Monkeypox virus genome sequence from an imported human case in Colombia
INTRODUCTION: Monkeypox virus (MPXV) is an enveloped double-stranded DNA virus with a genome of approximately 197.209 bp. The current classification divides MPXV into three clades: Clade I (Central African or Congo Basin clade) and clades IIa and IIb (West African clades).
OBJECTIVE: To report the complete genome and phylogenetic analysis of a human monkeypox case detected in Colombia.
MATERIALS AND METHODS: Exudate from vesicular lesions was obtained from a male patient with recent travel history to Spain. A direct genomic approach was implemented in which total DNA from the sample was purified through a column-based method, followed by sequencing on the Nanopore GridION. Reads were aligned against the MPXV reference genome using minimap2 v.2.24 and phylogenetic inference was performed using maximum likelihood estimation.
RESULTS: A total of 11.951 reads mapped directly to a reference genome with 96.8% of coverage (190.898 bp).
CONCLUSION: Phylogenetic analysis of the MPXV circulating in Colombia demonstrated its close relationship to clade IIb responsible for the multi-country outbreak in 2022.
| Medienart: |
E-Artikel |
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| Erscheinungsjahr: |
2022 |
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| Erschienen: |
2022 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:42 |
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| Enthalten in: |
Biomedica : revista del Instituto Nacional de Salud - 42(2022), 3 vom: 02. Sept., Seite 541-545 |
| Sprache: |
Englisch |
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| Weiterer Titel: |
Secuencia genómica del virus de la viruela símica de un caso importado en Colombia |
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| Beteiligte Personen: |
Laiton-Donato, Katherine [VerfasserIn] |
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| Links: |
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| Themen: |
Colombia |
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| Anmerkungen: |
Date Completed 22.09.2022 Date Revised 13.12.2023 published: Electronic Citation Status MEDLINE |
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| doi: |
10.7705/biomedica.6647 |
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| funding: |
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| Förderinstitution / Projekttitel: |
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| PPN (Katalog-ID): |
NLM346387957 |
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| 245 | 1 | 0 | |a Monkeypox virus genome sequence from an imported human case in Colombia |
| 246 | 3 | 3 | |a Secuencia genómica del virus de la viruela símica de un caso importado en Colombia |
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| 500 | |a Date Completed 22.09.2022 | ||
| 500 | |a Date Revised 13.12.2023 | ||
| 500 | |a published: Electronic | ||
| 500 | |a Citation Status MEDLINE | ||
| 520 | |a INTRODUCTION: Monkeypox virus (MPXV) is an enveloped double-stranded DNA virus with a genome of approximately 197.209 bp. The current classification divides MPXV into three clades: Clade I (Central African or Congo Basin clade) and clades IIa and IIb (West African clades) | ||
| 520 | |a OBJECTIVE: To report the complete genome and phylogenetic analysis of a human monkeypox case detected in Colombia | ||
| 520 | |a MATERIALS AND METHODS: Exudate from vesicular lesions was obtained from a male patient with recent travel history to Spain. A direct genomic approach was implemented in which total DNA from the sample was purified through a column-based method, followed by sequencing on the Nanopore GridION. Reads were aligned against the MPXV reference genome using minimap2 v.2.24 and phylogenetic inference was performed using maximum likelihood estimation | ||
| 520 | |a RESULTS: A total of 11.951 reads mapped directly to a reference genome with 96.8% of coverage (190.898 bp) | ||
| 520 | |a CONCLUSION: Phylogenetic analysis of the MPXV circulating in Colombia demonstrated its close relationship to clade IIb responsible for the multi-country outbreak in 2022 | ||
| 650 | 4 | |a Journal Article | |
| 650 | 4 | |a Monkeypox virus | |
| 650 | 4 | |a nanopore sequencing | |
| 650 | 4 | |a phylogeny | |
| 650 | 4 | |a Colombia | |
| 700 | 1 | |a Álvarez-Díaz, Diego A |e verfasserin |4 aut | |
| 700 | 1 | |a Franco-Muñoz, Carlos |e verfasserin |4 aut | |
| 700 | 1 | |a Ruiz-Moreno, Héctor A |e verfasserin |4 aut | |
| 700 | 1 | |a Rojas-Estévez, Paola |e verfasserin |4 aut | |
| 700 | 1 | |a Prada, Andrés |e verfasserin |4 aut | |
| 700 | 1 | |a Rosales, Alicia |e verfasserin |4 aut | |
| 700 | 1 | |a Ospina, Martha Lucía |e verfasserin |4 aut | |
| 700 | 1 | |a Mercado-Reyes, Marcela |e verfasserin |4 aut | |
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