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• Conference paper
  Wopereis H, Sim K, Shaw A, Martin R, Oozeer R, Warner JO, Knol J, Kroll JSet al., 2014,

  The developmental gut microbiota is modulated towards a pattern closer to breastfed infants by a partially hydrolyzed cow's milk formula supplemented with specific prebiotic oligosaccharides

  , European-Academy-of-Allergy-and-Clinical-Immunology Congress, Publisher: WILEY-BLACKWELL, Pages: 315-315, ISSN: 0105-4538
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  • Citations: 2
• Journal article
  Laydon DJ, Melamed A, Sim A, Gillet NA, Sim K, Darko S, Kroll JS, Douek DC, Price DA, Bangham CRM, Asquith Bet al., 2014,

  Quantification of HTLV-1 Clonality and TCR Diversity

  , PLOS COMPUTATIONAL BIOLOGY, Vol: 10
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  • Citations: 50
• Journal article
  Hey A, Li M-S, Hudson MJ, Langford PR, Kroll JSet al., 2013,

  Transcriptional Profiling of Neisseria meningitidis Interacting with Human Epithelial Cells in a Long-Term In Vitro Colonization Model

  , INFECTION AND IMMUNITY, Vol: 81, Pages: 4149-4159, ISSN: 0019-9567
  • Author Web Link
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  • Citations: 19
• Journal article
  Sim K, Powell E, Shaw AG, McClure Z, Bangham M, Kroll JSet al., 2013,

  The neonatal gastrointestinal microbiota: the foundation of future health?

  , ARCHIVES OF DISEASE IN CHILDHOOD-FETAL AND NEONATAL EDITION, Vol: 98, Pages: F362-F364, ISSN: 1359-2998
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  • Citations: 9
• Journal article
  Fagnocchi L, Biolchi A, Ferlicca F, Boccadifuoco G, Brunelli B, Brier S, Norais N, Chiarot E, Bensi G, Kroll JS, Pizza M, Donnelly J, Giuliani MM, Delany Iet al., 2013,

  Transcriptional Regulation of the nadA Gene in Neisseria meningitidis Impacts the Prediction of Coverage of a Multicomponent Meningococcal Serogroup B Vaccine

  , INFECTION AND IMMUNITY, Vol: 81, Pages: 560-569, ISSN: 0019-9567
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  • Citations: 43
• Journal article
  Hedman AK, Li M-S, Langford PR, Kroll JSet al., 2012,

  Transcriptional Profiling of Serogroup B Neisseria meningitidis Growing in Human Blood: An Approach to Vaccine Antigen Discovery

  , PLOS ONE, Vol: 7, ISSN: 1932-6203
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  • Citations: 20
• Journal article
  Corander J, Connor TR, O'Dwyer CA, Kroll JS, Hanage WPet al., 2012,

  Population structure in the Neisseria, and the biological significance of fuzzy species

  , JOURNAL OF THE ROYAL SOCIETY INTERFACE, Vol: 9, Pages: 1208-1215, ISSN: 1742-5689
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  • Citations: 28
• Journal article
  Sim K, Cox MJ, Wopereis H, Martin R, Knol J, Li MS, Cookson WO, Moffatt MF, Kroll JSet al., 2012,

  Improved Detection of Bifidobacteria with Optimised 16S rRNA-Gene Based Pyrosequencing

  , PLoS One, Vol: 7, Pages: e32543-e32543

  The 16S rRNA gene is conserved across all bacteria and as such is routinely targeted in PCR surveys of bacterial diversity. PCR primer design aims to amplify as many different 16S rRNA gene sequences from as wide a range of organisms as possible, though there are no suitable 100% conserved regions of the gene, leading to bias. In the gastrointestinal tract, bifidobacteria are a key genus, but are often under-represented in 16S rRNA surveys of diversity. We have designed modified, 'bifidobacteria-optimised' universal primers, which we have demonstrated detection of bifidobacterial sequence present in DNA mixtures at 2% abundance, the lowest proportion tested. Optimisation did not compromise the detection of other organisms in infant faecal samples. Separate validation using fluorescence in situ hybridisation (FISH) shows that the proportions of bifidobacteria detected in faecal samples were in agreement with those obtained using 16S rRNA based pyrosequencing. For future studies looking at faecal microbiota, careful selection of primers will be key in order to ensure effective detection of bifidobacteria.

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• Journal article
  Strouts FR, Power P, Croucher NJ, Corton N, van Tonder A, Quail MA, Langford PR, Hudson MJ, Parkhill J, Kroll JS, Bentley SDet al., 2012,

  Lineage-specific Virulence Determinants of Haemophilus influenzae Biogroup aegyptius

  , Emerging Infectious Diseases, Vol: 18, Pages: 449-457

  An emergent clone of Haemophilus influenzae biogroup aegyptius (Hae) is responsible for outbreaks of Brazilian purpuric fever (BPF). First recorded in Brazil in 1984, the so-called BPF clone of Hae caused a fulminant disease that started with conjunctivitis but developed into septicemic shock; mortality rates were as high as 70%. To identify virulence determinants, we conducted a pan-genomic analysis. Sequencing of the genomes of the BPF clone strain F3031 and a noninvasive conjunctivitis strain, F3047, and comparison of these sequences with 5 other complete H. influenzae genomes showed that >77% of the F3031 genome is shared among all H. influenzae strains. Delineation of the Hae accessory genome enabled characterization of 163 predicted protein-coding genes; identified differences in established autotransporter adhesins; and revealed a suite of novel adhesins unique to Hae, including novel trimeric autotransporter adhesins and 4 new fimbrial operons. These novel adhesins might play a critical role in host-pathogen interactions.

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• Journal article
  Brown KF, Long SJ, Ramsay M, Hudson MJ, Green J, Vincent CA, Kroll JS, Fraser G, Sevdalis Net al., 2012,

  UK parents' decision-making about measles-mumps-rubella (MMR) vaccine 10 years after the MMR-autism controversy: A qualitative analysis

  , VACCINE, Vol: 30, Pages: 1855-1864, ISSN: 0264-410X
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  • Citations: 66

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