SARS-CoV-2 tracking in Tunisia through next-generation sequencing: lessons for the future

被引：2
|
作者：
Rebai, Ahmed [1 ]
Souissi, Amal [1 ]
Abid, Nabil [2 ]
Masmoudi, Saber [1 ]
机构：
[1] Univ Sfax, Ctr Biotechnol Sfax, Lab Mol & Cellular Screening Proc, POB 1177, Sfax 3018, Tunisia
[2] Univ Monastir, Fac Pharm, Lab Transmissible Dis & Biol Active Subst, Monastir 5000, Tunisia
来源：
EURO-MEDITERRANEAN JOURNAL FOR ENVIRONMENTAL INTEGRATION | 2021年 / 6卷 / 02期
关键词：
COVID-19; SARS-CoV-2; Genome; Lineage; Coronavirus;
D O I：
10.1007/s41207-021-00254-7
中图分类号：
X [环境科学、安全科学];
学科分类号：
08 ; 0830 ;
摘要：
In this study, data available from GISAID on the whole-genome sequences of SARS-CoV-2 variants circulating in Tunisia were analyzed, and the prevalences of those variants in Tunisia were compared to their prevalences in other North African countries and around the world. Our results show new mutations and different prevalences of some lineages. In particular, new sets of mutations were identified in the spike protein of the virus during the analysis of 85 Tunisian samples, and the lineage B1.160 was found to be the most prevalent (18%) lineage in Tunisia. The prevalence of this lineage in Tunisia was significantly higher than its prevalence worldwide and in samples from neighboring countries (3%). This preliminary study shows the importance of tracking virus variants by next-generation sequencing in order to assess the dynamics of the COVID-19 pandemic and the impact of vaccination on the evolution of the virus.
引用
收藏
页数：5
相关论文
共 50 条
  • [11] Evaluation of EPISEQ SARS-CoV-2 and a Fully Integrated Application to Identify SARS-CoV-2 Variants from Several Next-Generation Sequencing Approaches
    Mugnier, Nathalie
    Griffon, Aurelien
    Simon, Bruno
    Rambaud, Maxence
    Regue, Hadrien
    Bal, Antonin
    Destras, Gregory
    Tournoud, Maud
    Jaillard, Magali
    Betraoui, Abel
    Santiago, Emmanuelle
    Cheynet, Valerie
    Vignola, Alexandre
    Ligeon, Veronique
    Josset, Laurence
    Brengel-Pesce, Karen
    VIRUSES-BASEL, 2022, 14 (08):
  • [12] High throughput detection and genetic epidemiology of SARS-CoV-2 using COVIDSeq next-generation sequencing
    Bhoyar, Rahul C.
    Jain, Abhinav
    Sehgal, Paras
    Divakar, Mohit Kumar
    Sharma, Disha
    Imran, Mohamed
    Jolly, Bani
    Ranjan, Gyan
    Rophina, Mercy
    Sharma, Sumit
    Siwach, Sanjay
    Pandhare, Kavita
    Sahoo, Swayamprabha
    Sahoo, Maheswata
    Nayak, Ananya
    Mohanty, Jatindra Nath
    Das, Jayashankar
    Bhandari, Sudhir
    Mathur, Sandeep K.
    Kumar, Anshul
    Sahlot, Rahul
    Rojarani, Pallavali
    Lakshmi, Juturu Vijaya
    Surekha, Avileli
    Sekhar, Pulala Chandra
    Mahajan, Shelly
    Masih, Shet
    Singh, Pawan
    Kumar, Vipin
    Jose, Blessy
    Mahajan, Vidur
    Gupta, Vivek
    Gupta, Rakesh
    Arumugam, Prabhakar
    Singh, Anjali
    Nandy, Ananya
    Ragavendran, P., V
    Jha, Rakesh Mohan
    Kumari, Anupama
    Gandotra, Sheetal
    Rao, Vivek
    Faruq, Mohammed
    Kumar, Sanjeev
    Reshma, Betsy G.
    Varma, Narendra G.
    Roy, Shuvra Shekhar
    Sengupta, Antara
    Chattopadhyay, Sabyasachi
    Singhal, Khushboo
    Pradhan, Shalini
    PLOS ONE, 2021, 16 (02):
  • [13] Detection of SARS-COV-2 variants and their proportions in wastewater samples using next-generation sequencing in Finland
    Lipponen A.
    Kolehmainen A.
    Oikarinen S.
    Hokajärvi A.-M.
    Lehto K.-M.
    Heikinheimo A.
    Halkilahti J.
    Juutinen A.
    Luomala O.
    Smura T.
    Liitsola K.
    Blomqvist S.
    Savolainen-Kopra C.
    Pitkänen T.
    Scientific Reports, 14 (1) : 7751
  • [14] Detection of SARS-COV-2 variants and their proportions in wastewater samples using next-generation sequencing in Finland
    Lipponen, Anssi
    Kolehmainen, Aleksi
    Oikarinen, Sami
    Hokajarvi, Anna-Maria
    Lehto, Kirsi-Maarit
    Heikinheimo, Annamari
    Halkilahti, Jani
    Juutinen, Aapo
    Luomala, Oskari
    Smura, Teemu
    Liitsola, Kirsi
    Blomqvist, Soile
    Savolainen-Kopra, Carita
    Pitkanen, Tarja
    SCIENTIFIC REPORTS, 2024, 14 (01):
  • [15] A Next-Generation Rapid, Accurate SARS-CoV-2 Antibody Test
    Abbasi, Jennifer
    JAMA-JOURNAL OF THE AMERICAN MEDICAL ASSOCIATION, 2021, 325 (18): : 1825 - 1825
  • [16] Billions boost next-generation weapons against SARS-CoV-2
    Cohen, Jon
    SCIENCE, 2023, 382 (6669) : 359 - 360
  • [17] Next generation sequencing of SARS-CoV-2 genomes: challenges, applications and opportunities
    Chiara, Matteo
    D'Erchia, Anna Maria
    Gissi, Carmela
    Manzari, Caterina
    Parisi, Antonio
    Resta, Nicoletta
    Zambelli, Federico
    Picardi, Ernesto
    Pavesi, Giulio
    Horner, David S.
    Pesole, Graziano
    BRIEFINGS IN BIOINFORMATICS, 2021, 22 (02) : 616 - 630
  • [18] Next-generation sequencing and RT-PCR to identify a 32-day SARS-CoV-2 carrier
    Song, Lingjie
    Xiao, Guibao
    Tang, Ruixiang
    Zhang, Xianqin
    Gao, Zhan
    Sun, Shixia
    Zhang, Lin
    Feng, Youjun
    Luan, Guangxin
    Lin, Sheng
    He, Miao
    Jia, Xu
    CLINICAL CHEMISTRY AND LABORATORY MEDICINE, 2021, 59 (06) : E251 - E254
  • [19] Next generation sequencing of multiple SARS-CoV-2 infections in the Omicron Era
    Cavalli, Marzia
    Campoli, Giulia
    Anselmo, Anna
    Brandi, Rossella
    Fortunato, Antonella
    Di Spirito, Maria
    Monte, Anella
    Lipari, Martina
    Bortone, Manfredo
    Fain, Vanessa Vera
    D'Amelio, Raffaele
    Lista, Florigio
    Fillo, Silvia
    SCIENTIFIC REPORTS, 2025, 15 (01):
  • [20] Next-Generation SARS-CoV-2 Vaccine Formulations and Alternative Routes of Administration
    Babu, Tara M.
    Jackson, Lisa A.
    El Sahly, Hana M.
    JOURNAL OF INFECTIOUS DISEASES, 2024, 231 (01): : 44 - 48
12345