Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria.
<h4>Background</h4>Salmonellosis causes significant morbidity and mortality in Africa. Information on lineages of invasive Salmonella circulating in Nigeria is sparse.<h4>Methods</h4>Salmonella enterica isolated from blood (n = 60) and cerebrospinal fluid (CSF, n = 3) between...
| Main Authors: | , , , , , , , , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2022-08-01
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| Series: | PLoS Neglected Tropical Diseases |
| Online Access: | https://doi.org/10.1371/journal.pntd.0010716 |
| _version_ | 1818030273951956992 |
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| author | Odion O Ikhimiukor Anderson O Oaikhena Ayorinde O Afolayan Abayomi Fadeyi Aderemi Kehinde Veronica O Ogunleye Aaron O Aboderin Oyinlola O Oduyebo Charles J Elikwu Erkison Ewomazino Odih Ifeoluwa Komolafe Silvia Argimón Abiodun Egwuenu Ini Adebiyi Oluwadamilola A Sadare Tochi Okwor Mihir Kekre Anthony Underwood Chikwe Ihekweazu David M Aanensen Iruka N Okeke |
| author_facet | Odion O Ikhimiukor Anderson O Oaikhena Ayorinde O Afolayan Abayomi Fadeyi Aderemi Kehinde Veronica O Ogunleye Aaron O Aboderin Oyinlola O Oduyebo Charles J Elikwu Erkison Ewomazino Odih Ifeoluwa Komolafe Silvia Argimón Abiodun Egwuenu Ini Adebiyi Oluwadamilola A Sadare Tochi Okwor Mihir Kekre Anthony Underwood Chikwe Ihekweazu David M Aanensen Iruka N Okeke |
| author_sort | Odion O Ikhimiukor |
| collection | DOAJ |
| description | <h4>Background</h4>Salmonellosis causes significant morbidity and mortality in Africa. Information on lineages of invasive Salmonella circulating in Nigeria is sparse.<h4>Methods</h4>Salmonella enterica isolated from blood (n = 60) and cerebrospinal fluid (CSF, n = 3) between 2016 and 2020 from five tertiary hospitals in southwest Nigeria were antimicrobial susceptibility-tested and Illumina-sequenced. Genomes were analysed using publicly-available bioinformatic tools.<h4>Results</h4>Isolates and sequence types (STs) from blood were S. Typhi [ST1, n = 1 and ST2, n = 43] and invasive non-typhoidal Salmonella (iNTS) (S. Enteritidis [ST11, n = 7], S. Durham [ST10, n = 2], S. Rissen [ST8756, n = 2], S. Chester [ST2063, n = 1], S. Dublin [ST10, n = 1], S. Infantis [ST603, n = 1], S. Telelkebir [ST8757, n = 1] and S. Typhimurium [ST313, n = 1]). S. Typhi ST2 (n = 2) and S. Adabraka ST8757 (n = 1) were recovered from CSF. Most S. Typhi belonged to genotype 3.1.1 (n = 44), carried an IncY plasmid, had several antibiotic resistance genes (ARGs) including blaTEM-1 (n = 38), aph(6)-Id (n = 32), tet(A) (n = 33), sul2 (n = 32), dfrA14 (n = 30) as well as quinolone resistance-conferring gyrA_S83Y single-nucleotide polymorphisms (n = 37). All S. Enteritidis harboured aph(3")-Ib, blaTEM-1, catA1, dfrA7, sul1, sul2, tet(B) genes, and a single ARG, qnrB19, was detected in S. Telelkebir. Typhoidal toxins cdtB, pltA and pltB were detected in S. Typhi, Rissen, Chester, and Telelkebir.<h4>Conclusion</h4>Most invasive salmonelloses in southwest Nigeria are vaccine-preventable infections due to multidrug-resistant, West African dominant S. Typhi lineage 3.1.1. Invasive NTS serovars, including some harbouring typhoidal toxin or resistance genes, represented a third of the isolates emphasizing the need for better diagnosis and surveillance. |
| first_indexed | 2024-12-10T05:32:58Z |
| format | Article |
| id | doaj.art-8f44bc2e561549ae922b45ea20b75aff |
| institution | Directory Open Access Journal |
| issn | 1935-2727 1935-2735 |
| language | English |
| last_indexed | 2024-12-10T05:32:58Z |
| publishDate | 2022-08-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Neglected Tropical Diseases |
| spelling | doaj.art-8f44bc2e561549ae922b45ea20b75aff2022-12-22T02:00:30ZengPublic Library of Science (PLoS)PLoS Neglected Tropical Diseases1935-27271935-27352022-08-01168e001071610.1371/journal.pntd.0010716Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria.Odion O IkhimiukorAnderson O OaikhenaAyorinde O AfolayanAbayomi FadeyiAderemi KehindeVeronica O OgunleyeAaron O AboderinOyinlola O OduyeboCharles J ElikwuErkison Ewomazino OdihIfeoluwa KomolafeSilvia ArgimónAbiodun EgwuenuIni AdebiyiOluwadamilola A SadareTochi OkworMihir KekreAnthony UnderwoodChikwe IhekweazuDavid M AanensenIruka N Okeke<h4>Background</h4>Salmonellosis causes significant morbidity and mortality in Africa. Information on lineages of invasive Salmonella circulating in Nigeria is sparse.<h4>Methods</h4>Salmonella enterica isolated from blood (n = 60) and cerebrospinal fluid (CSF, n = 3) between 2016 and 2020 from five tertiary hospitals in southwest Nigeria were antimicrobial susceptibility-tested and Illumina-sequenced. Genomes were analysed using publicly-available bioinformatic tools.<h4>Results</h4>Isolates and sequence types (STs) from blood were S. Typhi [ST1, n = 1 and ST2, n = 43] and invasive non-typhoidal Salmonella (iNTS) (S. Enteritidis [ST11, n = 7], S. Durham [ST10, n = 2], S. Rissen [ST8756, n = 2], S. Chester [ST2063, n = 1], S. Dublin [ST10, n = 1], S. Infantis [ST603, n = 1], S. Telelkebir [ST8757, n = 1] and S. Typhimurium [ST313, n = 1]). S. Typhi ST2 (n = 2) and S. Adabraka ST8757 (n = 1) were recovered from CSF. Most S. Typhi belonged to genotype 3.1.1 (n = 44), carried an IncY plasmid, had several antibiotic resistance genes (ARGs) including blaTEM-1 (n = 38), aph(6)-Id (n = 32), tet(A) (n = 33), sul2 (n = 32), dfrA14 (n = 30) as well as quinolone resistance-conferring gyrA_S83Y single-nucleotide polymorphisms (n = 37). All S. Enteritidis harboured aph(3")-Ib, blaTEM-1, catA1, dfrA7, sul1, sul2, tet(B) genes, and a single ARG, qnrB19, was detected in S. Telelkebir. Typhoidal toxins cdtB, pltA and pltB were detected in S. Typhi, Rissen, Chester, and Telelkebir.<h4>Conclusion</h4>Most invasive salmonelloses in southwest Nigeria are vaccine-preventable infections due to multidrug-resistant, West African dominant S. Typhi lineage 3.1.1. Invasive NTS serovars, including some harbouring typhoidal toxin or resistance genes, represented a third of the isolates emphasizing the need for better diagnosis and surveillance.https://doi.org/10.1371/journal.pntd.0010716 |
| spellingShingle | Odion O Ikhimiukor Anderson O Oaikhena Ayorinde O Afolayan Abayomi Fadeyi Aderemi Kehinde Veronica O Ogunleye Aaron O Aboderin Oyinlola O Oduyebo Charles J Elikwu Erkison Ewomazino Odih Ifeoluwa Komolafe Silvia Argimón Abiodun Egwuenu Ini Adebiyi Oluwadamilola A Sadare Tochi Okwor Mihir Kekre Anthony Underwood Chikwe Ihekweazu David M Aanensen Iruka N Okeke Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. PLoS Neglected Tropical Diseases |
| title | Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. |
| title_full | Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. |
| title_fullStr | Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. |
| title_full_unstemmed | Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. |
| title_short | Genomic characterization of invasive typhoidal and non-typhoidal Salmonella in southwestern Nigeria. |
| title_sort | genomic characterization of invasive typhoidal and non typhoidal salmonella in southwestern nigeria |
| url | https://doi.org/10.1371/journal.pntd.0010716 |
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