​​​Publications of Microbiology​ 2024


  • Clinical characteris​tics, outcome, and factors associated with mortality of pulmonary mucormycosis: a retrospective single-center study from Pakistan. ​​Khalid R, Khanum I, Habib K, Ali AS, Farooqi J, Iqbal N, Ejaz T, Jabeen K, and Irfan M.​​ Ther Adv Infect Dis. 2024 May 6;11:20499361241251744.​​ DOI: 10.1177/20499361241251744.​

  • ​Microbiological Evaluation of Commercial Hand Sanitisers Available in Pakistan Using European Standard and Membrane Filtration Method.​​​ Ashraf MA, and Irfan S. ​​J Coll Physicians Surg Pak. 2024 Jun;34(6):667-671. ​DOI: 10.29271/jcpsp.2024.06.667.​

  • Efflux pump gene single nucleotide variants associated with resistance in Mycobacterium tuberculosis isolates with discrepant drug genotypes. ​​Hasan Z, Razzak SA, Kanji A, Shakoor S, and Hasan R.​  J Glob Antimicrob Resist. 2024 May 22:S2213-7165(24)00095-X. ​​DOI: 10.1016/j.jgar.2024.05.006.​

  • Value of 3‑D‑Printed Swabs for Respiratory Sampling and Testing. Hasan Z, Iqbal A, Ahmed I, Khan MA, Jabeen K,  Islam N, Khan E and Sayani S. ​Received: 28 June 2023 / Accepted: 24 July 2023. Biomedical Materials & Devices. https://doi.org/10.1007/s44174-023-00120-w.

  • ​Temporal changes in SARS-CoV-2 clearance kinetics and the optimal design of antiviral pharmacodynamic studies: an individual patient data meta-analysis of a randomised, controlled, adaptive platform study (PLATCOV). Wongnak P, Schilling WHK, Jittamala P, Boyd S, Luvira V, Siripoon T, Ngamprasertchai T, Batty EM, Singh S, Kouhathong J, Pagornrat W, Khanthagan P, Hanboonkunupakarn B, Poovorawan K, Mayxay M, Chotivanich K, Imwong M, Pukrittayakamee S, Ashley EA, Dondorp AM, Day NPJ, Teixeira MM, Piyaphanee W, Phumratanaprapin W, White NJ, Watson JA; PLATCOV Collaborative Group: Najia Ghanchi and M Asim Beg.  Lancet Infect Dis. 2024 Apr 24:S1473-3099(24)00183-X. doi:10.1016/S1473-3099(24)00183-X.

  • Clinical and nutritional correlates of bacterial diarrhoea aetiology in young children: a secondary cross-sectional analysis of the ABCD trial. Somji S, Ashorn P, Manji K, Ahmed T, Chisti M, Dhingra U, Sazawal S, Singa B, Walson JL, Pavlinac P, Bar-Zeev N, Houpt E, Dube Q, Kotloff K, Sow S, Yousafzai MT, Qamar F, Bahl R, De Costa A, Simon​ J, Sudfeld CR, Duggan CP; ABCD Study Group. BMJ Paediatr Open. 2024 Apr 11;8(1):e002448. DOI: 10.1136/bmjpo-2023-002448. Collaborator: Sadia Shakoor​​

  • ​Azithromycin for Bacterial Watery Diarrhea: A Reanalysis of the AntiBiotics for Children With Severe Diarrhea (ABCD) Trial Incorporating Molecular Diagnostics. Pavlinac PB, Platts-Mills JA, Liu J, Atlas HE, Gratz J, Operario D, Rogawski McQuade ET, Ahmed D, Ahmed T, Alam T, Ashorn P, Badji H, Bahl R, Bar-Zeev N, Chisti MJ, Cornick J, Chauhan A, De Costa A, Deb S, Dhingra U, Dube Q, Duggan CP, Freyne B, Gumbi W, Hotwani A, Kabir M, Islam O, Kabir F, Kasumba I, Kibwana U, Kotloff KL, Khan SS, Maiden V, Manji K, Mehta A, Ndeketa L, Praharaj I, Qamar FN, Sazawal S, Simon J, Singa BO, Somji S, Sow SO, Tapia MD, Tigoi C, Toure A, Walson JL, Yousafzai MT, Houpt ER; AntiBiotics for Children with severe Diarrhea (ABCD) Study Group. J Infect Dis. 2024 Apr 12;229(4):988-998.​​ ​DOI: 10.1093/infdis/jiad252. Collaborator: Sadia Shakoor

  • Pneumocystis pneumonia in HIV-positive and non-HIV patients: a retrospective comparative study from a lower-middle income country. ​​​Ayub M, Bin Ali Zubairi M, Ghanchi N, Awan S, Jabeen K and Zubairi A.​ ​​Monaldi Arch Chest Dis. 2024 Apr 3. DOI: 10.4081/monaldi.2024.2810.

  • Successful Treatment of Confirmed Naegleria fowleri Primary Amebic Meningoencephalitis.​ Burqi AMK, Satti L, Mahboob S, Anwar SOZ, Bizanjo M, Rafique M, Ghanchi NK. Emerg Infect Dis. 2024 Apr;30(4):803-805. ​​DOI: 10.3201/eid3004.230979.


  • Identification of Invasive Filamentous Mold Isolates Using DNA Sequencing: Experience of a Clinical Laboratory in a Resource‑limited Setting. Seema Irfan, Mohammad Zeeshan, Najia Ghanchi, Kausar Jabeen, Afia Zafar. Biomedical and Biotechnology Research Journal 8(1):p 67-71, Jan–Mar 2024. | DOI: 10.4103/bbrj.bbrj_3_24​​.

  • "Caught In Each Other's Traps": Factors Perpetuating Incentive-Linked Prescribing Deals Between Physicians and the Pharmaceutical Industry. Khan MS, Rahman-Shepherd A, Noor MN, Siddiqui AR, Goodman C, Wiseman V, Isani AK, Aftab W, Sharif S, Shakoor S, Siddiqi S and Hasan R. ​Int J Health Policy Manag. 2024 Mar 17. ​​​DOI: 10.34172/ijhpm.2024.821​​3.​

  • ​Genomic analysis of clinical Aeromonas isolates reveals genetic diversity but little evidence of genetic determinants for diarrhoeal disease. Microb Genom. 2024 Mar;10(3). ​​Klemm EJ, Nisar MI, Bawn M, Nasrin D, Qamar FN, Page A, Qadri F, Shakoor S, Zaidi AK, Levine MM, Dougan G, Kingsley RA.​ Microb Genom. 2024 Mar;10(3).​​​​​ DOI: 10.1099/mgen.0.001211.​

  • ​GBD 2021 Tuberculosis Collaborators. Global, regional, and national age-specific progress towards the 2020 milestones of the WHO End TB Strategy: a systematic analysis for the Global Burden of Disease Study 2021. ​​Lancet Infect Dis. 2024 Mar 19:S1473-3099(24)00007-0.​ ​DOI: 10.1016/S1473-3099(24)00007-0. Collaborator: Rumina Syeda Hasan

  • Aetiology and use of antibiotics in pregnancy-related infections: results of the WHO Global Maternal Sepsis Study (GLOSS), 1-week inception cohort. Ribeiro-do-Valle CC, Bonet M, Brizuela V, Abalos E, Baguiya A, Bellissimo-Rodrigues F, Budianu M, Puscasiu L, Knight M, Lissauer D, Dunlop C, Jacob ST, Shakoor S, Gadama L, Assarag B, Souza JP, Cecatti JG; WHO GLOSS research group.​ Ann Clin Microbiol Antimicrob. 2024 Feb 24;23(1):21. DOI: 10.1186/s12941-024-00681-8

  • ​WHO model list of essential in vitro diagnostics: strengthening diagnostics capacity to transform health care for all. Trapani D, Garcia PJ​, Schroeder L, Abdul-Ghani R, Hansali A, Offutalu PN, Sewell W, Shakoor S, Yunfeng L, Hashimoto N, Moussy FG, Aceves Capri A and Fleming K. Lancet Glob Health. 2024 Mar;12(3):e364-e365.  DOI: 10.1016/S2214-109X(23)00568-5​.

  • ​Estimating the subnational prevalence of antimicro​bial resistant Salmonella enterica serovars Typhi and Paratyphi A infections in 75 endemic countries, 1990-2019: a modelling study. GRAM Typhoid Collaborators. Lancet Glob Health. 2024 Mar;12(3):e406-e418.​ ​​​DOI: 10.1016/S2214-109X(23)00585-5. Collaborators: ​Rumina Hasan an​​d Sadia Shakoor.

  • ​Malaria in Pregnancy: ​Meta-Analyses of Prevalence and Associated Complications. ​​Das JK, Lakhani S, Rahman AR, Siddiqui F, Ali Padhani Z, Rashid Z, Mahmud O, Naqvi SK, Amir Naseem H, Jehanzeb H, Kumar S and Beg MA.​ ​2024 Feb 13:1-130. Epidemiol Infect. DOI: 10.1017/S0950268824000177.​

  • What happens when private general practitioners receive incentivisation offers from pharmaceutical sales representatives? A qualitative study in Pakistan. Noor MN, Rahman-Shepherd A, Khan SS, Hasan R, Siddiqui AR, Azam I, Bhutto F, Isani AK, Siddiqi S, Khan RI, Shakoor S and Khan M.​ 20​24 Feb 1:13558196241230853.  J Health Serv Res Policy. DOI: 10.1177/13558196241230853.​

  • ​Implementation and Long-term Efficacy of a Multifa​ceted Intervention to Reduc​​e Central Line-Associated Bloodstream Infections in Intensive Care Units of a Low Middle-Income Country. ​Latif A, Ali W, Haleem S, Mahmood F, Munir T, Virani N, Khan H, Qadir M, Roshan R, Hooda K, Khan NM, Zafar A and Pronovost P.​ 2024 Feb 7:S0196-6553(24)00060-9. Am J Infect Control. ​DOI: 10.1016/j.ajic.2024.02.001.​

  • ​​Building Research Capacity in Low- and Middle-Income Countries and Pandemic Preparedness: Lessons Learned and Future Directions. Kilmarx PH, Goraleski KA, Khan E, Lindo JF and Saravia NG.​ 2024 Jan 23:tpmd230675. Am J Trop Med Hyg.​​​DOI: 10.4269/ajtmh.23-0675.​

  • Strain features of pneumococcal isolates in the pre- and post-PCV10 era in Pakistan.  ​Javaid N, Lo SW, Nisar MI, Basharat A, Jaleel H, Rasool K, Sultana Q, Kabir F, Hotwani A, Breiman RF, Bentley SD, Shakoor S and Mirza S. 2024 Jan;10(1):00​​​1163. ​​Microb Genom. DOI: 10.1099/mgen.0.001163.​

  • Daptomycin MICs by Broth Microdilution Method Against Staphylococcus aureus in Clinical Specimens: A Cross-Sectional Study from Pakistan. Zeeshan M, Ahmed I, Irfan S, Khan MA and Zafar A.​  2024 Jan;34(1):27-31. J Coll Physicians Surg Pak.​​DOI: 10.29271/jcpsp.2024.01.27.