Publication breakdown of dataset
195 records returned (1 - 25 displayed). Click the hyperlinks for detailed information.
PubMed id | Year | Citation | Title | Isolates in database |
---|---|---|---|---|
31003929 | 2019 | Gladstone RA, Lo SW, Lees JA, Croucher NJ, van Tonder AJ, Corander J, Page AJ, Marttinen P, Bentley LJ, Ochoa TJ, Ho PL, du Plessis M, Cornick JE, Kwambana-Adams B, Benisty R, Nzenze SA, Madhi SA, Hawkins PA, Everett DB, Antonio M, Dagan R, Klugman KP, von Gottberg A, McGee L, Breiman RF, Bentley SD (2019) EBioMedicine 43: 338-346 | International genomic definition of pneumococcal lineages, to contextualise disease, antibiotic resistance and vaccine impact. | |
31184299 | 2019 | van Tonder AJ, Gladstone RA, Lo SW, Nahm MH, du Plessis M, Cornick J, Kwambana-Adams B, Madhi SA, Hawkins PA, Benisty R, Dagan R, Everett D, Antonio M, Klugman KP, von Gottberg A, Breiman RF, McGee L, Bentley SD (2019) Microb Genom 5: | Putative novel cps loci in a large global collection of pneumococci. | |
32375991 | 2020 | Gladstone RA, Lo SW, Goater R, Yeats C, Taylor B, Hadfield J, Lees JA, Croucher NJ, van Tonder AJ, Bentley LJ, Quah FX, Blaschke AJ, Pershing NL, Byington CL, Balaji V, Hryniewicz W, Sigauque B, Ravikumar KL, Almeida SCG, Ochoa TJ, Ho PL, du Plessis M, Ndlangisa KM, Cornick JE, Kwambana-Adams B, Benisty R, Nzenze SA, Madhi SA, Hawkins PA, Pollard AJ, Everett DB, Antonio M, Dagan R, Klugman KP, von Gottberg A, Metcalf BJ, Li Y, Beall BW, McGee L, Breiman RF, Aanensen DM, Bentley SD (2020) Microb Genom 6: | Visualizing variation within Global Pneumococcal Sequence Clusters (GPSCs) and country population snapshots to contextualize pneumococcal isolates. | |
30210481 | 2018 | Rezaei Javan R, van Tonder AJ, King JP, Harrold CL, Brueggemann AB (2018) Front Microbiol 9: 2012 | Genome Sequencing Reveals a Large and Diverse Repertoire of Antimicrobial Peptides. | |
31092817 | 2019 | Lees JA, Ferwerda B, Kremer PHC, Wheeler NE, Serón MV, Croucher NJ, Gladstone RA, Bootsma HJ, Rots NY, Wijmega-Monsuur AJ, Sanders EAM, Trzciński K, Wyllie AL, Zwinderman AH, van den Berg LH, van Rheenen W, Veldink JH, Harboe ZB, Lundbo LF, de Groot LCPGM, van Schoor NM, van der Velde N, Ängquist LH, Sørensen TIA, Nohr EA, Mentzer AJ, Mills TC, Knight JC, du Plessis M, Nzenze S, Weiser JN, Parkhill J, Madhi S, Benfield T, von Gottberg A, van der Ende A, Brouwer MC, Barrett JC, Bentley SD, van de Beek D (2019) Nat Commun 10: 2176 | Joint sequencing of human and pathogen genomes reveals the genetics of pneumococcal meningitis. | |
28133541 | 2016 | van Tonder AJ, Bray JE, Quirk SJ, Haraldsson G, Jolley KA, Maiden MC, Hoffmann S, Bentley SD, Haraldsson Á, Erlendsdóttir H, Kristinsson KG, Brueggemann AB (2016) Microb Genom 2: 000090 | Putatively novel serotypes and the potential for reduced vaccine effectiveness: capsular locus diversity revealed among 5405 pneumococcal genomes. | |
31540216 | 2019 | Kwun MJ, Oggioni MR, Bentley SD, Fraser C, Croucher NJ (2019) Genes (Basel) 10: | Synergistic Activity of Mobile Genetic Element Defences in Streptococcus pneumoniae. | |
25826208 | 2015 | Croucher NJ, Kagedan L, Thompson CM, Parkhill J, Bentley SD, Finkelstein JA, Lipsitch M, Hanage WP (2015) PLoS Genet 11: e1005095 | Selective and genetic constraints on pneumococcal serotype switching. | |
25101644 | 2014 | Chewapreecha C, Marttinen P, Croucher NJ, Salter SJ, Harris SR, Mather AE, Hanage WP, Goldblatt D, Nosten FH, Turner C, Turner P, Bentley SD, Parkhill J (2014) PLoS Genet 10: e1004547 | Comprehensive identification of single nucleotide polymorphisms associated with beta-lactam resistance within pneumococcal mosaic genes. | |
28207813 | 2017 | Skwark MJ, Croucher NJ, Puranen S, Chewapreecha C, Pesonen M, Xu YY, Turner P, Harris SR, Beres SB, Musser JM, Parkhill J, Bentley SD, Aurell E, Corander J (2017) PLoS Genet 13: e1006508 | Interacting networks of resistance, virulence and core machinery genes identified by genome-wide epistasis analysis. | |
27633831 | 2016 | Lees JA, Vehkala M, Välimäki N, Harris SR, Chewapreecha C, Croucher NJ, Marttinen P, Davies MR, Steer AC, Tong SY, Honkela A, Parkhill J, Bentley SD, Corander J (2016) Nat Commun 7: 12797 | Sequence element enrichment analysis to determine the genetic basis of bacterial phenotypes. | |
24509479 | 2014 | Chewapreecha C, Harris SR, Croucher NJ, Turner C, Marttinen P, Cheng L, Pessia A, Aanensen DM, Mather AE, Page AJ, Salter SJ, Harris D, Nosten F, Goldblatt D, Corander J, Parkhill J, Turner P, Bentley SD (2014) Nat Genet 46: 305-9 | Dense genomic sampling identifies highways of pneumococcal recombination. | |
25504847 | 2015 | Haubold B, Klötzl F, Pfaffelhuber P (2015) Bioinformatics 31: 1169-75 | andi: fast and accurate estimation of evolutionary distances between closely related genomes. | |
30605896 | 2019 | Gao CY, Cecconi F, Vulpiani A, Zhou HJ, Aurell E (2019) Phys Biol 16: 026002 | DCA for genome-wide epistasis analysis: the statistical genetics perspective. | |
25253455 | 2014 | Numminen E, Chewapreecha C, Sirén J, Turner C, Turner P, Bentley SD, Corander J (2014) Proc Biol Sci 281: 20141324 | Two-phase importance sampling for inference about transmission trees. | |
27672516 | 2016 | Kapatai G, Sheppard CL, Al-Shahib A, Litt DJ, Underwood AP, Harrison TG, Fry NK (2016) PeerJ 4: e2477 | Whole genome sequencing of Streptococcus pneumoniae: development, evaluation and verification of targets for serogroup and serotype prediction using an automated pipeline. | |
28100596 | 2017 | Andam CP, Mitchell PK, Callendrello A, Chang Q, Corander J, Chaguza C, McGee L, Beall BW, Hanage WP (2017) J Clin Microbiol 55: 1104-1115 | Genomic Epidemiology of Penicillin-Nonsusceptible Pneumococci with Nonvaccine Serotypes Causing Invasive Disease in the United States. | |
30257906 | 2018 | Quirk SJ, Haraldsson G, Erlendsdóttir H, Hjálmarsdóttir MÁ, van Tonder AJ, Hrafnkelsson B, Sigurdsson S, Bentley SD, Haraldsson Á, Brueggemann AB, Kristinsson KG (2018) J Clin Microbiol 56: | Effect of Vaccination on Pneumococci Isolated from the Nasopharynx of Healthy Children and the Middle Ear of Children with Otitis Media in Iceland. | |
28348877 | 2017 | Lees JA, Kremer PHC, Manso AS, Croucher NJ, Ferwerda B, Serón MV, Oggioni MR, Parkhill J, Brouwer MC, van der Ende A, van de Beek D, Bentley SD (2017) Microb Genom 3: e000103 | Large scale genomic analysis shows no evidence for pathogen adaptation between the blood and cerebrospinal fluid niches during bacterial meningitis. | |
28007887 | 2017 | Lin M, Kussell E (2017) Genetics 205: 891-917 | Correlated Mutations and Homologous Recombination Within Bacterial Populations. | |
32651390 | 2020 | Chaguza C, Senghore M, Bojang E, Gladstone RA, Lo SW, Tientcheu PE, Bancroft RE, Worwui A, Foster-Nyarko E, Ceesay F, Okoi C, McGee L, Klugman KP, Breiman RF, Barer MR, Adegbola RA, Antonio M, Bentley SD, Kwambana-Adams BA (2020) Nat Commun 11: 3442 | Within-host microevolution of Streptococcus pneumoniae is rapid and adaptive during natural colonisation. | |
29617440 | 2018 | Azarian T, Grant LR, Arnold BJ, Hammitt LL, Reid R, Santosham M, Weatherholtz R, Goklish N, Thompson CM, Bentley SD, O'Brien KL, Hanage WP, Lipsitch M (2018) PLoS Pathog 14: e1006966 | The impact of serotype-specific vaccination on phylodynamic parameters of Streptococcus pneumoniae and the pneumococcal pan-genome. | |
31500179 | 2019 | Sheppard CL, Groves N, Andrews N, Litt DJ, Fry NK, Southern J, Miller E (2019) Genes (Basel) 10: | The Genomics of Streptococcus Pneumoniae Carriage Isolates from UK Children and Their Household Contacts, Pre-PCV7 to Post-PCV13. | |
29026652 | 2017 | Gladstone RA, Devine V, Jones J, Cleary D, Jefferies JM, Bentley SD, Faust SN, Clarke SC (2017) Microb Genom 3: e000119 | Pre-vaccine serotype composition within a lineage signposts its serotype replacement - a carriage study over 7 years following pneumococcal conjugate vaccine use in the UK. | |
31094423 | 2020 | Chaguza C, Heinsbroek E, Gladstone RA, Tafatatha T, Alaerts M, Peno C, Cornick JE, Musicha P, Bar-Zeev N, Kamng'ona A, Kadioglu A, McGee L, Hanage WP, Breiman RF, Heyderman RS, French N, Everett DB, Bentley SD (2020) Clin Infect Dis 70: 1294-1303 | Early Signals of Vaccine-driven Perturbation Seen in Pneumococcal Carriage Population Genomic Data. |