Whole genome metagenomic analysis of the gut microbiome in HIV-1 infected individuals on antiretroviral therapy

Bai X, Narayanan A, Nowak P, Ray S, Neogi U, Sönnerborg A. Front Microbiology 2021, accepted 2021-05-31, https://doi.org/10.3389/fmicb.2021.667718

Genomic Variations in Drug Resistant Mycobacterium tuberculosis Strains Collected from Patients with Different Localization of Infection

Chernyaeva E, Rotkevich M, Krasheninnikova K, Lapidus A, Polev DE, Solovieva N, Zhuravlev V, Yablonsky P, O’Brien SJ.

Antibiotics. 2021; 10(1):27. https://doi.org/10.3390/antibiotics10010027.

Prevalence of Antiretroviral Drug Resistance Mutations Among Pretreatment and Antiretroviral Therapy-Failure HIV Patients in Uzbekistan. Mamatkulov A, Kazakova E, Ibadullaeva N, Joldasova E, Bayjanov A, Musabaev E, Kan N, Mustafaeva D, Lebedev A, Bobkova M, Kazennova E, Zohrabyan L (2020), AIDS Res Hum Retroviruses. 2020 Oct 8. https://doi.org/10.1089/AID.2020.0096. Epub ahead of print. PMID: 32873061.

HIV-1 Sub-Subtype A6: Settings for Normalised Identification and Molecular Epidemiology in the Southern Federal District, Russia

Schlösser M, Kartashev VV, Mikkola VH, Shemshura A, Saukhat S, Kolpakov D, Suladze A, Tverdokhlebova T,
Hutt K, Heger E, Knops E, Böhm M, Di Cristanziano V, Kaiser R, Sönnerborg A, Zazzi M, Bobkova M and
Sierra S

Viruses 2020, 12, 475; https://doi.org/10.3390/v12040475

Molecular Surveillance of HIV-1 Infection in Krasnoyarsk Region, Russia: Epidemiology, Phylodynamics and Phylogeography

Neshumaev DLebedev AMalysheva MBoyko ASkudarnov SOzhmegova EAntonova AKazennova EBobkova M.

Curr HIV Res. 2019;17(2):114-125.

https://doi.org/10.2174/1570162X17666190618155816.

Dissemination of Mycobacterium tuberculosis is associated to a SIGLEC1 null variant that limits antigen exchange via trafficking extracellular vesicles 

Gálvez SBC,  Drobniewski F, Kontsevaya I, Arias L, Monguió‐Tortajada M, Erkizia I, Urrea V, Ong RY,  Luquin M, Dupont M, Chojnacki J, Dalmau J, Cardona P, Neyrolles O,  Lugo‐Villarino G, Vérollet C, Julián E,  Furrer H, Günthard HF, Crocker PR,  Tapia G, Borràs FE, Fellay J, McLaren PJ, Telenti A, Cardona PJ, Clotet B, Vilaplana C, Martinez‐Picado J,  Izquierdo‐Useros N, Journal of Extracellular Vesicles. 14 January 2021 https://doi.org/10.1002/jev2.12046 

Prevalence and spatiotemporal dynamics of HIV-1 circulating recombinant form 03_AB (CRF03_AB) in the former Soviet Union countries, Lebedev A, Pasechnik O, Ozhmegova E, Antonova A, Blokh A, Grezina L, Sandyreva T, Dementeva N, Kazennova E, Bobkova M. PLoS ONE, 2020, 15(10): e0241269. https://doi.org/10.1371/journal.pone.0241269

In vitro cross-resistance to doravirine in a panel of HIV-1 clones
harbouring multiple NNRTI resistance mutations. 

Saladini F, Giammarino F, Hosseini BA, Giannini A, Boccuto A,
Dragoni F, Vicenti I, Shafer RW and Zazzi M (2020), J Antimicrob Chemother, https://doi.org/10.1093/jac/dkaa401

Analysis of HIV-1 (Human immunodeficiency virus-1, Lentivirus, Orthoretrovirinae, Retroviridae) Nef protein polymorphism of variants circulating in the former USSR countries.

Gromov, K. & Kazennova, Elena & Kireev, Dmitry & Murzakova, A. & Lopatukhin, A. & Bobkova, M.

Problems of Virology 2019; 64(6)
https://doi.org/10.36233/0507-4088-2019-64-6-281-290

MiDRMpol: A High-Throughput Multiplexed Amplicon Sequencing Workflow to Quantify HIV-1 Drug Resistance Mutations against Protease, Reverse Transcriptase, and Integrase Inhibitors 

Shambhu G Aralaguppe, Anoop T Ambikan, Manickam Ashokkumar, Milner M Kumar, Luke Elizabeth Hanna, Wondwossen Amogne, Anders Sönnerborg, Ujjwal Neogi

Viruses 2019; 11: 806. 

https://doi.org/10.3390/v11090806

High-throughput sequencing reveals a high prevalence of pretreatment HIV-1 drug resistance in Sweden

Andersson E, Ambikan A, Brännström J, Aralaguppe SG, Yilmaz A, Albert J, Neogi U, Sönnerborg A. AIDS. 2021 Feb 2;35(2):227-234. https://doi.org/10.1097/QAD.0000000000002740. PMID: 33394670.

Genetic Profile of HIV-1 in the Vologda Region: Domination of CRF03_AB and Rapid Distribution of URFs. Ozhmegova EN, Antonova AA, Lebedev AV, Melnikova TN, Krylova TV, Kazachek AV, Shiryaeva NA, Kirillova IL, Kazennova EV, Bobkova MR (2020)

HIV infection and immunosuppressive disorders. 2020. Vol. 12, No. 2. pp. 79-88

Transmitted drug resistance to NRTIs and risk of virological failure in naïve patients treated with integrase inhibitors. 

Borghetti, A., Ciccullo, A., Lombardi, F., Baldin, G., Belmonti, S., Prosperi, M., Incardona, F., Heger, E., Borghi, V., Sönnerborg, A., Zazzi, M., De Luca, A. and Di Giambenedetto, S. (2020), HIV Med. https://doi.org/10.1111/hiv.12956

Comparable in vitro activity of second-generation HIV-1 integrase strand transfer inhibitors (INSTIs) on HIV-1 clinical isolates with INSTI resistance mutations

Saladini F, Giannini A, Boccuto A, Dragoni F, Appendino A, Albanesi E, Vicenti I, Zazzi M. 

Antimicrob Agents Chemother. 2019 Oct 14.  [Epub ahead of print]

https://doi.org/10.1128/AAC.01717-19

pmid: 31611362