Imperial College London

DrNicholasCroucher

Faculty of MedicineSchool of Public Health

Senior Lecturer in Bacterial Genomics
 
 
 
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Contact

 

+44 (0)20 7594 3820n.croucher

 
 
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Location

 

UG5Norfolk PlaceSt Mary's Campus

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Summary

 

Publications

Publication Type
Year
to

62 results found

Croucher NJ, Klugman KP, 2014, The Emergence of Bacterial "Hopeful Monsters", MBIO, Vol: 5, ISSN: 2150-7511

JOURNAL ARTICLE

Lee GM, Kleinman K, Pelton SI, Hanage W, Huang SS, Lakoma M, Dutta-Linn M, Croucher NJ, Stevenson A, Finkelstein JAet al., 2014, Impact of 13-Valent Pneumococcal Conjugate Vaccination on Streptococcus pneumoniae Carriage in Young Children in Massachusetts., J Pediatric Infect Dis Soc, Vol: 3, Pages: 23-32

BACKGROUND: In April 2010, a 13-valent pneumococcal conjugate vaccine (PCV13) replaced PCV7 for use in the United States. We evaluated rates of pneumococcal colonization, by serotype and antibiotic resistance, in Massachusetts communities where serial cross-sectional surveillance has been conducted for the past decade. METHODS: Nasopharyngeal swabs were obtained from children 0 to <7 years of age and seen by primary care providers for well child or acute illness visits in 2001, 2004, 2007, 2009, and 2011. Pneumococcal isolates were serotyped by Quellung reaction and classified as PCV7 serotypes (4, 6B, 9V, 14, 18C, 19F, 23F), additional PCV13 serotypes (1, 3, 5, 6A, 7F, 19A), or non-PCV13 serotypes. Changes in colonization and impact of PCV13 were assessed using generalized linear mixed models, adjusting for known risk factors and accounting for clustering by community. RESULTS: Introduction of PCV13 did not affect the rate of overall pneumococcal colonization (31% in 2011). Colonization with non-PCV13 serotypes increased between 2001 and 2011 for all children (odds ratio [OR] per year, 1.12; 95% confidence interval [CI], 1.10, 1.15; P < .0001). 19A remained the second most common serotype in 2011, although a decline from 2009 was observed. Penicillin (7%), erythromycin (28%), ceftriaxone (10%), and clindamycin (10%) nonsusceptibility were commonly identified, concentrated among a small number of serotypes (including 19A, 35B, 15B/C, and 15A). Among healthy children 6-23 months old, colonization with PCV13 serotypes was lower among recipients of PCV13 vaccine (adjusted OR, 0.30; 95% CI, 0.11, 0.78). This effect was not observed in 6- to 23-month-old children with a concomitant respiratory tract infection (adjusted OR 1.36; 95% CI, 0.66, 2.77) or children 2 to <7 years old (adjusted OR, 1.17; 95% CI, 0.58, 2.34). CONCLUSIONS: 13-Valent pneumococcal conjugate vaccine reduced the prevalence of colonization with PCV13 serotypes among children 6-23 months old, b

JOURNAL ARTICLE

Mostowy R, Croucher NJ, Hanage WP, Harris SR, Bentley S, Fraser Cet al., 2014, Heterogeneity in the Frequency and Characteristics of Homologous Recombination in Pneumococcal Evolution, PLOS GENETICS, Vol: 10, ISSN: 1553-7390

JOURNAL ARTICLE

Tasoulis S, Cheng L, Valimaki N, Croucher NJ, Harris SR, Hanage WP, Roos T, Corander Jet al., 2014, Random Projection Based Clustering for Population Genomics, IEEE International Conference on Big Data, Publisher: IEEE, Pages: 675-682

CONFERENCE PAPER

Croucher NJ, Finkelstein JA, Pelton SI, Mitchell PK, Lee GM, Parkhill J, Bentley SD, Hanage WP, Lipsitch Met al., 2013, Population genomics of post-vaccine changes in pneumococcal epidemiology, NATURE GENETICS, Vol: 45, Pages: 656-+, ISSN: 1061-4036

JOURNAL ARTICLE

Croucher NJ, Harris SR, Grad YH, Hanage WPet al., 2013, Bacterial genomes in epidemiology-present and future, PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES, Vol: 368, ISSN: 0962-8436

JOURNAL ARTICLE

Croucher NJ, Mitchell AM, Gould KA, Inverarity D, Barquist L, Feltwell T, Fookes MC, Harris SR, Dordel J, Salter SJ, Browall S, Zemlickova H, Parkhill J, Normark S, Henriques-Normark B, Hinds J, Mitchell TJ, Bentley SDet al., 2013, Dominant Role of Nucleotide Substitution in the Diversification of Serotype 3 Pneumococci over Decades and during a Single Infection, PLOS GENETICS, Vol: 9, ISSN: 1553-7404

JOURNAL ARTICLE

Wilf NM, Reid AJ, Ramsay JP, Williamson NR, Croucher NJ, Gatto L, Hester SS, Goulding D, Barquist L, Lilley KS, Kingsley RA, Dougan G, Salmond GPCet al., 2013, RNA-seq reveals the RNA binding proteins, Hfq and RsmA, play various roles in virulence, antibiotic production and genomic flux in Serratia sp ATCC 39006, BMC GENOMICS, Vol: 14, ISSN: 1471-2164

JOURNAL ARTICLE

Wyres KL, Lambertsen LM, Croucher NJ, McGee L, von Gottberg A, Linares J, Jacobs MR, Kristinsson KG, Beall BW, Klugman KP, Parkhill J, Hakenbeck R, Bentley SD, Brueggemann ABet al., 2013, Pneumococcal Capsular Switching: A Historical Perspective, JOURNAL OF INFECTIOUS DISEASES, Vol: 207, Pages: 439-449, ISSN: 0022-1899

JOURNAL ARTICLE

Croucher NJ, Harris SR, Barquist L, Parkhill J, Bentley SDet al., 2012, A High-Resolution View of Genome-Wide Pneumococcal Transformation, PLOS PATHOGENS, Vol: 8, ISSN: 1553-7374

JOURNAL ARTICLE

Everett DB, Cornick J, Denis B, Chewapreecha C, Croucher N, Harris S, Parkhill J, Gordon S, Carrol ED, French N, Heyderman RS, Bentley SDet al., 2012, Genetic Characterisation of Malawian Pneumococci Prior to the Roll-Out of the PCV13 Vaccine Using a High-Throughput Whole Genome Sequencing Approach, PLOS ONE, Vol: 7, ISSN: 1932-6203

JOURNAL ARTICLE

Koeser CU, Holden MTG, Ellington MJ, Cartwright EJP, Brown NM, Ogilvy-Stuart AL, Hsu LY, Chewapreecha C, Croucher NJ, Harris SR, Sanders M, Enright MC, Dougan G, Bentley SD, Parkhill J, Fraser LJ, Betley JR, Schulz-Trieglaff OB, Smith GP, Peacock SJet al., 2012, Rapid Whole-Genome Sequencing for Investigation of a Neonatal MRSA Outbreak, NEW ENGLAND JOURNAL OF MEDICINE, Vol: 366, Pages: 2267-2275, ISSN: 0028-4793

JOURNAL ARTICLE

Li Y, Gierahn T, Thompson CM, TrzciƄski K, Ford CB, Croucher N, Gouveia P, Flechtner JB, Malley R, Lipsitch Met al., 2012, Distinct Effects on Diversifying Selection by Two Mechanisms of Immunity against Streptococcus pneumoniae, PLoS Pathogens, Vol: 8, Pages: e1002989-e1002989

JOURNAL ARTICLE

Marttinen P, Hanage WP, Croucher NJ, Connor TR, Harris SR, Bentley SD, Corander Jet al., 2012, Detection of recombination events in bacterial genomes from large population samples, NUCLEIC ACIDS RESEARCH, Vol: 40, ISSN: 0305-1048

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, ISSN: 1080-6040

JOURNAL ARTICLE

Wyres KL, Lambertsen LM, Croucher NJ, McGee L, von Gottberg A, Linares J, Jacobs MR, Kristinsson KG, Beall BW, Klugman KP, Parkhill J, Hakenbeck R, Bentley SD, Brueggemann ABet al., 2012, The multidrug-resistant PMEN1 pneumococcus is a paradigm for genetic success, GENOME BIOLOGY, Vol: 13, ISSN: 1474-7596

JOURNAL ARTICLE

Arnvig KB, Comas I, Thomson NR, Houghton J, Boshoff HI, Croucher NJ, Rose G, Perkins TT, Parkhill J, Dougan G, Young DBet al., 2011, Sequence-Based Analysis Uncovers an Abundance of Non-Coding RNA in the Total Transcriptome of Mycobacterium tuberculosis, PLOS PATHOGENS, Vol: 7, ISSN: 1553-7366

JOURNAL ARTICLE

Croucher NJ, Harris SR, Fraser C, Quail MA, Burton J, van der Linden M, McGee L, von Gottberg A, Song JH, Ko KS, Pichon B, Baker S, Parry CM, Lambertsen LM, Shahinas D, Pillai DR, Mitchell TJ, Dougan G, Tomasz A, Klugman KP, Parkhill J, Hanage WP, Bentley SDet al., 2011, Rapid Pneumococcal Evolution in Response to Clinical Interventions, SCIENCE, Vol: 331, Pages: 430-434, ISSN: 0036-8075

JOURNAL ARTICLE

Croucher NJ, Vernikos GS, Parkhill J, Bentley SDet al., 2011, Identification, variation and transcription of pneumococcal repeat sequences, BMC GENOMICS, Vol: 12, ISSN: 1471-2164

JOURNAL ARTICLE

Donati C, Hiller NL, Tettelin H, Muzzi A, Croucher NJ, Angiuoli SV, Oggioni M, Hotopp JC, Hu FZ, Riley DR, Covacci A, Mitchell TJ, Bentley SD, Kilian M, Ehrlich GD, Rappuoli R, Moxon ER, Masignani Vet al., 2011, Correction: Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species., Genome Biol, Vol: 12

JOURNAL ARTICLE

Mutreja A, Kim DW, Thomson NR, Connor TR, Lee JH, Kariuki S, Croucher NJ, Choi SY, Harris SR, Lebens M, Niyogi SK, Kim EJ, Ramamurthy T, Chun J, Wood JLN, Clemens JD, Czerkinsky C, Nair GB, Holmgren J, Parkhill J, Dougan Get al., 2011, Evidence for several waves of global transmission in the seventh cholera pandemic, NATURE, Vol: 477, Pages: 462-U111, ISSN: 0028-0836

JOURNAL ARTICLE

Croucher NJ, Thomson NR, 2010, Studying bacterial transcriptomes using RNA-seq, CURRENT OPINION IN MICROBIOLOGY, Vol: 13, Pages: 619-624, ISSN: 1369-5274

JOURNAL ARTICLE

Donati C, Hiller NL, Tettelin H, Muzzi A, Croucher NJ, Angiuoli SV, Oggioni M, Hotopp JCD, Hu FZ, Riley DR, Covacci A, Mitchell TJ, Bentley SD, Kilian M, Ehrlich GD, Rappuoli R, Moxon ER, Masignani Vet al., 2010, Structure and dynamics of the pan-genome of Streptococcus pneumoniae and closely related species, GENOME BIOLOGY, Vol: 11, ISSN: 1474-7596

JOURNAL ARTICLE

Croucher NJ, 2009, From small reads do mighty genomes grow, NATURE REVIEWS MICROBIOLOGY, Vol: 7, Pages: 621-621, ISSN: 1740-1526

JOURNAL ARTICLE

Croucher NJ, Fookes MC, Perkins TT, Turner DJ, Marguerat SB, Keane T, Quail MA, He M, Assefa S, Baehler J, Kingsley RA, Parkhill J, Bentley SD, Dougan G, Thomson NRet al., 2009, A simple method for directional transcriptome sequencing using Illumina technology, NUCLEIC ACIDS RESEARCH, Vol: 37, ISSN: 0305-1048

JOURNAL ARTICLE

Croucher NJ, Walker D, Romero P, Lennard N, Paterson GK, Bason NC, Mitchell AM, Quail MA, Andrew PW, Parkhill J, Bentley SD, Mitchell TJet al., 2009, Role of Conjugative Elements in the Evolution of the Multidrug-Resistant Pandemic Clone Streptococcus pneumoniae(Spain23F) ST81, JOURNAL OF BACTERIOLOGY, Vol: 191, Pages: 1480-1489, ISSN: 0021-9193

JOURNAL ARTICLE

Holden MTG, Hauser H, Sanders M, Thi HN, Cherevach I, Cronin A, Goodhead I, Mungall K, Quail MA, Price C, Rabbinowitsch E, Sharp S, Croucher NJ, Tran BC, Nguyen THM, To SD, Nguyen TC, Kehoe M, Leigh JA, Ward PN, Dowson CG, Whatmore AM, Chanter N, Iversen P, Gottschalk M, Slater JD, Smith HE, Spratt BG, Xu J, Ye C, Bentley S, Barrell BG, Schultsz C, Maskell DJ, Parkhill Jet al., 2009, Rapid Evolution of Virulence and Drug Resistance in the Emerging Zoonotic Pathogen Streptococcus suis, PLOS ONE, Vol: 4, ISSN: 1932-6203

JOURNAL ARTICLE

Lawley TD, Clare S, Walker AW, Goulding D, Stabler RA, Croucher N, Mastroeni P, Scott P, Raisen C, Mottram L, Fairweather NF, Wren BW, Parkhill J, Dougan Get al., 2009, Antibiotic Treatment of Clostridium difficile Carrier Mice Triggers a Supershedder State, Spore-Mediated Transmission, and Severe Disease in Immunocompromised Hosts, INFECTION AND IMMUNITY, Vol: 77, Pages: 3661-3669, ISSN: 0019-9567

JOURNAL ARTICLE

Lawley TD, Croucher NJ, Yu L, Clare S, Sebaihia M, Goulding D, Pickard DJ, Parkhill J, Choudhary J, Dougan Get al., 2009, Proteomic and Genomic Characterization of Highly Infectious Clostridium difficile 630 Spores, JOURNAL OF BACTERIOLOGY, Vol: 191, Pages: 5377-5386, ISSN: 0021-9193

JOURNAL ARTICLE

Perkins TT, Kingsley RA, Fookes MC, Gardner PP, James KD, Yu L, Assefa SA, He M, Croucher NJ, Pickard DJ, Maskell DJ, Parkhill J, Choudhary J, Thomson NR, Dougan Get al., 2009, A Strand-Specific RNA-Seq Analysis of the Transcriptome of the Typhoid Bacillus Salmonella Typhi, PLOS GENETICS, Vol: 5, ISSN: 1553-7390

JOURNAL ARTICLE

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