Manuscripts / Journal Articles
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Gastro Hep Advances. 2023.
Christian Zenner, Lisa Chalklen, Helena Adjei, Matthew J Dalby, Suparna Mitra, Emma Cornwell, Alex Shaw, Kathleen Sim, Simon J. Kroll, Lindsay J. Hall. Faecal cytokine levels of preterm infants coupled with microbiome profiles represent a potential non-invasive method to predict severity of necrotizing enterocolitis. Gastro Hep Advances. 2023. (submitted) -
Gut letter. 2023.
Suparna Mitra∗, Christopher J Stewart, Andrew Nelson, James S Hampton, Andrea C Masi, Sara Manning, Christopher A Lamb, Linda Sharp, Mark A Hull, Colin J Rees. Long-term stability of the faecal microbiome profile in immunochemical test (FIT) samples. Gut letter. 2023. (submitted) -
Colorectal Dis. 2022
James S Hampton, Sara Koo, Christina Dobson, Christopher J Stewart, Laura J Neilson, Kyle Montague, Suparna Mitra, John Whelpton, Caroline Addison, Phil Kelly, Stephen Rushton, Mark A Hull, Linda Sharp, Colin J Rees. The COLO-COHORT (Colorectal Cancer Cohort) study: Protocol for a multi-centre, observational research study and development of a consent-for-contact research platform. Colorectal Dis. 2022. https://doi.org/10.1111/ codi.16160 -
Cell. Infect. Microbiol. 2021.
Anthony Buckley, Ines B. Moura, Norie Arai, William Spittal, Emma Clark, Yoshihiro Nishida, Hannah C. Harris, Karen Bentley, Georgina Davis, Dapeng Wang, Suparna Mitra, Takanobu Higashiyama, Mark H. Wilcox. Trehalose-Induced Remodelling of the Human Microbiota Affects Clostridioides difficile Infection Outcome in an In Vitro Colonic Model: A Pilot Study Front. Cell. Infect. Microbiol. 2021. https://doi.org/10.3389/fcimb.2021.670935 -
Journal of Nutrition 2021
Gael Nana, Suparna Mitra, Henry Watson, Caroline Young, Henry M Wood, Sarah L Perry, Amanda DRace, Philip Quirke, Giles J Toogood, Paul M Loadman, Mark A Hull Luminal Bioavailability of Orally Administered Ω-3 PUFAs in the Distal Small Intestine, and Associated Changes to the Ileal Microbiome, in Humans with a Temporary Ileostomy 2021 (Under review). The Journal of Nutrition 2021. https://doi.org/10.1093/jn/nxab113 -
Rheumatology (Oxford) 2020.
Christopher Rooney, Kulveer Mankia, Suparna Mitra, Ines Moura, Paul Emery, Mark Wilcox, Perturbations of the gut microbiome in anti-CCP positive individuals at risk of developing rheumatoid arthritis. Rheumatology (Oxford) 2020. https://doi.org/10.1093/ rheumatology/keaa792 -
Ecotoxicol Environ Saf. 2020.
Shayantan Mukherji, Anandita Ghosh, Chandrima Bhattacharyya, Ivy Mallick, Anish Bhattacharyya, Suparna Mitra and Abhrajyoti Ghosh. Molecular and culture-based surveys of metabolically active hydrocarbon-degrading archaeal communities in Sundarban mangrove sediments. Ecotoxicol Environ Saf. 2020. https://doi.org/10.1016/j.ecoenv.2020.110481 -
Rep Med. 2020.
Cristina Alcon-Giner, Matthew J Dalby, Shabhonam Caim, Jennifer Ketskemety, Alex Shaw, Kathleen Sim, Melissa A E Lawson, Raymond Kiu, Charlotte Leclaire, Lisa Chalklen, Magdalena Kujawska, Suparna Mitra, Fahmina Fardus-Reid, Gustav Belteki, Katherine McColl, Jonathan R Swann, J Simon Kroll, Paul Clarke , Lindsay J Hall. Microbiota supplementation with Bifidobacterium and Lactobacillus modifies the preterm infant gut microbiota and metabolome: an observational study Cell Rep Med. 2020. https://doi.org/10.1016/j.xcrm.2020.100077 -
mSystems. 2018,
Gourvendu Saxena§, Suparna Mitra§, Ezequiel Marzinelli, Xie Chao, Toh Jun Wei, Peter D. Steinberg, Rohan Williams, Staffan Kjelleberg, Federico Lauro and Sanjay Swarup. Metagenomics Reveals the Influence of Land Use and Rain on the Benthic Microbial Communities in a Tropical Urban Waterway. mSystems. 2018, 5;3(3). pii: e00136-17. https://doi.org/10.1128/mSystems. 00136-17 -
Gut. 2017
Henry Watson§, Suparna Mitra§, Fiona C. Croden, Morag Taylor, Henry M. Wood, Sarah L. Perry, Jade Spencer, Philip Quirke, Giles J Toogood, Clare L Lawton, Louise Dye, Paul M Loadman, Mark A Hull. A randomised trial of the effect of omega-3 polyunsaturated fatty acid supplements on the human intestinal microbiota. Gut. 2017, 67(11). https://gut.bmj.com/content/67/ 11/1974. -
BMC Genomics. 2017
Cristina Alcon-Giner, Shabhonam Caim, Suparna Mitra, Jennifer Ketskemety, Udo Wegmann, John Wain, Gusztav Belteki, Paul Clarke, Lindsay J. Hall. Optimisation of 16s rRNA gut microbiota profiling of extremely low birth weight infants. BMC Genomics. 2017, 18(1):841. https: //doi.org/10.1186/s12864-017-4229-x. -
Open Forum Infectious Diseases. 2017
Suparna Mitra, Caroline Chilton, Jane Freeman, Henry Wood, Phillip Quirke, Morag Taylor, Richard J. Vickers, Mark H. Wilcox. Preservation of Gut Microbiome Following Ridinilazole vs. Fidaxomicin Treatment of Clostridium difficile Infection. Abstract: Open Forum Infectious Diseases. 2017 :4 (Suppl1). (presented in ID Week Oct’17) -
MyD88-dependent manner. 2017
Kevin R. Hughes, Lukas C. Harnisch, Cristina Alcon-Giner, Suparna Mitra, Christopher J. Wright, Jennifer Ketskemety, Douwe van Sinderen, Andrew J. M. Watson, Lindsay J. Hall. Bifidobacterium breve reduces apoptotic epithelial cell shedding in an exopolysaccharide and MyD88-dependent manner. 2017, https://doi.org/10.1098/rsob.160155. -
Obstet Gynecol Int. 2017
Antonios Anagnostopoulos, Suparna Mitra Bridget Decruze, Robert Macdonald and John Kirwan. Safety and Cost Considerations during the Introduction Period of Laparoscopic Radical Hysterectomy. Obstet Gynecol Int. 2017, 2103763 https://doi.org/10.1155/2017/2103763. -
J. Biotechnol 2017
Daniel H Huson, Mike Steel, Mohamed El Hadidi, Suparna Mitra, Silke Peter and Matthias Willmann. A statistical test for detecting taxonomic or functional inhomogeneity using replicated metagenomic samples. J. Biotechnol 2017, 250: 45-50. https://doi.org/10.1016/j.jbiotec. 2016.10.020 -
PLoS Comput. Biol. 2016,
Daniel H. Huson, Sina Beier, Isabell Flade, Anna Górska, Mohamed El-Hadidi, Suparna Mitra, Hans-Joachim Ruscheweyh, Rewati Tappu. MEGAN Community Edition- Interactive Exploration and Analysis of Large-Scale Microbiome Sequencing Data. PLoS Comput. Biol. 2016, 1004957. http://dx.doi.org/10.1371/journal.pcbi.1004957. -
Microbiome. 2015
Suparna Mitra∗, Daniela I. Drauz, Morten Alhede, Liu Yang, Rikki W. Purbojati, Yap Z. Hwee, Kavita K. Kushwaha, Gorm M. Hansen, Henrik Sillesen, Peter R. Hansen, Liang Yang, Tim Tolker-Nielsen, Stephan C. Schuster, Michael Givskov. In-silico analyses of atherosclerotic plaque metagenomic samples from human patients. Microbiome. 2015, 3:38. http: //www.microbiomejournal.com/content/3/1/38. -
Sundarbans. Archaea. 2015
Anish Bhattacharyya, Niladri S. Majumder, Pijush Basak, Shayantan Mukherji, Debojyoti Roy, Sudip Nag, Anwesha Haldar, Dhrubajyoti Chattopadhyay, Suparna Mitra∗, Maitree Bhattacharyya and Abhrajyoti Ghosh. Diversity and distribution of archaea in the mangrove sediment of Sundarbans. Archaea. 2015, 968582. http://www.hindawi.com/journals/archaea/2015/ 968582/ -
Environ. Sci. Technol. 2015
Gourvendu Saxena, Ezequiel M. Marzinelli, Nyi N. Naing, Zhili He, Yuting Liang, Lauren Tom, Suparna Mitra, Han Ping, Umid M. Joshi, Sheela Reuben, Kalyan C. Mynampati, Shailendra Mishra, Shivshankar Umashankar, Jizhong Zhou, Gary Andersen, Staffan Kjelleberg and Sanjay Swarup. Ecogenomics reveals metals and land-use pressures on microbial communities in the waterways of a megacity. Environ. Sci. Technol. 2015, 49(3), pp:1462-1471. http: //pubs.acs.org/doi/abs/10.1021/es504531s. -
BioMed Research International. 2014
Antje Damms-Machado, Suparna Mitra, Asja Friedrich, Klaus M. Kramer, Tobias Meile, Alfred Königsrainer, Daniel H. Huson, Stephan C. Bischoff. Effect of laparoscopic sleeve gastrectomy versus very low calorie diet on gut microbiota composition and nutrient absorption: a longitudinal metagenomic and metabolomic study. Translational and Clinical Research in Surgery, BioMed Research International. 2014, 2015:806248. http://www.hindawi.com/journals/ bmri/2015/806248/ -
Bioresource Technology. 2013
Ravi P. More§, Suparna Mitra§, Sajan C. Raju, Atya Kapley, Hemant J. Purohit. Mining and assessment of catabolic pathways in the metagenome of a common effluent treatment plant. Bioresource Technology. 2013, 153:137-146. http://www.sciencedirect.com/science/ article/pii/S0960852413017914 -
BMC Genomics 2013
Suparna Mitra∗,§, Karin Förster-Fromme§, Antje Damms-Machado, Tim Scheurenbrand, Saskia Biskup, Daniel H. Huson and Stephan C. Bischoff. Analysis of the intestinal microbiota using SOLiD 16SrRNA gene sequencing and SOLiD shotgun sequencing. BMC Genomics 2013,14(Suppl 5):S16. http://www.biomedcentral.com/1471-2164/14/S5/S16 -
Environmental Microbiology Reports 2012
Reema Singh, Vinay Narayan, Patricia McLenachan, Richard C. Winkworth, Suparna Mitra, Peter J. Lockhart, Lorraine Berry, Abdulla M. Hatha, William Aalbersberg and Dhana Rao. Detection and diversity of pathogenic Vibrio from Fiji. Environmental Microbiology Reports 2012, 4 (4):403-411. http://onlinelibrary.wiley.com/doi/10.1111/j.1758-2229.2012.00344.x/full. -
BMC Genomics 2011
Suparna Mitra∗, Mario Stärk and Daniel H. Huson. Analysis of 16S rRNA environmental sequences using MEGAN. BMC Genomics 2011,12(Suppl 3):S17. http://www.biomedcentral.com/1471-2164/12/S3/S17. -
MEGAN4 Genome Research 2011.
Daniel H. Huson, Suparna Mitra, Hans-Joachim Ruscheweyh, Nico Weber and Stephan C. Schuster. Integrative analysis of environmental sequences using MEGAN4 Genome Research 2011. http://genome.cshlp.org/content/21/9/1552.full. -
BMC Bioinformatics 2011
Suparna Mitra∗, Paul Rupek, Daniel C. Richter, Tim Urich, Jack A. Gilbert, Folker Meyer, Andreas Wilke and Daniel H. Huson. Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG. BMC Bioinformatics 2011, 12(Suppl 1):S21. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3044276/. -
ISME J 2010
Suparna Mitra∗, Jack A. Gilbert, Dawn Field and Daniel H. Huson. Comparison of multiple metagenomes using phylogenetic networks based on ecological indices. ISME J 2010, 4:1236-1242. http://www.nature.com/ismej/journal/v4/n10/abs/ismej201051a.html. -
BMC Bioinformatics 2010
Suparna Mitra∗, Max Schubach and Daniel H. Huson. Short clones or long clones? A simulation study on the use of paired reads in metagenomics. BMC Bioinformatics 2010, 11(Suppl 1):S12. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3009484/. -
Bioinformatics 2009
Suparna Mitra∗, Bernhard Klar and Daniel H. Huson. Visual and statistical comparison of metagenomes. Bioinformatics 2009, volume 25 (15):1849-55. http://bioinformatics.oxfordjournals.org/content/25/15/1849.full. -
BMC Bioinformatics 2009
Daniel H. Huson, Daniel C. Richter, Suparna Mitra, Alexander F. Auch and Stephan C. Schuster. Methods for comparative metagenomics. BMC Bioinformatics 2009, volume 10 (Suppl 1):S12. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2648729/.
