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X Demographics
Mendeley readers
Attention Score in Context
| Title |
Whole-genome sequencing of SARS-CoV-2 isolates from symptomatic and asymptomatic individuals in Tanzania
|
|---|---|
| Published in |
Frontiers in Medicine, January 2023
|
| DOI | 10.3389/fmed.2022.1034682 |
| Pubmed ID | |
| Authors |
Shabani Ramadhani Mziray, Marco van Zwetselaar, Charles C. Kayuki, Peter M. Mbelele, Abel N. Makubi, Alex S. Magesa, Riziki M. Kisonga, Tolbert B. Sonda, Gibson S. Kibiki, George Githinji, Scott K. Heysell, Jaffu O. Chilongola, Stellah G. Mpagama |
| Abstract |
BackgroundCoronavirus Disease-2019 (COVID-19), caused by Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) accounts for considerable morbidity and mortality globally. Paucity of SARS-CoV-2 genetic data from Tanzania challenges in-country tracking of the pandemic. We sequenced SARS-CoV-2 isolated in the country to determine circulating strains, mutations and phylogenies and finally enrich international genetic databases especially with sequences from Africa.MethodsThis cross-sectional study utilized nasopharyngeal swabs of symptomatic and asymptomatic adults with positive polymerase chain reaction tests for COVID-19 from January to May 2021. Viral genomic libraries were prepared using ARTIC nCoV-2019 sequencing protocol version three. Whole-genome sequencing (WGS) was performed using Oxford Nanopore Technologies MinION device. In silico genomic data analysis was done on ARTIC pipeline version 1.2.1 using ARTIC nCoV-2019 bioinformatics protocol version 1.1.0.ResultsTwenty-nine (42%) out of 69 samples qualified for sequencing based on gel electrophoretic band intensity of multiplex PCR amplicons. Out of 29 isolates, 26 were variants of concern [Beta (n = 22); and Delta (n = 4)]. Other variants included Eta (n = 2) and B.1.530 (n = 1). We found combination of mutations (S: D80A, S: D215G, S: K417N, ORF3a: Q57H, E: P71L) in all Beta variants and absent in other lineages. The B.1.530 lineage carried mutations with very low cumulative global prevalence, these were nsp13:M233I, nsp14:S434G, ORF3a:A99S, S: T22I and S: N164H. The B.1.530 lineage clustered phylogenetically with isolates first reported in south-east Kenya, suggesting regional evolution of SARS-CoV-2.ConclusionWe provide evidence of existence of Beta, Delta, Eta variants and a locally evolving lineage (B.1.530) from samples collected in early 2021 in Tanzania. This work provides a model for ongoing WGS surveillance that will be required to inform on emerging and circulating SARS-CoV-2 diversity in Tanzania and East Africa. |
X Demographics
The data shown below were collected from the profiles of 12 X users who shared this research output. Click here to find out more about how the information was compiled.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Tanzania, United Republic of | 4 | 33% |
| India | 1 | 8% |
| Unknown | 7 | 58% |
Demographic breakdown
| Type | Count | As % |
|---|---|---|
| Members of the public | 8 | 67% |
| Scientists | 4 | 33% |
Mendeley readers
The data shown below were compiled from readership statistics for 8 Mendeley readers of this research output. Click here to see the associated Mendeley record.
Geographical breakdown
| Country | Count | As % |
|---|---|---|
| Unknown | 8 | 100% |
Demographic breakdown
| Readers by professional status | Count | As % |
|---|---|---|
| Unspecified | 2 | 25% |
| Researcher | 2 | 25% |
| Student > Master | 2 | 25% |
| Student > Postgraduate | 1 | 13% |
| Student > Ph. D. Student | 1 | 13% |
| Other | 0 | 0% |
| Readers by discipline | Count | As % |
|---|---|---|
| Unspecified | 2 | 25% |
| Biochemistry, Genetics and Molecular Biology | 1 | 13% |
| Nursing and Health Professions | 1 | 13% |
| Social Sciences | 1 | 13% |
| Neuroscience | 1 | 13% |
| Other | 1 | 13% |
| Unknown | 1 | 13% |
Attention Score in Context
This research output has an Altmetric Attention Score of 9. This is our high-level measure of the quality and quantity of online attention that it has received. This Attention Score, as well as the ranking and number of research outputs shown below, was calculated when the research output was last mentioned on 23 January 2023.
All research outputs
#4,223,907
of 25,323,244 outputs
Outputs from Frontiers in Medicine
#1,197
of 7,118 outputs
Outputs of similar age
#81,607
of 476,538 outputs
Outputs of similar age from Frontiers in Medicine
#69
of 440 outputs
Altmetric has tracked 25,323,244 research outputs across all sources so far. Compared to these this one has done well and is in the 83rd percentile: it's in the top 25% of all research outputs ever tracked by Altmetric.
So far Altmetric has tracked 7,118 research outputs from this source. They typically receive a lot more attention than average, with a mean Attention Score of 13.7. This one has done well, scoring higher than 83% of its peers.
Older research outputs will score higher simply because they've had more time to accumulate mentions. To account for age we can compare this Altmetric Attention Score to the 476,538 tracked outputs that were published within six weeks on either side of this one in any source. This one has done well, scoring higher than 82% of its contemporaries.
We're also able to compare this research output to 440 others from the same source and published within six weeks on either side of this one. This one has done well, scoring higher than 84% of its contemporaries.