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Items: 28

1.

Whole genome sequencing of Mycobacterium tuberculosis: current standards and open issues.

Meehan CJ, Goig GA, Kohl TA, Verboven L, Dippenaar A, Ezewudo M, Farhat MR, Guthrie JL, Laukens K, Miotto P, Ofori-Anyinam B, Dreyer V, Supply P, Suresh A, Utpatel C, van Soolingen D, Zhou Y, Ashton PM, Brites D, Cabibbe AM, de Jong BC, de Vos M, Menardo F, Gagneux S, Gao Q, Heupink TH, Liu Q, Loiseau C, Rigouts L, Rodwell TC, Tagliani E, Walker TM, Warren RM, Zhao Y, Zignol M, Schito M, Gardy J, Cirillo DM, Niemann S, Comas I, Van Rie A.

Nat Rev Microbiol. 2019 Jun 17. doi: 10.1038/s41579-019-0214-5. [Epub ahead of print] Review.

PMID:
31209399
2.

Lack of association of novel mutation Asp397Gly in aftB gene with ethambutol resistance in clinical isolates of Mycobacterium tuberculosis.

Giri A, Safi H, Cabibbe AM, Gupta S, Narang A, Tyagi G, Shrivastava K, Kumar C, Kumar Sharma N, Lingaraju S, Trovato A, Battaglia S, Cirillo DM, Bose M, Alland D, Varma-Basil M.

Tuberculosis (Edinb). 2019 Mar;115:49-55. doi: 10.1016/j.tube.2019.01.004. Epub 2019 Jan 25.

PMID:
30948176
3.

Exportation of MDR TB to Europe from Setting with Actively Transmitted Persistent Strains in Peru.

Acosta F, Agapito J, Cabibbe AM, Cáceres T, Sola C, Pérez-Lago L, Abascal E, Herranz M, Meza E, Klotoe B, Muñoz P, Rossolini GM, Bartoloni A, Tortoli E, Cirillo DM, Gotuzzo E, García de Viedma D.

Emerg Infect Dis. 2019 Mar;25(3):596-598. doi: 10.3201/eid2503.180574.

4.

Whole-Genome Sequencing of Drug-Resistant Mycobacterium tuberculosis Strains, Tunisia, 2012-2016.

Bouzouita I, Cabibbe AM, Trovato A, Daroui H, Ghariani A, Midouni B, Essalah L, Mehiri E, Cirillo DM, Saidi LS.

Emerg Infect Dis. 2019 Mar;25(3):538-546. doi: 10.3201/eid2503.181370.

5.

Prediction of Susceptibility to First-Line Tuberculosis Drugs by DNA Sequencing.

CRyPTIC Consortium and the 100,000 Genomes Project, Allix-Béguec C, Arandjelovic I, Bi L, Beckert P, Bonnet M, Bradley P, Cabibbe AM, Cancino-Muñoz I, Caulfield MJ, Chaiprasert A, Cirillo DM, Clifton DA, Comas I, Crook DW, De Filippo MR, de Neeling H, Diel R, Drobniewski FA, Faksri K, Farhat MR, Fleming J, Fowler P, Fowler TA, Gao Q, Gardy J, Gascoyne-Binzi D, Gibertoni-Cruz AL, Gil-Brusola A, Golubchik T, Gonzalo X, Grandjean L, He G, Guthrie JL, Hoosdally S, Hunt M, Iqbal Z, Ismail N, Johnston J, Khanzada FM, Khor CC, Kohl TA, Kong C, Lipworth S, Liu Q, Maphalala G, Martinez E, Mathys V, Merker M, Miotto P, Mistry N, Moore DAJ, Murray M, Niemann S, Omar SV, Ong RT, Peto TEA, Posey JE, Prammananan T, Pym A, Rodrigues C, Rodrigues M, Rodwell T, Rossolini GM, Sánchez Padilla E, Schito M, Shen X, Shendure J, Sintchenko V, Sloutsky A, Smith EG, Snyder M, Soetaert K, Starks AM, Supply P, Suriyapol P, Tahseen S, Tang P, Teo YY, Thuong TNT, Thwaites G, Tortoli E, van Soolingen D, Walker AS, Walker TM, Wilcox M, Wilson DJ, Wyllie D, Yang Y, Zhang H, Zhao Y, Zhu B.

N Engl J Med. 2018 Oct 11;379(15):1403-1415. doi: 10.1056/NEJMoa1800474. Epub 2018 Sep 26.

6.

Whole genome sequencing of Mycobacterium tuberculosis.

Cabibbe AM, Walker TM, Niemann S, Cirillo DM.

Eur Respir J. 2018 Nov 1;52(5). pii: 1801163. doi: 10.1183/13993003.01163-2018. Print 2018 Nov. No abstract available.

PMID:
30209198
7.

Is sequencing better than phenotypic tests for the detection of pyrazinamide resistance?

Bouzouita I, Cabibbe AM, Trovato A, Draoui H, Ghariani A, Midouni B, Essalah L, Mehiri E, Cirillo DM, Slim-Saidi L.

Int J Tuberc Lung Dis. 2018 Jun 1;22(6):661-666. doi: 10.5588/ijtld.17.0715.

PMID:
29862951
8.

Countrywide implementation of whole genome sequencing: an opportunity to improve tuberculosis management, surveillance and contact tracing in low incidence countries.

Cabibbe AM, Trovato A, De Filippo MR, Ghodousi A, Rindi L, Garzelli C, Baretti S, Allodi G, Mannino R, Rossolini GM, Bartoloni A, Tortoli E, Cirillo DM.

Eur Respir J. 2018 Jun 28;51(6). pii: 1800387. doi: 10.1183/13993003.00387-2018. Print 2018 Jun. No abstract available.

PMID:
29650560
9.

Genetic sequencing for surveillance of drug resistance in tuberculosis in highly endemic countries: a multi-country population-based surveillance study.

Zignol M, Cabibbe AM, Dean AS, Glaziou P, Alikhanova N, Ama C, Andres S, Barbova A, Borbe-Reyes A, Chin DP, Cirillo DM, Colvin C, Dadu A, Dreyer A, Driesen M, Gilpin C, Hasan R, Hasan Z, Hoffner S, Hussain A, Ismail N, Kamal SMM, Khanzada FM, Kimerling M, Kohl TA, Mansjö M, Miotto P, Mukadi YD, Mvusi L, Niemann S, Omar SV, Rigouts L, Schito M, Sela I, Seyfaddinova M, Skenders G, Skrahina A, Tahseen S, Wells WA, Zhurilo A, Weyer K, Floyd K, Raviglione MC.

Lancet Infect Dis. 2018 Jun;18(6):675-683. doi: 10.1016/S1473-3099(18)30073-2. Epub 2018 Mar 21. Erratum in: Lancet Infect Dis. 2018 Mar 27;:.

10.

Bedaquiline Phenotypic and Genotypic Susceptibility Testing, Work in Progress!

Tiberi S, Cabibbe AM, Tomlins J, Cirillo DM, Migliori GB.

EBioMedicine. 2018 Mar;29:11-12. doi: 10.1016/j.ebiom.2018.02.006. Epub 2018 Feb 8. No abstract available.

11.

Role of Disputed Mutations in the rpoB Gene in Interpretation of Automated Liquid MGIT Culture Results for Rifampin Susceptibility Testing of Mycobacterium tuberculosis.

Miotto P, Cabibbe AM, Borroni E, Degano M, Cirillo DM.

J Clin Microbiol. 2018 Apr 25;56(5). pii: e01599-17. doi: 10.1128/JCM.01599-17. Print 2018 May.

12.

Alarming levels of multidrug-resistant tuberculosis in Ukraine: results from the first national survey.

Pavlenko E, Barbova A, Hovhannesyan A, Tsenilova Z, Slavuckij A, Shcherbak-Verlan B, Zhurilo A, Vitek E, Skenders G, Sela I, Cabibbe AM, Cirillo DM, de Colombani P, Dara M, Dean A, Zignol M, Dadu A.

Int J Tuberc Lung Dis. 2018 Feb 1;22(2):197-205. doi: 10.5588/ijtld.17.0254.

PMID:
29506617
13.

Low prevalence of fluoroquinolone resistance among patients with tuberculosis in the Philippines: results of a national survey.

Lim DR, Dean AS, Taguinod-Santiago MR, Borbe-Reyes A, Cabibbe AM, Zignol M, Basilio RP, Garfin AMC, Ama MCG.

Eur Respir J. 2018 Mar 22;51(3). pii: 1702571. doi: 10.1183/13993003.02571-2017. Print 2018 Mar. No abstract available. Erratum in: Eur Respir J. 2018 May 30;51(5):.

PMID:
29496754
14.

Genotypic and phenotypic M. tuberculosis resistance: guiding clinicians to prescribe the correct regimens.

Cabibbe AM, Sotgiu G, Izco S, Migliori GB.

Eur Respir J. 2017 Dec 28;50(6). pii: 1702292. doi: 10.1183/13993003.02292-2017. Print 2017 Dec. No abstract available.

15.

Evaluation of a novel line probe assay to detect resistance to pyrazinamide, a key drug used for tuberculosis treatment.

Driesen M, Kondo Y, de Jong BC, Torrea G, Asnong S, Desmaretz C, Mostofa KSM, Tahseen S, Whitfield MG, Cirillo DM, Miotto P, Cabibbe AM, Rigouts L.

Clin Microbiol Infect. 2018 Jan;24(1):60-64. doi: 10.1016/j.cmi.2017.05.026. Epub 2017 Jun 3.

16.

Best approaches to drug-resistance surveillance at the country level.

Cabibbe AM, Cirillo DM.

Int J Mycobacteriol. 2016 Dec;5 Suppl 1:S40-S41. doi: 10.1016/j.ijmyco.2016.09.010. Epub 2016 Oct 21.

17.

Use of WGS in Mycobacterium tuberculosis routine diagnosis.

Cirillo DM, Cabibbe AM, De Filippo MR, Trovato A, Simonetti T, Rossolini GM, Tortoli E.

Int J Mycobacteriol. 2016 Dec;5 Suppl 1:S252-S253. doi: 10.1016/j.ijmyco.2016.09.053. Epub 2016 Nov 11.

18.

Removing the bottleneck in whole genome sequencing of Mycobacterium tuberculosis for rapid drug resistance analysis: a call to action.

McNerney R, Clark TG, Campino S, Rodrigues C, Dolinger D, Smith L, Cabibbe AM, Dheda K, Schito M.

Int J Infect Dis. 2017 Mar;56:130-135. doi: 10.1016/j.ijid.2016.11.422. Epub 2016 Dec 13. Review.

19.

Population-based resistance of Mycobacterium tuberculosis isolates to pyrazinamide and fluoroquinolones: results from a multicountry surveillance project.

Zignol M, Dean AS, Alikhanova N, Andres S, Cabibbe AM, Cirillo DM, Dadu A, Dreyer A, Driesen M, Gilpin C, Hasan R, Hasan Z, Hoffner S, Husain A, Hussain A, Ismail N, Kamal M, Mansjö M, Mvusi L, Niemann S, Omar SV, Qadeer E, Rigouts L, Ruesch-Gerdes S, Schito M, Seyfaddinova M, Skrahina A, Tahseen S, Wells WA, Mukadi YD, Kimerling M, Floyd K, Weyer K, Raviglione MC.

Lancet Infect Dis. 2016 Oct;16(10):1185-1192. doi: 10.1016/S1473-3099(16)30190-6. Epub 2016 Jul 7.

20.

Delamanid susceptibility testing of Mycobacterium tuberculosis using the resazurin microtitre assay and the BACTEC™ MGIT™ 960 system.

Schena E, Nedialkova L, Borroni E, Battaglia S, Cabibbe AM, Niemann S, Utpatel C, Merker M, Trovato A, Hofmann-Thiel S, Hoffmann H, Cirillo DM.

J Antimicrob Chemother. 2016 Jun;71(6):1532-9. doi: 10.1093/jac/dkw044. Epub 2016 Apr 13.

PMID:
27076101
21.

Mycobacterium alsense sp. nov., a scotochromogenic slow grower isolated from clinical respiratory specimens.

Tortoli E, Richter E, Borroni E, Cabibbe AM, Capitolo E, Cittaro D, Engel R, Hendricks O, Hillemann D, Kristiansen JE, Mariottini A, Schubert S, Cirillo DM.

Int J Syst Evol Microbiol. 2016 Jan;66(1):450-6. doi: 10.1099/ijsem.0.000744. Epub 2015 Nov 5.

PMID:
26545358
22.

Mycobacterium angelicum sp. nov., a non-chromogenic, slow-growing species isolated from fish and related to Mycobacterium szulgai.

Pourahmad F, Pate M, Ocepek M, Borroni E, Cabibbe AM, Capitolo E, Cittaro D, Frizzera E, Jenčič V, Mariottini A, Marumo K, Vaggelli G, Cirillo DM, Tortoli E.

Int J Syst Evol Microbiol. 2015 Dec;65(12):4724-9. doi: 10.1099/ijsem.0.000642. Epub 2015 Sep 28.

PMID:
26420689
23.

Lab-on-Chip-Based Platform for Fast Molecular Diagnosis of Multidrug-Resistant Tuberculosis.

Cabibbe AM, Miotto P, Moure R, Alcaide F, Feuerriegel S, Pozzi G, Nikolayevskyy V, Drobniewski F, Niemann S, Reither K, Cirillo DM; TM-REST Consortium; TB-CHILD Consortium.

J Clin Microbiol. 2015 Dec;53(12):3876-80. doi: 10.1128/JCM.01824-15. Epub 2015 Aug 5.

24.

Diagnostic Performance of the New Version (v2.0) of GenoType MTBDRsl Assay for Detection of Resistance to Fluoroquinolones and Second-Line Injectable Drugs: a Multicenter Study.

Tagliani E, Cabibbe AM, Miotto P, Borroni E, Toro JC, Mansjö M, Hoffner S, Hillemann D, Zalutskaya A, Skrahina A, Cirillo DM.

J Clin Microbiol. 2015 Sep;53(9):2961-9. doi: 10.1128/JCM.01257-15. Epub 2015 Jul 15.

25.

PhyResSE: a Web Tool Delineating Mycobacterium tuberculosis Antibiotic Resistance and Lineage from Whole-Genome Sequencing Data.

Feuerriegel S, Schleusener V, Beckert P, Kohl TA, Miotto P, Cirillo DM, Cabibbe AM, Niemann S, Fellenberg K.

J Clin Microbiol. 2015 Jun;53(6):1908-14. doi: 10.1128/JCM.00025-15. Epub 2015 Apr 8.

26.

Mycobacterium celeriflavum sp. nov., a rapidly growing scotochromogenic bacterium isolated from clinical specimens.

Shahraki AH, Çavuşoğlu C, Borroni E, Heidarieh P, Koksalan OK, Cabibbe AM, Hashemzadeh M, Mariottini A, Mostafavi E, Cittaro D, Feizabadi MM, Lazarevic D, Yaghmaei F, Molinari GL, Camaggi A, Tortoli E.

Int J Syst Evol Microbiol. 2015 Feb;65(Pt 2):510-5. doi: 10.1099/ijs.0.064832-0. Epub 2014 Nov 11.

PMID:
25389151
27.

Mycobacterium tuberculosis pyrazinamide resistance determinants: a multicenter study.

Miotto P, Cabibbe AM, Feuerriegel S, Casali N, Drobniewski F, Rodionova Y, Bakonyte D, Stakenas P, Pimkina E, Augustynowicz-Kopeć E, Degano M, Ambrosi A, Hoffner S, Mansjö M, Werngren J, Rüsch-Gerdes S, Niemann S, Cirillo DM.

MBio. 2014 Oct 21;5(5):e01819-14. doi: 10.1128/mBio.01819-14.

28.

GenoType MTBDRsl performance on clinical samples with diverse genetic background.

Miotto P, Cabibbe AM, Mantegani P, Borroni E, Fattorini L, Tortoli E, Migliori GB, Cirillo DM.

Eur Respir J. 2012 Sep;40(3):690-8. doi: 10.1183/09031936.00164111. Epub 2012 Jan 20.

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