128216. doi: 10.3389/fped.2023.1128216
37: Low-temperature and circadian signals are integrated by the sigma factor SIG5
Dora L Cano-Ramirez, Paige E Panter, Tokiaki Takemura, Tara Saskia de Fraine, Luíza Lane de Barros Dantas, Richard Dekeya, Thiago Barros-Galvão, Pirita Paajanen, Annalisa Bellandi, Tom Batstone, Bethan F Manley, Kan Tanaka, Sousuke Imamura, Keara A Franklin, Heather Knight, Antony N Dodd
Nature Plants 2023; 9(4): 661-672. doi: 10.1038/s41477-023-01377-1
36: Social complexity, life-history and lineage influence the molecular basis of castes in vespid wasps
Christopher DR Wyatt, Michael A Bentley, Daisy Taylor, Emeline Favreau, Ryan E Brock, Benjamin A Taylor, Emily Bell, Ellouise Leadbeater, Seirian Sumner
Nature Communications 2023; 14(1): 1046. doi: 10.1038/s41467-023-36456-6
35: Active and dormant microorganisms on glacier surfaces
James Bradley, Christopher B Trivedi, Matthias Winkel, Rey Mourot, Stefanie Lutz, Catherine Larose, Christoph Keuschnig, Eva Doting, Laura Halbach, Athanasios Zervas, Alexandre M Anesio, Liane G Benning
Geobiology 2022; 1-18. doi: 10.1111/gbi.12535
34: Identification of a novel GR-ARID1a-P53BP1 protein complex involved in DNA damage repair and cell cycle regulation
Felicity E Stubbs, Benjamin P Flynn, Caroline A Rivers, Matthew T Birnie, Andrew Herman, Erin E Swinstead, Songjoon Baek, Hai Fang, Jillian Temple, Jason S Carroll, Gordon L Hager, Stafford L Lightman, Becky L Conway-Campbell
Oncogene 2022; 1-14. doi: 10.1038/s41388-022-02516-2
33: Proanthocyanidin biosynthesis in the developing wheat seed coat investigated by chemical and RNA-Seq analysis
Simon P Vaughan, John M Baker, Lucia F Primavesi, Archana Patil, Robert King, Keywan Hassani-Pak, Satish Kulasekaran, Jane Coghill, Jane L Ward, Alison K Huttly, Andrew L Phillips
Plant Direct 2022; 6(10): e453. doi: 10.1002/pld3.453
32: Transcription factor Creb3l1 maintains proteostasis in neuroendocrine cells
Mingkwan Greenwood, Benjamin T Gillard, Rizwan Farrukh, Alex Paterson, Ferdinand Althammer, Valery Grinevich, David Murphy, Michael P Greenwood
Molecular Metabolism 2022; 101542. doi: 10.1016/j.molmet.2022.101542
31: Seasonality of glacial snow and ice microbial communities
10.3389/fmicb.2022.876848
30: Targeted control of pneumolysin production by a mobile genetic element in Streptococcus pneumoniae
Emily J Stevens, Daniel J Morse, Dora Bonini, Seána Duggan, Tarcisio Brignoli, Mario Recker, John A Lees, Nicholas J Croucher, Stephen Bentley, Daniel J Wilson, Sarah G Earle, Robert Dixon, Angela Nobbs, Howard Jenkinson, Tim van Opijnen, Derek Thibault, Oliver J Wilkinson, Mark S Dillingham, Simon Carlile, Rachel McLoughlin, Ruth C Massey
Microbial Genomomics 2022; 8(4): 000784. doi: 10.1099/mgen.0.000784
29: A general role for TANGO1, encoded by MIA3, in secretory pathway organization and function
Janine McCaughey, Nicola L Stevenson, Judith M Mantell, Chris R Neal, Alex Paterson, Kate Heesom, David J Stephens
Journal of Cell Science 2021; 134(17): jcs259075. doi: 10.1242/jcs.259075
28: Detecting SARS-CoV-2 variants with SNP genotyping
Helen Harper, Amanda Burridge, Mark Winfield, Adam Finn, Andrew Davidson, David Matthews, Stephanie Hutchings, Barry Vipond, Nisha Jain, COVID-19 Genomics UK (COG-UK) Consortium; Keith Edwards, Gary Barker
PLoS One 2021; 16(2): e0243185. doi: 10.1371/journal.pone.0243185
27: A new Micromonospora strain with antibiotic activity isolated from the microbiome of a Mid-Atlantic deep-sea sponge
Catherine R Back, Henry L Stennett, Sam E Williams, Luoyi Wang, Jorge Ojeda Gomez, Omar M Abdulle, Thomas Duffy, Christopher Neal, Judith Mantell, Mark A Jepson, Katharine R Hendry, David Powell, James E M Stach, Angela E Essex-Lopresti, Christine L Willis, Paul Curnow, Paul R Race
Marine Drugs 2021; 19(2):105. doi: 10.3390/md19020105
26: The role of gene flow and chromosomal instability in shaping the bread wheat genome
Alexandra M Przewieslik-Allen, Paul A Wilkinson, Amanda J Burridge, Mark O Winfield, Xiaoyang Dai, Mark Beaumont, Julie King, Cai-yun Yang, Simon Griffiths, Luzie U Wingen, Richard Horsnell, Alison R Bentley, Peter Shewry, Gary LA Barker, Keith J Edwards
Nature Plants 2021; 7: 172–183. doi: 10.1038/s41477-020-00845-2
25: Component-resolved microarray analysis of IgE sensitization profiles to Culicoides recombinant allergens in horses with insect bite hypersensitivity
Ella N Novotny, Samuel J White, A Douglas Wilson, Sara B Stefánsdóttir, Edwin Tijhaar, Sigridur Jonsdóttir, Rebekka Frey, Dania Reiche, Horst Rose, Claudio Rhyner, Gertraud Schüpbach-Regula, Sigurbjörg Torsteinsdóttir, Marcos Alcocer, Eliane Marti
Allergy 2021; 76(4):1147-1157. doi: 10.1111/all.14556
24: A centrifuge-based method for identifying novel genetic traits that affect root-substrate adhesion in Arabidopsis thaliana
Bethany M Eldridge, Emily R Larson, Laura Weldon, Kevin M Smyth, Annabelle N Sellin, Isaac V Chenchiah, Tanniemola B Liverpool, Claire S Grierson
Frontiers in Plant Science 2021; 12:602486. doi: 10.3389/fpls.2021.602486
23: Multiomic analysis of the Arabian camel (Camelus dromedarius) kidney reveals a role for cholesterol in water conservation
Fernando Alvira-Iraizoz, Benjamin T Gillard, Panjiao Lin, Alex Paterson, Audrys G Pauža, Mahmoud A Ali, Ammar H Alabsi, Pamela A Burger, Naserddine Hamadi, Abdu Adem, David Murphy, Michael P Greenwood
Communications Biology 2021; 4(1):779. doi: 10.1038/s42003-021-02327-3
22: Flexible genes establish widespread bacteriophage pan-genomes in cryoconite hole ecosystems
Christopher M Bellas, Declan C Schroeder, Arwyn Edwards, Gary Barker, Alexandre M Anesio
Nature Communications 2020; 11(1):4403. doi: 10.1038/s41467-020-18236-8
21: Dissecting the genetic basis of wheat blast resistance in the Brazilian wheat cultivar BR 18-Terena
Luiz Scheeren, João Leodato Nunes Maciel, Eduardo Caierão, Gisele Abigail Montan Torres, Luciano Consoli, Flavio Martins Santana, José Mauricio Cunha Fernandes, James Simmonds, Cristobal Uauy, James Cockram, Paul Nicholson
BMC Plant Biology 2020; 20: 398. doi: 10.1186/s12870-020-02592-0
20: Cassava brown streak virus Ham1 protein hydrolyses mutagenic nucleotides and is a necrosis determinant
Katie R Tomlinson, José L Pablo-Rodriguez, Hamidun Bunawan, Sarah Nanyiti, Patrick Green, Josie Miller, Titus Alicai, Susan E Seal, Andy M Bailey, Gary D Foster
Molecular Plant Pathology 2019; 20(8): 1080-1092. doi: 10.1111/mpp.12813
19: Inflammatory pathways are central to posterior cerebrovascular artery remodelling prior to the onset of congenital hypertension
Dawid Walas, Karol Nowicki-Osuch, Dominic Alibhai, Eva von Linstow Roloff, Jane Coghill, Christy Waterfall, Julian FR Paton
Journal of Cerebral Blood Flow and Metabolism 2019; 39(9): 1803–1817. doi: 10.1177/0271678X18769180
18: Unicellular origin of the animal microRNA machinery
Jon Bråte, Ralf S Neumann, Bastian Fromm, Arthur A B Haraldsen, James E Tarver, Hiroshi Suga, Philip C J Donoghue, Kevin J Peterson, Iñaki Ruiz-Trillo, Paul E Grini, Kamran Shalchian-Tabrizi
Current Biology 2018; 28(20):3288-3295.e5. doi: 10.1016/j.cub.2018.08.018
17: Comparative study of biofilm formation on biocidal antifouling and fouling-release coatings using next-generation DNA sequencing
, , , Gary LA Barker
Biofouling 2018; 34(4): 464-477. doi: 10.1080/08927014.2018.1464152
16: Strobilurin biosynthesis in Basidiomycete fungi
Risa Nofiani, Kate de Mattos-Shipley, Karen E Lebe, Li-Chen Han, Zafar Iqbal, Andrew M Bailey, Christine L Willis, Thomas J Simpson, Russell J Cox
Nature Communications 2018; 9(1):3940. doi: 10.1038/s41467-018-06202-4
15: Conversion of array‐based single nucleotide polymorphic markers for use in targeted genotyping by sequencing in hexaploid wheat (Triticum aestivum)
Amanda J Burridge, Paul A Wilkinson, Mark O Winfield, Gary LA Barker, Alexandra M Allen, Jane A Coghill, Christy Waterfall, Keith J Edwards
Plant Biotechnology Journal 2018; 16(4): 867–876. doi: 10.1111/pbi.12834
14: High‐density genotyping of the A.E. Watkins Collection of hexaploid landraces identifies a large molecular diversity compared to elite bread wheat
Mark O Winfield, Alexandra M Allen, Paul A Wilkinson, Amanda J Burridge, Gary LA Barker, Jane Coghill, Christy Waterfall, Luzie U Wingen, Simon Griffiths, Keith J Edwards
Plant Biotechnology Journal 2018 Jan; 16(1): 165–175. doi: 10.1111/pbi.12757
13: 16S rRNA Next Generation Sequencing analysis shows bacteria in Alzheimer’s post-mortem brain
David C Emery, Deborah K Shoemark, Tom E Batstone, Christy M Waterfall, Jane A Coghill, Tanya L Cerajewska, Maria Davies, Nicola X West, Shelley J Allen
Frontiers in Aging Neuroscience 2017; 9: 195. doi: 10.3389/fnagi.2017.00195
12: Recognition memory-induced gene expression in the perirhinal cortex: A transcriptomic analysis
Hannah Scott, Mark F Rogers, Helen L Scott, Colin Campbell, Elizabeth C Warburton, James B Uney
Behavioural Brain Research 2017; 328: 1–12. doi: 10.1016/j.bbr.2017.04.007
11: Characterization of a Wheat Breeders’ Array suitable for high‐throughput SNP genotyping of global accessions of hexaploid bread wheat (Triticum aestivum)
Alexandra M Allen, Mark O Winfield, Amanda J Burridge, Rowena C Downie, Harriet R Benbow, Gary LA Barker, Paul A Wilkinson, Jane Coghill, Christy Waterfall, Alessandro Davassi, Geoff Scopes, Ali Pirani, Teresa Webster, Fiona Brew, Claire Bloor, Simon Griffiths, Alison R Bentley, Mark Alda, Peter Jack, Andrew L Phillips, Keith J Edwards
Plant Biotechnology Journal 2017; 15(3): 390–401. doi: 10.1111/pbi.12635
10: The interrelationships of placental mammals and the limits of phylogenetic inference
James E Tarver, Mario Dos Reis, Siavash Mirarab, Raymond J Moran, Sean Parker, Joseph E O'Reilly, Benjamin L King, Mary J O'Connell, Robert J Asher, Tandy Warnow, Kevin J Peterson, Philip C J Donoghue, Davide Pisani
Genome Biology and Evolution 2016; 8(2):330-44. doi: 10.1093/gbe/evv261
9: RNA sequencing analysis of human podocytes reveals glucocorticoid regulated gene networks targeting non-immune pathways
Lulu Jiang, Charles CT Hindmarch, Mark Rogers, Colin Campbell, Christy Waterfall, Jane Coghill, Peter W Mathieson, Gavin I Welsh
Scientific Reports 2016; 6: 35671. doi: 10.1038/srep35671
8: CerealsDB 3.0: expansion of resources and data integration
Paul A Wilkinson, Mark O Winfield, Gary LA Barker, Simon Tyrrell, Xingdong Bian, Alexandra M Allen, Amanda Burridge, Jane A Coghill, Christy Waterfall, Mario Caccamo, Robert P Davey, Keith J Edwards
BMC Bioinformatics 2016; 17: 256. doi: 10.1186/s12859-016-1139-x
7: High‐density SNP genotyping array for hexaploid wheat and its secondary and tertiary gene pool
Mark O Winfield, Alexandra M Allen, Amanda J Burridge, Gary LA Barker, Harriet R. Benbow, Paul A Wilkinson, Jane Coghill, Christy Waterfall, Alessandro Davassi, Geoff Scopes, Ali Pirani, Teresa Webster, Fiona Brew, Claire Bloor, Julie King, Claire West, Simon Griffiths, Ian King, Alison R Bentley, Keith J Edwards
Plant Biotechnology Journal 2016; 14(5): 1195–1206. doi: 10.1111/pbi.12485
6: Mutation scanning in wheat by exon capture and Next-Generation Sequencing
Robert King, Nicholas Bird, Ricardo Ramirez-Gonzalez, Jane A Coghill, Archana Patil, Keywan Hassani-Pak, Cristobal Uauy, Andrew L Phillips
PLoS One 2015; 10(9): e0137549. doi: 10.1371/journal.pone.0137549
5: Heterologous expression and transcript analysis of gibberellin biosynthetic genes of grasses reveals novel functionality in the GA3ox family
Stephen Pearce, Alison K Huttly, Ian M Prosser, Yi-dan Li, Simon P Vaughan, Barbora Gallova, Archana Patil, Jane A Coghill, Jorge Dubcovsky, Peter Hedden, Andrew L Phillips
BMC Plant Biology 2015; 15: 130. doi: 10.1186/s12870-015-0520-7
4: CerealsDB 2.0: an integrated resource for plant breeders and scientists
Paul A Wilkinson, Mark O Winfield, Gary LA Barker, Alexandra M Allen, Amanda Burridge, Jane A Coghill, Keith J Edwards
BMC Bioinformatics 2012; 13: 219. doi: 10.1186/1471-2105-13-219
3: Cold- and light-induced changes in the transcriptome of wheat leading to phase transition from vegetative to reproductive growth
Mark O Winfield, Chungui Lu, Ian D Wilson, Jane A Coghill, Keith J Edwards
BMC Plant Biology 2009; 9: 55. doi: 10.1186/1471-2229-9-55
2: Analysis of wheat SAGE tags reveals evidence for widespread antisense transcription
Rebecca L Poole, Gary LA Barker, Kay Werner, Gaia F Biggi, Jane Coghill, J George Gibbings, Simon Berry, Jim M Dunwell, Keith J Edwards
BMC Genomics 2008; 9: 475. doi: 10.1186/1471-2164-9-475
1: A microarray analysis of gene expression in the free-living stages of the parasitic nematode Strongyloides ratti
Fiona J Thompson, Gary LA Barker, Louise Hughes, Clare P Wilkes, Jane Coghill, Mark E Viney
BMC Genomics 2006; 7: 157. doi: 10.1186/1471-2164-7-157