Metagenomic Analysis of the Enteric RNA Virome of Infants from the Oukasie Clinic, North West Province, South Africa, Reveals Diverse Eukaryotic Viruses Article Swipe
Milton T. Mogotsi
,
Peter N. Mwangi
,
Phillip Armand Bester
,
M. Jeffrey Mphahlele
,
Mapaseka Seheri
,
Hester G. O’Neill
,
Martin M. Nyaga
·
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.3390/v12111260
YOU?
·
· 2020
· Open Access
·
· DOI: https://doi.org/10.3390/v12111260
Establishing a diverse gut microbiota after birth is essential for preventing illnesses later in life. However, little knowledge exists about the total viral population (virome) present in the gut of infants during the early developmental stage, with RNA viruses being generally overlooked. Therefore, this small pilot longitudinal study investigated the diversity and changes in the enteric RNA virome in healthy infants from South Africa. Faecal samples (n = 12) were collected from four infants at three time points (on average at 8, 13, and 25 weeks), and then sequenced on an Illumina MiSeq platform. The genomic analysis revealed a diverse population of human enteric viruses from the infants’ stools, and changes in the enteric virome composition were observed over time. The Reoviridae family, more specifically the Rotavirus genus, was the most common and could be linked to viral shedding due to the administration of live-attenuated oral vaccines in South Africa, followed by the Picornaviridae family including parechoviruses, echoviruses, coxsackieviruses, enteroviruses, and polioviruses. Polioviruses were also linked to vaccine-related shedding. Astroviridae (astroviruses) and Caliciviridae (noroviruses) were present at low abundance. It is evident that an infant’s gut is colonized by distinct viral populations irrespective of their health state. Further characterization of the human virome (with a larger participant pool) is imperative to provide more conclusive insights into the viral community structure and diversity that has been shown in the current study, despite the smaller sample size.
Related Topics
Concepts
Human virome
Biology
Echovirus
Virology
Coxsackievirus
Population
Enterovirus
Metagenomics
Reoviridae
Rotavirus
Astrovirus
Virus
Picornaviridae
Genetics
Medicine
Gene
Environmental health
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.3390/v12111260
- https://www.mdpi.com/1999-4915/12/11/1260/pdf?version=1604730287
- OA Status
- gold
- Cited By
- 18
- References
- 51
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W3096710318
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W3096710318Canonical identifier for this work in OpenAlex
- DOI
-
https://doi.org/10.3390/v12111260Digital Object Identifier
- Title
-
Metagenomic Analysis of the Enteric RNA Virome of Infants from the Oukasie Clinic, North West Province, South Africa, Reveals Diverse Eukaryotic VirusesWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2020Year of publication
- Publication date
-
2020-11-05Full publication date if available
- Authors
-
Milton T. Mogotsi, Peter N. Mwangi, Phillip Armand Bester, M. Jeffrey Mphahlele, Mapaseka Seheri, Hester G. O’Neill, Martin M. NyagaList of authors in order
- Landing page
-
https://doi.org/10.3390/v12111260Publisher landing page
- PDF URL
-
https://www.mdpi.com/1999-4915/12/11/1260/pdf?version=1604730287Direct link to full text PDF
- Open access
-
YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
- OA URL
-
https://www.mdpi.com/1999-4915/12/11/1260/pdf?version=1604730287Direct OA link when available
- Concepts
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Human virome, Biology, Echovirus, Virology, Coxsackievirus, Population, Enterovirus, Metagenomics, Reoviridae, Rotavirus, Astrovirus, Virus, Picornaviridae, Genetics, Medicine, Gene, Environmental healthTop concepts (fields/topics) attached by OpenAlex
- Cited by
-
18Total citation count in OpenAlex
- Citations by year (recent)
-
2025: 2, 2024: 3, 2023: 4, 2022: 3, 2021: 6Per-year citation counts (last 5 years)
- References (count)
-
51Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.viral | 22, 137, 190, 217 |
| abstract_inverted_index.Faecal | 64 |
| abstract_inverted_index.common | 131 |
| abstract_inverted_index.during | 31 |
| abstract_inverted_index.exists | 18 |
| abstract_inverted_index.family | 154 |
| abstract_inverted_index.genus, | 127 |
| abstract_inverted_index.health | 195 |
| abstract_inverted_index.larger | 205 |
| abstract_inverted_index.linked | 135, 165 |
| abstract_inverted_index.little | 16 |
| abstract_inverted_index.points | 77 |
| abstract_inverted_index.sample | 233 |
| abstract_inverted_index.stage, | 35 |
| abstract_inverted_index.state. | 196 |
| abstract_inverted_index.study, | 229 |
| abstract_inverted_index.virome | 57, 114, 202 |
| abstract_inverted_index.Africa, | 149 |
| abstract_inverted_index.Africa. | 63 |
| abstract_inverted_index.Further | 197 |
| abstract_inverted_index.average | 79 |
| abstract_inverted_index.changes | 52, 110 |
| abstract_inverted_index.current | 228 |
| abstract_inverted_index.despite | 230 |
| abstract_inverted_index.diverse | 2, 99 |
| abstract_inverted_index.enteric | 55, 103, 113 |
| abstract_inverted_index.evident | 181 |
| abstract_inverted_index.family, | 122 |
| abstract_inverted_index.genomic | 95 |
| abstract_inverted_index.healthy | 59 |
| abstract_inverted_index.infants | 30, 60, 73 |
| abstract_inverted_index.present | 25, 175 |
| abstract_inverted_index.provide | 211 |
| abstract_inverted_index.samples | 65 |
| abstract_inverted_index.smaller | 232 |
| abstract_inverted_index.stools, | 108 |
| abstract_inverted_index.viruses | 38, 104 |
| abstract_inverted_index.weeks), | 85 |
| abstract_inverted_index.(virome) | 24 |
| abstract_inverted_index.However, | 15 |
| abstract_inverted_index.Illumina | 91 |
| abstract_inverted_index.analysis | 96 |
| abstract_inverted_index.distinct | 189 |
| abstract_inverted_index.followed | 150 |
| abstract_inverted_index.insights | 214 |
| abstract_inverted_index.observed | 117 |
| abstract_inverted_index.revealed | 97 |
| abstract_inverted_index.shedding | 138 |
| abstract_inverted_index.vaccines | 146 |
| abstract_inverted_index.Rotavirus | 126 |
| abstract_inverted_index.collected | 70 |
| abstract_inverted_index.colonized | 187 |
| abstract_inverted_index.community | 218 |
| abstract_inverted_index.diversity | 50, 221 |
| abstract_inverted_index.essential | 8 |
| abstract_inverted_index.generally | 40 |
| abstract_inverted_index.illnesses | 11 |
| abstract_inverted_index.including | 155 |
| abstract_inverted_index.knowledge | 17 |
| abstract_inverted_index.platform. | 93 |
| abstract_inverted_index.sequenced | 88 |
| abstract_inverted_index.shedding. | 168 |
| abstract_inverted_index.structure | 219 |
| abstract_inverted_index.Reoviridae | 121 |
| abstract_inverted_index.Therefore, | 42 |
| abstract_inverted_index.abundance. | 178 |
| abstract_inverted_index.conclusive | 213 |
| abstract_inverted_index.imperative | 209 |
| abstract_inverted_index.infants’ | 107 |
| abstract_inverted_index.infant’s | 184 |
| abstract_inverted_index.microbiota | 4 |
| abstract_inverted_index.population | 23, 100 |
| abstract_inverted_index.preventing | 10 |
| abstract_inverted_index.composition | 115 |
| abstract_inverted_index.overlooked. | 41 |
| abstract_inverted_index.participant | 206 |
| abstract_inverted_index.populations | 191 |
| abstract_inverted_index.Astroviridae | 169 |
| abstract_inverted_index.Establishing | 0 |
| abstract_inverted_index.Polioviruses | 162 |
| abstract_inverted_index.echoviruses, | 157 |
| abstract_inverted_index.investigated | 48 |
| abstract_inverted_index.irrespective | 192 |
| abstract_inverted_index.longitudinal | 46 |
| abstract_inverted_index.specifically | 124 |
| abstract_inverted_index.(noroviruses) | 173 |
| abstract_inverted_index.Caliciviridae | 172 |
| abstract_inverted_index.developmental | 34 |
| abstract_inverted_index.polioviruses. | 161 |
| abstract_inverted_index.(astroviruses) | 170 |
| abstract_inverted_index.Picornaviridae | 153 |
| abstract_inverted_index.administration | 142 |
| abstract_inverted_index.enteroviruses, | 159 |
| abstract_inverted_index.live-attenuated | 144 |
| abstract_inverted_index.parechoviruses, | 156 |
| abstract_inverted_index.vaccine-related | 167 |
| abstract_inverted_index.characterization | 198 |
| abstract_inverted_index.coxsackieviruses, | 158 |
| cited_by_percentile_year.max | 98 |
| cited_by_percentile_year.min | 95 |
| corresponding_author_ids | https://openalex.org/A5038150716 |
| countries_distinct_count | 1 |
| institutions_distinct_count | 7 |
| corresponding_institution_ids | https://openalex.org/I26999989 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/3 |
| sustainable_development_goals[0].score | 0.7099999785423279 |
| sustainable_development_goals[0].display_name | Good health and well-being |
| citation_normalized_percentile.value | 0.72870194 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |