Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast
<p><strong>Background:</strong><br /> International recommendations for the control of the coronavirus disease 2019 (COVID-19) pandemic emphasize the central role of laboratory testing for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the etiological agent, at...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Format: | Journal article |
| Language: | English |
| Published: |
F1000Research
2020
|
| _version_ | 1797084043161894912 |
|---|---|
| author | Agoti, C Mutunga, M Lambisia, A Kimani, D Cheruiyot, R Kiyuka, P Lewa, C Gicheru, E Tendwa, M Said Mohammed, K Osoti, V Makale, J Tawa, B Odundo, C Cheruiyot, W Nyamu, W Gumbi, W Mwacharo, J Nyamako, L Otieno, E Amadi, D Thoya, J Karani, A Mugo, D Musyoki, J Gumba, H Mwarumba, S M. Gichuki, B Njuguna, S Riako, D Mutua, S Gitonga, J Sein, Y Bartilol, B Mwangi, S O. Omuoyo, D M. Morobe, J de Laurent, Z Bejon, P Ochola-Oyier, LI Tsofa, B |
| author_facet | Agoti, C Mutunga, M Lambisia, A Kimani, D Cheruiyot, R Kiyuka, P Lewa, C Gicheru, E Tendwa, M Said Mohammed, K Osoti, V Makale, J Tawa, B Odundo, C Cheruiyot, W Nyamu, W Gumbi, W Mwacharo, J Nyamako, L Otieno, E Amadi, D Thoya, J Karani, A Mugo, D Musyoki, J Gumba, H Mwarumba, S M. Gichuki, B Njuguna, S Riako, D Mutua, S Gitonga, J Sein, Y Bartilol, B Mwangi, S O. Omuoyo, D M. Morobe, J de Laurent, Z Bejon, P Ochola-Oyier, LI Tsofa, B |
| author_sort | Agoti, C |
| collection | OXFORD |
| description | <p><strong>Background:</strong><br />
International recommendations for the control of the coronavirus disease 2019 (COVID-19) pandemic emphasize the central role of laboratory testing for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the etiological agent, at scale. The availability of testing reagents, laboratory equipment and qualified staff are important bottlenecks to achieving this. Elsewhere, pooled testing (i.e. combining multiple samples in the same reaction) has been suggested to increase testing capacities in the pandemic period.</p><br />
<p><strong>Methods:</strong><br />
We discuss our experience with SARS-CoV-2 pooled testing using real-time reverse transcription polymerase chain reaction (RT-PCR) on the Kenyan Coast.</p><br />
<p><strong>Results:</strong><br />
In mid-May, 2020, our RT-PCR testing capacity for SARS-CoV-2 was improved by ~100% as a result of adoption of a six-sample pooled testing strategy. This was accompanied with a concomitant saving of ~50% of SARS-CoV-2 laboratory test kits at both the RNA extraction and RT-PCR stages. However, pooled testing came with a slight decline of test sensitivity. The RT-PCR cycle threshold value (ΔCt) was ~1.59 higher for samples tested in pools compared to samples tested singly.</p><br />
<p><strong>Conclusions:</strong><br />
Pooled testing is a useful strategy to increase SARS-CoV-2 laboratory testing capacity especially in low-income settings.</p> |
| first_indexed | 2024-03-07T01:50:06Z |
| format | Journal article |
| id | oxford-uuid:99ca7b75-f439-4e2b-97a6-f6c80707401d |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T01:50:06Z |
| publishDate | 2020 |
| publisher | F1000Research |
| record_format | dspace |
| spelling | oxford-uuid:99ca7b75-f439-4e2b-97a6-f6c80707401d2022-03-27T00:16:58ZPooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan CoastJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:99ca7b75-f439-4e2b-97a6-f6c80707401dEnglishSymplectic ElementsF1000Research2020Agoti, CMutunga, MLambisia, AKimani, DCheruiyot, RKiyuka, PLewa, CGicheru, ETendwa, MSaid Mohammed, KOsoti, VMakale, JTawa, BOdundo, CCheruiyot, WNyamu, WGumbi, WMwacharo, JNyamako, LOtieno, EAmadi, DThoya, JKarani, AMugo, DMusyoki, JGumba, HMwarumba, SM. Gichuki, BNjuguna, SRiako, DMutua, SGitonga, JSein, YBartilol, BMwangi, SO. Omuoyo, DM. Morobe, Jde Laurent, ZBejon, POchola-Oyier, LITsofa, B<p><strong>Background:</strong><br /> International recommendations for the control of the coronavirus disease 2019 (COVID-19) pandemic emphasize the central role of laboratory testing for severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), the etiological agent, at scale. The availability of testing reagents, laboratory equipment and qualified staff are important bottlenecks to achieving this. Elsewhere, pooled testing (i.e. combining multiple samples in the same reaction) has been suggested to increase testing capacities in the pandemic period.</p><br /> <p><strong>Methods:</strong><br /> We discuss our experience with SARS-CoV-2 pooled testing using real-time reverse transcription polymerase chain reaction (RT-PCR) on the Kenyan Coast.</p><br /> <p><strong>Results:</strong><br /> In mid-May, 2020, our RT-PCR testing capacity for SARS-CoV-2 was improved by ~100% as a result of adoption of a six-sample pooled testing strategy. This was accompanied with a concomitant saving of ~50% of SARS-CoV-2 laboratory test kits at both the RNA extraction and RT-PCR stages. However, pooled testing came with a slight decline of test sensitivity. The RT-PCR cycle threshold value (ΔCt) was ~1.59 higher for samples tested in pools compared to samples tested singly.</p><br /> <p><strong>Conclusions:</strong><br /> Pooled testing is a useful strategy to increase SARS-CoV-2 laboratory testing capacity especially in low-income settings.</p> |
| spellingShingle | Agoti, C Mutunga, M Lambisia, A Kimani, D Cheruiyot, R Kiyuka, P Lewa, C Gicheru, E Tendwa, M Said Mohammed, K Osoti, V Makale, J Tawa, B Odundo, C Cheruiyot, W Nyamu, W Gumbi, W Mwacharo, J Nyamako, L Otieno, E Amadi, D Thoya, J Karani, A Mugo, D Musyoki, J Gumba, H Mwarumba, S M. Gichuki, B Njuguna, S Riako, D Mutua, S Gitonga, J Sein, Y Bartilol, B Mwangi, S O. Omuoyo, D M. Morobe, J de Laurent, Z Bejon, P Ochola-Oyier, LI Tsofa, B Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title | Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title_full | Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title_fullStr | Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title_full_unstemmed | Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title_short | Pooled testing conserves SARS-CoV-2 laboratory resources and improves test turn-around time: Experience on the Kenyan Coast |
| title_sort | pooled testing conserves sars cov 2 laboratory resources and improves test turn around time experience on the kenyan coast |
| work_keys_str_mv | AT agotic pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mutungam pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT lambisiaa pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT kimanid pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT cheruiyotr pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT kiyukap pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT lewac pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT gicherue pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT tendwam pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT saidmohammedk pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT osotiv pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT makalej pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT tawab pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT odundoc pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT cheruiyotw pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT nyamuw pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT gumbiw pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mwacharoj pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT nyamakol pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT otienoe pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT amadid pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT thoyaj pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT karania pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mugod pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT musyokij pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT gumbah pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mwarumbas pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mgichukib pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT njugunas pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT riakod pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mutuas pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT gitongaj pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT seiny pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT bartilolb pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mwangis pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT oomuoyod pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT mmorobej pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT delaurentz pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT bejonp pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT ocholaoyierli pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast AT tsofab pooledtestingconservessarscov2laboratoryresourcesandimprovestestturnaroundtimeexperienceonthekenyancoast |