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Comparative genomics and genome biology of Campylobacter showae.

Hsu T, Gemmell MR, Franzosa EA, Berry S, Mukhopadhya I, Hansen R, Michaud M, Nielsen H, Miller WG, Nielsen H, Bajaj-Elliott M, Huttenhower C, Garrett WS, Hold GL.

Emerg Microbes Infect. 2019;8(1):827-840. doi: 10.1080/22221751.2019.1622455.


Impact of the Gastrointestinal Microbiome in Health and Disease: Co-evolution with the Host Immune System.

Hold GL, Hansen R.

Curr Top Microbiol Immunol. 2019;421:303-318. doi: 10.1007/978-3-030-15138-6_12. Review.


Gut microbial biofilm composition and organisation holds the key to CRC.

Hold GL, Allen-Vercoe E.

Nat Rev Gastroenterol Hepatol. 2019 Jun;16(6):329-330. doi: 10.1038/s41575-019-0148-4. No abstract available.


Inflammation associated ethanolamine facilitates infection by Crohn's disease-linked adherent-invasive Escherichia coli.

Ormsby MJ, Logan M, Johnson SA, McIntosh A, Fallata G, Papadopoulou R, Papachristou E, Hold GL, Hansen R, Ijaz UZ, Russell RK, Gerasimidis K, Wall DM.

EBioMedicine. 2019 May;43:325-332. doi: 10.1016/j.ebiom.2019.03.071. Epub 2019 Apr 26.


The gut virome: the 'missing link' between gut bacteria and host immunity?

Mukhopadhya I, Segal JP, Carding SR, Hart AL, Hold GL.

Therap Adv Gastroenterol. 2019 Mar 25;12:1756284819836620. doi: 10.1177/1756284819836620. eCollection 2019. Review.


Oral iron exacerbates colitis and influences the intestinal microbiome.

Mahalhal A, Williams JM, Johnson S, Ellaby N, Duckworth CA, Burkitt MD, Liu X, Hold GL, Campbell BJ, Pritchard DM, Probert CS.

PLoS One. 2018 Oct 11;13(10):e0202460. doi: 10.1371/journal.pone.0202460. eCollection 2018.


Faecal microbiota transplantation as a treatment for inflammatory bowel disease: a national survey of adult and paediatric gastroenterologists in the UK.

Mcilroy JR, Nalagatla N, Hansen R, Hart A, Hold GL.

Frontline Gastroenterol. 2018 Oct;9(4):250-255. doi: 10.1136/flgastro-2017-100936. Epub 2018 Apr 29.


Other Helicobacters and the gastric microbiome.

Kupcinskas J, Hold GL.

Helicobacter. 2018 Sep;23 Suppl 1:e12521. doi: 10.1111/hel.12521. Review.


Novel Campylobacter concisus lipooligosaccharide is a determinant of inflammatory potential and virulence.

Brunner K, John CM, Phillips NJ, Alber DG, Gemmell MR, Hansen R, Nielsen HL, Hold GL, Bajaj-Elliott M, Jarvis GA.

J Lipid Res. 2018 Oct;59(10):1893-1905. doi: 10.1194/jlr.M085860. Epub 2018 Jul 26.


Comparative genomics of Campylobacter concisus: Analysis of clinical strains reveals genome diversity and pathogenic potential.

Gemmell MR, Berry S, Mukhopadhya I, Hansen R, Nielsen HL, Bajaj-Elliott M, Nielsen H, Hold GL.

Emerg Microbes Infect. 2018 Jun 26;7(1):116. doi: 10.1038/s41426-018-0118-x.


Adaptive response of neonatal sepsis-derived Group B Streptococcus to bilirubin.

Hansen R, Gibson S, De Paiva Alves E, Goddard M, MacLaren A, Karcher AM, Berry S, Collie-Duguid ESR, El-Omar E, Munro M, Hold GL.

Sci Rep. 2018 Apr 24;8(1):6470. doi: 10.1038/s41598-018-24811-3.


Molecular Analysis of the Microbiome in Colorectal Cancer.

Clegg F, Berry SH, Hansen R, Hold GL.

Methods Mol Biol. 2018;1765:139-153. doi: 10.1007/978-1-4939-7765-9_8.


The Impact of NOD2 Variants on Fecal Microbiota in Crohn's Disease and Controls Without Gastrointestinal Disease.

Kennedy NA, Lamb CA, Berry SH, Walker AW, Mansfield J, Parkes M, Simpkins R, Tremelling M, Nutland S; UK IBD Genetics Consortium, Parkhill J, Probert C, Hold GL, Lees CW.

Inflamm Bowel Dis. 2018 Feb 15;24(3):583-592. doi: 10.1093/ibd/izx061.


Multi-omics differentially classify disease state and treatment outcome in pediatric Crohn's disease.

Douglas GM, Hansen R, Jones CMA, Dunn KA, Comeau AM, Bielawski JP, Tayler R, El-Omar EM, Russell RK, Hold GL, Langille MGI, Van Limbergen J.

Microbiome. 2018 Jan 15;6(1):13. doi: 10.1186/s40168-018-0398-3.


Systematic review: ileoanal pouch microbiota in health and disease.

Segal JP, Oke S, Hold GL, Clark SK, Faiz OD, Hart AL.

Aliment Pharmacol Ther. 2018 Feb;47(4):466-477. doi: 10.1111/apt.14454. Epub 2017 Dec 5.


Review article: the gut microbiome in inflammatory bowel disease-avenues for microbial management.

McIlroy J, Ianiro G, Mukhopadhya I, Hansen R, Hold GL.

Aliment Pharmacol Ther. 2018 Jan;47(1):26-42. doi: 10.1111/apt.14384. Epub 2017 Oct 16. Review.


Extending colonic mucosal microbiome analysis-assessment of colonic lavage as a proxy for endoscopic colonic biopsies.

Watt E, Gemmell MR, Berry S, Glaire M, Farquharson F, Louis P, Murray GI, El-Omar E, Hold GL.

Microbiome. 2016 Nov 25;4(1):61.


Changing molecular epidemiology of rotavirus infection after introduction of monovalent rotavirus vaccination in Scotland.

Mukhopadhya I, Murdoch H, Berry S, Hunt A, Iturriza-Gomara M, Smith-Palmer A, Cameron JC, Hold GL.

Vaccine. 2017 Jan 3;35(1):156-163. doi: 10.1016/j.vaccine.2016.11.028. Epub 2016 Nov 18.


Transporters for Antiretroviral Drugs in Colorectal CD4+ T Cells and Circulating α4β7 Integrin CD4+ T Cells: Implications for HIV Microbicides.

Mukhopadhya I, Murray GI, Duncan L, Yuecel R, Shattock R, Kelly C, Iannelli F, Pozzi G, El-Omar EM, Hold GL, Hijazi K.

Mol Pharm. 2016 Sep 6;13(9):3334-40. doi: 10.1021/acs.molpharmaceut.6b00351. Epub 2016 Aug 11.


Gastrointestinal Microbiota and Colon Cancer.

Hold GL.

Dig Dis. 2016;34(3):244-50. doi: 10.1159/000443358. Epub 2016 Mar 30. Review.


Drug transporter gene expression in human colorectal tissue and cell lines: modulation with antiretrovirals for microbicide optimization.

Mukhopadhya I, Murray GI, Berry S, Thomson J, Frank B, Gwozdz G, Ekeruche-Makinde J, Shattock R, Kelly C, Iannelli F, Pozzi G, El-Omar EM, Hold GL, Hijazi K.

J Antimicrob Chemother. 2016 Feb;71(2):372-86. doi: 10.1093/jac/dkv335. Epub 2015 Oct 29.


First-Pass Meconium Samples from Healthy Term Vaginally-Delivered Neonates: An Analysis of the Microbiota.

Hansen R, Scott KP, Khan S, Martin JC, Berry SH, Stevenson M, Okpapi A, Munro MJ, Hold GL.

PLoS One. 2015 Jul 28;10(7):e0133320. doi: 10.1371/journal.pone.0133320. eCollection 2015.


Expression of Genes for Drug Transporters in the Human Female Genital Tract and Modulatory Effect of Antiretroviral Drugs.

Hijazi K, Cuppone AM, Smith K, Stincarelli MA, Ekeruche-Makinde J, De Falco G, Hold GL, Shattock R, Kelly CG, Pozzi G, Iannelli F.

PLoS One. 2015 Jun 23;10(6):e0131405. doi: 10.1371/journal.pone.0131405. eCollection 2015.


Gut microbiota. Microbiota organization--a key to understanding CRC development.

Hold GL, Garrett WS.

Nat Rev Gastroenterol Hepatol. 2015 Mar;12(3):128-9. doi: 10.1038/nrgastro.2015.25. Epub 2015 Feb 17.


Mucosal microbiome in patients with recurrent aphthous stomatitis.

Hijazi K, Lowe T, Meharg C, Berry SH, Foley J, Hold GL.

J Dent Res. 2015 Mar;94(3 Suppl):87S-94S. doi: 10.1177/0022034514565458. Epub 2014 Dec 24.


The fungal microbiota of de-novo paediatric inflammatory bowel disease.

Mukhopadhya I, Hansen R, Meharg C, Thomson JM, Russell RK, Berry SH, El-Omar EM, Hold GL.

Microbes Infect. 2015 Apr;17(4):304-10. doi: 10.1016/j.micinf.2014.12.001. Epub 2014 Dec 15.


The TLR4 D299G and T399I SNPs are constitutively active to up-regulate expression of Trif-dependent genes.

Hold GL, Berry S, Saunders KA, Drew J, Mayer C, Brookes H, Gay NJ, El-Omar EM, Bryant CE.

PLoS One. 2014 Nov 3;9(11):e111460. doi: 10.1371/journal.pone.0111460. eCollection 2014.


Cytokine gene polymorphisms, cytokine levels and the risk of colorectal neoplasia in a screened population of Northeast Scotland.

Basavaraju U, Shebl FM, Palmer AJ, Berry S, Hold GL, El-Omar EM, Rabkin CS.

Eur J Cancer Prev. 2015 Jul;24(4):296-304. doi: 10.1097/CEJ.0000000000000087.


The gut microbiota, bacterial metabolites and colorectal cancer.

Louis P, Hold GL, Flint HJ.

Nat Rev Microbiol. 2014 Oct;12(10):661-72. doi: 10.1038/nrmicro3344. Epub 2014 Sep 8. Review.


Two-stage genome-wide methylation profiling in childhood-onset Crohn's Disease implicates epigenetic alterations at the VMP1/MIR21 and HLA loci.

Adams AT, Kennedy NA, Hansen R, Ventham NT, OʼLeary KR, Drummond HE, Noble CL, El-Omar E, Russell RK, Wilson DC, Nimmo ER, Hold GL, Satsangi J.

Inflamm Bowel Dis. 2014 Oct;20(10):1784-93. doi: 10.1097/MIB.0000000000000179.


The gut microbiota, dietary extremes and exercise.

Hold GL.

Gut. 2014 Dec;63(12):1838-9. doi: 10.1136/gutjnl-2014-307305. Epub 2014 Jun 9. No abstract available.


MicroRNAs in gastrointestinal malignancy: a tool in cancer prevention?

Mactier KE, Glaire MA, Basavaraju U, El-Omar EM, Hold GL.

Eur J Cancer Prev. 2014 Nov;23(6):540-9. doi: 10.1097/CEJ.0000000000000014. Review.


The impact of different DNA extraction kits and laboratories upon the assessment of human gut microbiota composition by 16S rRNA gene sequencing.

Kennedy NA, Walker AW, Berry SH, Duncan SH, Farquarson FM, Louis P, Thomson JM; UK IBD Genetics Consortium, Satsangi J, Flint HJ, Parkhill J, Lees CW, Hold GL.

PLoS One. 2014 Feb 24;9(2):e88982. doi: 10.1371/journal.pone.0088982. eCollection 2014.


Role of the gut microbiota in inflammatory bowel disease pathogenesis: what have we learnt in the past 10 years?

Hold GL, Smith M, Grange C, Watt ER, El-Omar EM, Mukhopadhya I.

World J Gastroenterol. 2014 Feb 7;20(5):1192-210. doi: 10.3748/wjg.v20.i5.1192. Review.


Fusobacterium nucleatum potentiates intestinal tumorigenesis and modulates the tumor-immune microenvironment.

Kostic AD, Chun E, Robertson L, Glickman JN, Gallini CA, Michaud M, Clancy TE, Chung DC, Lochhead P, Hold GL, El-Omar EM, Brenner D, Fuchs CS, Meyerson M, Garrett WS.

Cell Host Microbe. 2013 Aug 14;14(2):207-15. doi: 10.1016/j.chom.2013.07.007.


Western lifestyle: a 'master' manipulator of the intestinal microbiota?

Hold GL.

Gut. 2014 Jan;63(1):5-6. doi: 10.1136/gutjnl-2013-304969. Epub 2013 Jun 5. No abstract available.


Expression of neutrophil gelatinase-associated lipocalin in colorectal neoplastic progression: a marker of malignant potential?

McLean MH, Thomson AJ, Murray GI, Fyfe N, Hold GL, El-Omar EM.

Br J Cancer. 2013 Jun 25;108(12):2537-41. doi: 10.1038/bjc.2013.264. Epub 2013 Jun 4.


The microaerophilic microbiota of de-novo paediatric inflammatory bowel disease: the BISCUIT study.

Hansen R, Berry SH, Mukhopadhya I, Thomson JM, Saunders KA, Nicholl CE, Bisset WM, Loganathan S, Mahdi G, Kastner-Cole D, Barclay AR, Bishop J, Flynn DM, McGrogan P, Russell RK, El-Omar EM, Hold GL.

PLoS One. 2013;8(3):e58825. doi: 10.1371/journal.pone.0058825. Epub 2013 Mar 12.


Microbiota of de-novo pediatric IBD: increased Faecalibacterium prausnitzii and reduced bacterial diversity in Crohn's but not in ulcerative colitis.

Hansen R, Russell RK, Reiff C, Louis P, McIntosh F, Berry SH, Mukhopadhya I, Bisset WM, Barclay AR, Bishop J, Flynn DM, McGrogan P, Loganathan S, Mahdi G, Flint HJ, El-Omar EM, Hold GL.

Am J Gastroenterol. 2012 Dec;107(12):1913-22. doi: 10.1038/ajg.2012.335. Epub 2012 Oct 9.


Lack of association between the rs2294008 polymorphism in the prostate stem cell antigen gene and colorectal neoplasia: a case-control and immunohistochemical study.

Smith C, Lochhead P, Basavaraju U, Hold GL, Fyfe N, Murray GI, El-Omar EM.

BMC Res Notes. 2012 Jul 23;5:371. doi: 10.1186/1756-0500-5-371.


Genetic variation in C20orf54, PLCE1 and MUC1 and the risk of upper gastrointestinal cancers in Caucasian populations.

Palmer AJ, Lochhead P, Hold GL, Rabkin CS, Chow WH, Lissowska J, Vaughan TL, Berry S, Gammon M, Risch H, El-Omar EM.

Eur J Cancer Prev. 2012 Nov;21(6):541-4.


IBD-what role do Proteobacteria play?

Mukhopadhya I, Hansen R, El-Omar EM, Hold GL.

Nat Rev Gastroenterol Hepatol. 2012 Feb 21;9(4):219-30. doi: 10.1038/nrgastro.2012.14. Review.


A comprehensive evaluation of colonic mucosal isolates of Sutterella wadsworthensis from inflammatory bowel disease.

Mukhopadhya I, Hansen R, Nicholl CE, Alhaidan YA, Thomson JM, Berry SH, Pattinson C, Stead DA, Russell RK, El-Omar EM, Hold GL.

PLoS One. 2011;6(10):e27076. doi: 10.1371/journal.pone.0027076. Epub 2011 Oct 31.


The other Helicobacters.

Smet A, Flahou B, Mukhopadhya I, Ducatelle R, Pasmans F, Haesebrouck F, Hold GL.

Helicobacter. 2011 Sep;16 Suppl 1:70-5. doi: 10.1111/j.1523-5378.2011.00884.x. Review.


Detection of Campylobacter concisus and other Campylobacter species in colonic biopsies from adults with ulcerative colitis.

Mukhopadhya I, Thomson JM, Hansen R, Berry SH, El-Omar EM, Hold GL.

PLoS One. 2011;6(6):e21490. doi: 10.1371/journal.pone.0021490. Epub 2011 Jun 27.


Innate immune sensors and gastrointestinal bacterial infections.

Hold GL, Mukhopadhya I, Monie TP.

Clin Dev Immunol. 2011;2011:579650. doi: 10.1155/2011/579650. Epub 2011 May 19. Review.


Biochemical characterization of Sinorhizobium meliloti mutants reveals gene products involved in the biosynthesis of the unusual lipid A very long-chain fatty acid.

Haag AF, Wehmeier S, Muszyński A, Kerscher B, Fletcher V, Berry SH, Hold GL, Carlson RW, Ferguson GP.

J Biol Chem. 2011 May 20;286(20):17455-66. doi: 10.1074/jbc.M111.236356. Epub 2011 Mar 26.


Enterohepatic helicobacter in ulcerative colitis: potential pathogenic entities?

Thomson JM, Hansen R, Berry SH, Hope ME, Murray GI, Mukhopadhya I, McLean MH, Shen Z, Fox JG, El-Omar E, Hold GL.

PLoS One. 2011 Feb 23;6(2):e17184. doi: 10.1371/journal.pone.0017184.


The inflammatory microenvironment in colorectal neoplasia.

McLean MH, Murray GI, Stewart KN, Norrie G, Mayer C, Hold GL, Thomson J, Fyfe N, Hope M, Mowat NA, Drew JE, El-Omar EM.

PLoS One. 2011 Jan 7;6(1):e15366. doi: 10.1371/journal.pone.0015366.

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