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Hire Dr. Andries v.

United Kingdom

USD 40 /hr

Versatile postdoctoral researcher with extensive experience in bioinformatics particularly bacterial genomics

Profile Summary

Postdoctoral Fellow with 10+ years of genomics experience gained at some of the world's most prestigious research organisations.

Subject Matter Expertise

• ★ Computational Biology
• ★ Bioinformatics
• ☆ Gram-Positive Bacteria
• ☆ Genomics

Services

• Writing
• Research
• Data & AI

Writing Technical Writing

Research Gray Literature Search, Systematic Literature Review, Secondary Data Collection

Data & AI Statistical Analysis, Data Visualization

Work Experience

Postdoctoral Fellow

University of Cambridge

June 2019 - Present

Postdoctoral Fellow

Wellcome Sanger Institute

February 2017 - May 2019

Education

DPhil Clinical Medicine (Nuffield Department of Medicine)

University of Oxford

April 2013 - December 2016

MRes Bioinformatics (Biology)

University of York

October 2006 - October 2007

BSc (Hons) Biology (Biology)

University of York

October 2003 - June 2006

Certifications

• Certification details not provided.

Publications

JOURNAL ARTICLE

(2020). A New Pneumococcal Capsule Type, 10D, is the 100th Serotype and Has a Large cps Fragment from an Oral Streptococcus . mBio.

(2020). Relationships among streptococci from the mitis group, misidentified as Streptococcus pneumoniae . European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology.

Rebecca A. Gladstone, Stephanie W. Lo, Richard Goater, Corin Yeats, Ben Taylor, James Hadfield, John A. Lees, Nicholas J. Croucher, Andries J. van Tonder, Leon J. Bentley, et al.(2020). Visualizing variation within Global Pneumococcal Sequence Clusters ({GPSCs}) and country population snapshots to contextualize pneumococcal isolates . Microbial Genomics. Microbiology Society

(2019). A mosaic tetracycline resistance gene tet(S/M) detected in an MDR pneumococcal CC230 lineage that underwent capsular switching in South Africa . The Journal of antimicrobial chemotherapy.

Andries J. van Tonder, Rebecca A. Gladstone, Stephanie W. Lo, Moon H. Nahm, Mignon du Plessis, Jennifer Cornick, Brenda Kwambana-Adams, Shabir A. Madhi, Paulina A. Hawkins, Rachel Benisty, et al.(2019). Putative novel cps loci in a large global collection of pneumococci . Microbial Genomics. 5. (7). Microbiology Society

(2019). Pneumococcal lineages associated with serotype replacement and antibiotic resistance in childhood invasive pneumococcal disease in the post-PCV13 era: an international whole-genome sequencing study . The Lancet Infectious Diseases.

(2019). International genomic definition of pneumococcal lineages, to contextualise disease, antibiotic resistance and vaccine impact . EBioMedicine.

Isaac Darko Otchere, Mark Spigelman, Andries J. van Tonder, Adwoa Asante-Poku, Leonor Sánchez-Busó, Mireia Coscollá, Stephen Osei-Wusu, Prince Asare, Samuel Yaw Aboagye, Samuel Acquah Ekuban, et al.(2019). Molecular epidemiology and whole genome sequencing analysis of clinical Mycobacterium bovis from Ghana . {PLOS} {ONE}. 14. (3). p. e0209395. Public Library of Science ({PLoS})

(2019). Genomic Analyses of >3,100 Nasopharyngeal Pneumococci Revealed Significant Differences Between Pneumococci Recovered in Four Different Geographical Regions . Frontiers in Microbiology.

Quirk SJ, Haraldsson G, Hjálmarsdóttir MÁ, van Tonder AJ, Hrafnkelsson B, Bentley SD, Haraldsson Á, Erlendsdóttir H, Brueggemann AB, Kristinsson KG(2019). Vaccination of Icelandic children with the 10-valent pneumococcal vaccine leads to a significant herd effect among adults in Iceland . Journal of clinical microbiology.

Sangeeta Tiwari, Andries J. van Tonder, Catherine Vilchèze, Vitor Mendes, Sherine E. Thomas, Adel Malek, Bing Chen, Mei Chen, John Kim, Tom L. Blundell, et al.(2018). Arginine-deprivation{\textendash}induced oxidative damage sterilizes Mycobacterium tuberculosis . Proceedings of the National Academy of Sciences. 115. (39). p. 9779--9784. Proceedings of the National Academy of Sciences

Quirk SJ, Haraldsson G, Erlendsdóttir H, Hjálmarsdóttir MÁ, van Tonder AJ, Hrafnkelsson B, Sigurðsson S, Bentley SD, Haraldsson Á, Brueggemann AB, et al.(2018). Effect of vaccination on pneumococci isolated from the nasopharynx of healthy children and the middle ear of children with otitis media in Iceland . Journal of clinical microbiology.

Tiwari S, van Tonder AJ, Vilchèze C, Mendes V, Thomas SE, Malek A, Chen B, Chen M, Kim J, Blundell TL, et al.(2018). Arginine-deprivation-induced oxidative damage sterilizes Mycobacterium tuberculosis . Proceedings of the National Academy of Sciences of the United States of America.

Rezaei Javan R, van Tonder AJ, King JP, Harrold CL, Brueggemann AB(2018). Genome Sequencing Reveals a Large and Diverse Repertoire of Antimicrobial Peptides . Frontiers in microbiology.

Epping L, van Tonder AJ, Gladstone RA, The Global Pneumococcal Sequencing Consortium, Bentley SD, Page AJ, Keane JA(2018). SeroBA: rapid high-throughput serotyping of Streptococcus pneumoniae from whole genome sequence data . Microbial Genomics.

Lo SW, Gladstone RA, van Tonder AJ, Hawkins PA, Kwambana-Adams B, Cornick JE, Madhi SA, Nzenze SA, du Plessis M, Kandasamy R, et al.(2018). Global Distribution of Invasive Serotype 35D Streptococcus pneumoniae Isolates following Introduction of 13-Valent Pneumococcal Conjugate Vaccine . Journal of clinical microbiology.

Kurioka A, van Wilgenburg B, Javan RR, Hoyle R, van Tonder AJ, Harrold CL, Leng T, Howson LJ, Shepherd D, Cerundolo V, et al.(2018). Diverse Streptococcus pneumoniae Strains Drive a Mucosal-Associated Invariant T-Cell Response Through Major Histocompatibility Complex class I-Related Molecule-Dependent and Cytokine-Driven Pathways . The Journal of infectious diseases.

Quirk, S.J., Haraldsson, G., Erlendsdóttir, H., Hjálmarsdóttir, M.Á., van Tonder, A.J., Hrafnkelsson, B., Sigurdsson, S., Bentley, S.D., Haraldsson, Á., Brueggemann, A.B., et al.(2018). Effect of vaccination on pneumococci isolated from the nasopharynx of healthy children and the middle ear of children with otitis media in Iceland . Journal of Clinical Microbiology. 56. (12).

Lo, S.W., Gladstone, R.A., Van Tonder, A.J., Hawkins, P.A., Kwambana-Adams, B., Cornick, J.E., Madhi, S.A., Nzenze, S.A., Du Plessis, M., Kandasamy, R., et al.(2018). Global distribution of invasive serotype 35D streptococcus pneumoniae isolates following introduction of 13-valent pneumococcal conjugate vaccine . Journal of Clinical Microbiology. 56. (7).

Javan, R.R., van Tonder, A.J., King, J.P., Harrold, C.L., Brueggemann, A.B.(2018). Genome sequencing reveals a large and diverse repertoire of antimicrobial peptides . Frontiers in Microbiology. 9. (AUG).

Kurioka, A., Van Wilgenburg, B., Javan, R.R., Hoyle, R., Van Tonder, A.J., Harrold, C.L., Leng, T., Howson, L.J., Shepherd, D., Cerundolo, V., et al.(2018). Diverse Streptococcus pneumoniae Strains Drive a Mucosal-Associated Invariant T-Cell Response Through Major Histocompatibility Complex class I-Related Molecule-Dependent and Cytokine-Driven Pathways . Journal of Infectious Diseases. 217. (6). p. 988-999.

Epping, L., van Tonder, A.J., Gladstone, R.A., Bentley, S.D., Page, A.J., Keane, J.A.(2018). SeroBA: Rapid high-throughput serotyping of Streptococcus pneumoniae from whole genome sequence data . Microbial Genomics. 4. (7).

Tiwari, S., Van Tonder, A.J., Vilchèze, C., Mendes, V., Thomas, S.E., Malek, A., Chen, B., Chen, M., Kim, J., Blundell, T.L., et al.(2018). Arginine-deprivation-induced oxidative damage sterilizes Mycobacterium tuberculosis . Proceedings of the National Academy of Sciences of the United States of America. 115. (39). p. 9779-9784.

Brueggemann AB, Harrold CL, Rezaei Javan R, van Tonder AJ, McDonnell AJ, Edwards BA, Scientific reports, 2017, vol. 7, pp. 42976, 2017 .

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, Microbial Genomics, 2016, vol. 2, no. 10, pp. 000090, 2016 .

Carlijn Bogaardt, Andries J van Tonder, Angela B Brueggemann(2015). Genomic analyses of pneumococci reveal a wide diversity of bacteriocins {\textendash} including pneumocyclicin, a novel circular bacteriocin . {BMC} Genomics. 16. (1). Springer Science $\mathplus$ Business Media

Andries J. van Tonder, James E. Bray, Lucy Roalfe, Rebecca White, Marta Zancolli, Sigríður J. Quirk, Gunnsteinn Haraldsson, Keith A. Jolley, Martin C. J. Maiden, Stephen D. Bentley, et al.(2015). Genomics Reveals the Worldwide Distribution of Multidrug-Resistant Serotype 6E Pneumococci . J. Clin. Microbiol. 53. (7). p. 2271--2285. American Society for Microbiology

Andries van Tonder, Ferenc Olasz, Tibor Nagy, Móni Szabó, János Kiss, Ama Szmolka, Endre Barta, Nicholas Thomson, Paul Barrow, Béla Nagy(2015). Genome Sequences of Three Salmonella enterica subsp. enterica Serovar Infantis Strains from Healthy Broiler Chicks in Hungary and in the United Kingdom . Genome Announcements. 3. (1). p. e01468--14. American Society for Microbiology

Andries J. van Tonder, Shilan Mistry, James E. Bray, Dorothea M. C. Hill, Alison J. Cody, Chris L. Farmer, Keith P. Klugman, Anne von Gottberg, Stephen D. Bentley, Julian Parkhill, et al.(2014). Defining the Estimated Core Genome of Bacterial Populations Using a Bayesian Decision Model . {PLoS} Comput Biol. 10. (8). p. e1003788. Public Library of Science ({PLoS})

Andries van Tonder, Kelly L Wyres, Lotte M Lambertsen, Regine Hakenbeck, Julian Parkhill, Stephen D Bentley, Angela B Brueggemann(2013). Evidence of antimicrobial resistance-conferring genetic elements among pneumococci isolated prior to 1974 . {BMC} Genomics. 14. (1). p. 500. Springer Science $\mathplus$ Business Media

Hauser, H, Richter, D, van Tonder, A, Clark, L & Preston, A, 2012, 'Comparative genomic analyses of the Taylorellae', <i>Veterinary Microbiology</i>, vol. 18, no. 1-2, pp. 821-203 .

Strouts, F, Power, P, Croucher, N, Corton, N, van Tonder, A, Quail, M, Langford, P, Hudson, M, Parkhill, J, Kroll, J & Bentley, S, 2012, 'Haemophilus influenzaeBiogroup aegyptius', <i>Emerging Infectious Diseases</i>, vol. 48, no. 3, pp. 629-457 .

Jackson AP, Berry A, Aslett M, Allison HC, Burton P, Vavrova-Anderson J, Brown R, Browne H, Corton N, Hauser H, Gamble J, Gilderthorp R, Marcello L, McQuillan J, Otto TD, Quail MA, Sanders MJ, van Tonder A, Ginger ML, Field MC, Proceedings of the National Academy of Sciences of the United States of America, 2012, vol. 109, no. 9, pp. 3416-3421 .

Kos VN, Desjardins CA, Griggs A, Cerqueira G, Van Tonder A, Holden MT, Godfrey P, Palmer KL, Bodi K, Mongodin EF, Wortman J, Feldgarden M, Lawley T, Gill SR, Haas BJ, Birren B, Gilmore MS, mBio, 2012, vol. 3, no. 3, pp. 2153-2154 .

Heilbronner, S, Holden, M, van Tonder, A, Geoghegan, J, Foster, T, Parkhill, J & Bentley, S, 2011, 'Genome sequence of Staphylococcus lugdunensis N920143 allows identification of putative colonization and virulence factors', <i>FEMS Microbiology Letters</i>, vol. 31, no. 1, pp. 95-67 .

Pickard D, Toribio AL, Petty NK, van Tonder A, Yu L, Goulding D, Barrell B, Rance R, Harris D, Wetter M, Wain J, Choudhary J, Thomson N, Dougan G, Journal of bacteriology, 2010, vol. 192, no. 21, pp. 5746-5754 .

He M, Sebaihia M, Lawley TD, Stabler RA, Dawson LF, Martin MJ, Holt KE, Seth-Smith HM, Quail MA, Rance R, Brooks K, Churcher C, Harris D, Bentley SD, Burrows C, Clark L, Corton C, Murray V, Rose G, Thurston S, Proceedings of the National Academy of Sciences of the United States of America, 2010, vol. 107, no. 16, pp. 7527-7532 .