Coding-Complete Genome Sequences and Mutation Profiles of Nine SARS-CoV-2 Strains Detected from COVID-19 Patients in Bangladesh

被引:9
作者
Adnan, Nihad [1 ,2 ]
Khondoker, Mohib Ullah [2 ,3 ,4 ]
Rahman, M. Shaminur [5 ]
Ahmed, M. Firoz [1 ]
Sharmin, Shahana [6 ]
Sharif, Nadim [1 ]
Azmuda, Nafisa [1 ]
Akter, Salma [1 ]
Nahar, Shamsun [1 ]
Mou, Taslin Jahan [1 ]
Marzan, Mahfuza [1 ]
Liza, Syeda Moriam [1 ]
Jahan, Nowshin [2 ]
Ali, Tamanna [2 ]
Khandker, Shahad Saif [2 ]
Jamiruddin, Maha [2 ]
Chaity, Mousumi Akter [2 ]
Caller, Laura Grace [7 ]
Haq, M. Ahsanul [2 ]
Jamiruddin, Mohd Raeed [2 ,6 ]
机构
[1] Jahangirnagar Univ, Dept Microbiol, Dhaka, Bangladesh
[2] Gonoshasthaya RNA Mol Diagnost & Res Ctr, Dhaka, Bangladesh
[3] Gonoshasthaya Samaj Vitt Med Coll, Dhaka, Bangladesh
[4] Gono Bishwabidyalay, Ctr Multidisciplinary Res, Dhaka, Bangladesh
[5] Univ Dhaka, Dept Microbiol, Dhaka, Bangladesh
[6] BRAC Univ, Dept Pharm, Dhaka, Bangladesh
[7] Univ Cambridge, Dept Pathol, Cambridge, England
关键词
D O I
10.1128/MRA.00124-21
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Here, we report the coding-complete genome sequences of nine clinical severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) variants and their mutations. The samples were collected from nine Bangladeshi coronavirus disease 2019 (COVID-19) patients. We have identified the E484K escape mutation and the S359T mutation within the spike protein coding region of the sequenced genomes.
引用
收藏
页数:3
相关论文
共 10 条
[1]  
Barcenas Morales G., 2021, NATURE, DOI DOI 10.1038/S41586-021-03412-7
[2]   Data, disease and diplomacy: GISAID's innovative contribution to global health [J].
Elbe, Stefan ;
Buckland-Merrett, Gemma .
GLOBAL CHALLENGES, 2017, 1 (01) :33-46
[3]   bio-samtools 2: a package for analysis and visualization of sequence and alignment data with SAMtools in Ruby [J].
Etherington, Graham J. ;
Ramirez-Gonzalez, Ricardo H. ;
MacLean, Dan .
BIOINFORMATICS, 2015, 31 (15) :2565-2567
[4]  
Goyal A, 2017, Open journal of genetics, V7, P9, DOI [10.4236/ojgen.2017, DOI 10.4236/OJGEN.2017, DOI 10.4236/OJGEN.2017.71002]
[5]   Variant analysis of SARS-CoV-2 genomes [J].
Koyama, Takahiko ;
Platt, Daniel ;
Parida, Laxmi .
BULLETIN OF THE WORLD HEALTH ORGANIZATION, 2020, 98 (07) :495-504
[6]   The Sequence Alignment/Map format and SAMtools [J].
Li, Heng ;
Handsaker, Bob ;
Wysoker, Alec ;
Fennell, Tim ;
Ruan, Jue ;
Homer, Nils ;
Marth, Gabor ;
Abecasis, Goncalo ;
Durbin, Richard .
BIOINFORMATICS, 2009, 25 (16) :2078-2079
[7]  
Seeman T, 2015, SNIPPY RAPID HAPLOID
[8]   Discovery and Genomic Characterization of a 382-Nucleotide Deletion in ORF7b and ORF8 during the Early Evolution of SARS-CoV-2 [J].
Su, Yvonne C. F. ;
Anderson, Danielle E. ;
Young, Barnaby E. ;
Linster, Martin ;
Zhu, Feng ;
Jayakumar, Jayanthi ;
Zhuang, Yan ;
Kalimuddin, Shirin ;
Low, Jenny G. H. ;
Tan, Chee Wah ;
Chia, Wan Ni ;
Mak, Tze Minn ;
Octavia, Sophie ;
Chavatte, Jean-Marc ;
Lee, Raphael T. C. ;
Pada, Surinder ;
Tan, Seow Yen ;
Sun, Louisa ;
Yan, Gabriel Z. ;
Maurer-Stroh, Sebastian ;
Mendenhall, Ian H. ;
Leo, Yee-Sin ;
Lye, David Chien ;
Wang, Lin-Fa ;
Smith, Gavin J. D. .
MBIO, 2020, 11 (04) :1-9
[9]   Detection of a SARS-CoV-2 variant of concern in South Africa [J].
Tegally, Houriiyah ;
Wilkinson, Eduan ;
Giovanetti, Marta ;
Iranzadeh, Arash ;
Fonseca, Vagner ;
Giandhari, Jennifer ;
Doolabh, Deelan ;
Pillay, Sureshnee ;
San, Emmanuel James ;
Msomi, Nokukhanya ;
Mlisana, Koleka ;
von Gottberg, Anne ;
Walaza, Sibongile ;
Allam, Mushal ;
Ismail, Arshad ;
Mohale, Thabo ;
Glass, Allison J. ;
Engelbrecht, Susan ;
Van Zyl, Gert ;
Preiser, Wolfgang ;
Petruccione, Francesco ;
Sigal, Alex ;
Hardie, Diana ;
Marais, Gert ;
Hsiao, Nei-Yuan ;
Korsman, Stephen ;
Davies, Mary-Ann ;
Tyers, Lynn ;
Mudau, Innocent ;
York, Denis ;
Maslo, Caroline ;
Goedhals, Dominique ;
Abrahams, Shareef ;
Laguda-Akingba, Oluwakemi ;
Alisoltani-Dehkordi, Arghavan ;
Godzik, Adam ;
Wibmer, Constantinos Kurt ;
Sewell, Bryan Trevor ;
Lourenco, Jose ;
Alcantara, Luiz Carlos Junior ;
Pond, Sergei L. Kosakovsky ;
Weaver, Steven ;
Martin, Darren ;
Lessells, Richard J. ;
Bhiman, Jinal N. ;
Williamson, Carolyn ;
de Oliveira, Tulio .
NATURE, 2021, 592 (7854) :438-+
[10]  
World Health Organisation [WHO], 2020, WHO Timeline-COVID-19