Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant
Infants (under 1-year-old) are at most risk of life threatening respiratory syncytial virus (RSV) disease. RSV epidemiological data alone has been insufficient in defining who acquires infection from whom (WAIFW) within households. We investigated RSV genomic variation within and between infected in...
| Egile Nagusiak: | , , , , , , , , |
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| Formatua: | Journal article |
| Hizkuntza: | English |
| Argitaratua: |
Springer Nature
2019
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| _version_ | 1826280500678885376 |
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| author | Agoti, CN Phan, MVT Munywoki, PK Githinji, G Medley, GF Cane, PA Kellam, P Cotten, M Nokes, DJ |
| author_facet | Agoti, CN Phan, MVT Munywoki, PK Githinji, G Medley, GF Cane, PA Kellam, P Cotten, M Nokes, DJ |
| author_sort | Agoti, CN |
| collection | OXFORD |
| description | Infants (under 1-year-old) are at most risk of life threatening respiratory syncytial virus (RSV) disease. RSV epidemiological data alone has been insufficient in defining who acquires infection from whom (WAIFW) within households. We investigated RSV genomic variation within and between infected individuals and assessed its potential utility in tracking transmission in households. Over an entire single RSV season in coastal Kenya, nasal swabs were collected from members of 20 households every 3-4 days regardless of symptom status and screened for RSV nucleic acid. Next generation sequencing was used to generate >90% RSV full-length genomes for 51.1% of positive samples (191/374). Single nucleotide polymorphisms (SNPs) observed during household infection outbreaks ranged from 0-21 (median: 3) while SNPs observed during single-host infection episodes ranged from 0-17 (median: 1). Using the viral genomic data alone there was insufficient resolution to fully reconstruct within-household transmission chains. For households with clear index cases, the most likely source of infant infection was via a toddler (aged 1 to <3 years-old) or school-aged (aged 6 to <12 years-old) co-occupant. However, for best resolution of WAIFW within households, we suggest an integrated analysis of RSV genomic and epidemiological data. |
| first_indexed | 2024-03-07T00:14:39Z |
| format | Journal article |
| id | oxford-uuid:7a65837e-2cc3-423c-9c19-e00ffd66301d |
| institution | University of Oxford |
| language | English |
| last_indexed | 2024-03-07T00:14:39Z |
| publishDate | 2019 |
| publisher | Springer Nature |
| record_format | dspace |
| spelling | oxford-uuid:7a65837e-2cc3-423c-9c19-e00ffd66301d2022-03-26T20:43:52ZGenomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infantJournal articlehttp://purl.org/coar/resource_type/c_dcae04bcuuid:7a65837e-2cc3-423c-9c19-e00ffd66301dEnglishSymplectic ElementsSpringer Nature2019Agoti, CNPhan, MVTMunywoki, PKGithinji, GMedley, GFCane, PAKellam, PCotten, MNokes, DJInfants (under 1-year-old) are at most risk of life threatening respiratory syncytial virus (RSV) disease. RSV epidemiological data alone has been insufficient in defining who acquires infection from whom (WAIFW) within households. We investigated RSV genomic variation within and between infected individuals and assessed its potential utility in tracking transmission in households. Over an entire single RSV season in coastal Kenya, nasal swabs were collected from members of 20 households every 3-4 days regardless of symptom status and screened for RSV nucleic acid. Next generation sequencing was used to generate >90% RSV full-length genomes for 51.1% of positive samples (191/374). Single nucleotide polymorphisms (SNPs) observed during household infection outbreaks ranged from 0-21 (median: 3) while SNPs observed during single-host infection episodes ranged from 0-17 (median: 1). Using the viral genomic data alone there was insufficient resolution to fully reconstruct within-household transmission chains. For households with clear index cases, the most likely source of infant infection was via a toddler (aged 1 to <3 years-old) or school-aged (aged 6 to <12 years-old) co-occupant. However, for best resolution of WAIFW within households, we suggest an integrated analysis of RSV genomic and epidemiological data. |
| spellingShingle | Agoti, CN Phan, MVT Munywoki, PK Githinji, G Medley, GF Cane, PA Kellam, P Cotten, M Nokes, DJ Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title | Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title_full | Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title_fullStr | Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title_full_unstemmed | Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title_short | Genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
| title_sort | genomic analysis of respiratory syncytial virus infections in households and utility in inferring who infects the infant |
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