CovidFranceV1, Main, Exploration, bibRecord, 001140

Development and characterization of 20 polymorphic microsatellite markers for the white-bellied pangolin Phataginus tricuspis (Mammalia, Pholidota).

Identifieur interne : 001140 ( Main/Exploration ); précédent : 001139; suivant : 001141

Development and characterization of 20 polymorphic microsatellite markers for the white-bellied pangolin Phataginus tricuspis (Mammalia, Pholidota).

Auteurs : Samantha Aguillon [France] ; Alain Din Dipita [Cameroun] ; Emilie Lecompte [France] ; Alain Didier Missoup [Cameroun] ; Maurice Tindo [Cameroun] ; Philippe Gaubert [France]

Source :

Molecular biology reports [ 1573-4978 ] ; 2020.

RBID : pubmed:32419053

Descripteurs français

KwdFr :
- Allèles (MeSH), Animaux (MeSH), Betacoronavirus (pathogénicité), Cameroun (épidémiologie), Déséquilibre de liaison (MeSH), Eutheria (génétique), Eutheria (virologie), Femelle (MeSH), Génotype (MeSH), Humains (MeSH), Infections à coronavirus (prévention et contrôle), Infections à coronavirus (transmission), Infections à coronavirus (virologie), Infections à coronavirus (épidémiologie), Locus génétiques (MeSH), Marqueurs génétiques (MeSH), Mâle (MeSH), Pandémies (prévention et contrôle), Pneumopathie virale (prévention et contrôle), Pneumopathie virale (transmission), Pneumopathie virale (virologie), Pneumopathie virale (épidémiologie), Répétitions microsatellites (MeSH), Réservoirs de maladies (virologie), Zoonoses (prévention et contrôle), Zoonoses (transmission), Zoonoses (virologie), Zoonoses (épidémiologie).
MESH :
- génétique : Eutheria.
- pathogénicité : Betacoronavirus.
- prévention et contrôle : Infections à coronavirus, Pandémies, Pneumopathie virale, Zoonoses.
- virologie : Eutheria, Infections à coronavirus, Pneumopathie virale, Réservoirs de maladies, Zoonoses.
- épidémiologie : Cameroun, Infections à coronavirus, Pneumopathie virale, Zoonoses.
- Allèles, Animaux, Déséquilibre de liaison, Femelle, Génotype, Humains, Locus génétiques, Marqueurs génétiques, Mâle, Répétitions microsatellites.
Wicri :
- geographic : Cameroun.

English descriptors

KwdEn :
- Alleles (MeSH), Animals (MeSH), Betacoronavirus (pathogenicity), Cameroon (epidemiology), Coronavirus Infections (epidemiology), Coronavirus Infections (prevention & control), Coronavirus Infections (transmission), Coronavirus Infections (virology), Disease Reservoirs (virology), Eutheria (genetics), Eutheria (virology), Female (MeSH), Genetic Loci (MeSH), Genetic Markers (MeSH), Genotype (MeSH), Humans (MeSH), Linkage Disequilibrium (MeSH), Male (MeSH), Microsatellite Repeats (MeSH), Pandemics (prevention & control), Pneumonia, Viral (epidemiology), Pneumonia, Viral (prevention & control), Pneumonia, Viral (transmission), Pneumonia, Viral (virology), Zoonoses (epidemiology), Zoonoses (prevention & control), Zoonoses (transmission), Zoonoses (virology).
MESH :
- chemical : Genetic Markers.
- geographic , epidemiology : Cameroon.
- epidemiology : Coronavirus Infections, Pneumonia, Viral, Zoonoses.
- genetics : Eutheria.
- pathogenicity : Betacoronavirus.
- prevention & control : Coronavirus Infections, Pandemics, Pneumonia, Viral, Zoonoses.
- transmission : Coronavirus Infections, Pneumonia, Viral, Zoonoses.
- virology : Coronavirus Infections, Disease Reservoirs, Eutheria, Pneumonia, Viral, Zoonoses.
- Alleles, Animals, Female, Genetic Loci, Genotype, Humans, Linkage Disequilibrium, Male, Microsatellite Repeats.

Abstract

Pangolins, or scaly anteaters, have recently been flagshiped as one of the most illegally traded mammals, and as a corollary, as potential intermediate hosts at the origin of the COVID-19 pandemic. In order to improve the traceability of their trade, we developed 20 polymorphic microsatellite loci for the white-bellied pangolin (Phataginus tricuspis), the species most frequently found on African bushmeat markets. We genotyped 24 white-bellied pangolins from the Douala market, Cameroon, originating from the Ebo forest c. 75 km north-east of Douala. The number of alleles per locus ranged from 4 to 12 (mean = 6.95), and mean observed and expected heterozygosities were 0.592 (0.208-0.875) and 0.671 (0.469-0.836), respectively. Genetic diversity was higher than that cross-estimated from microsatellite loci developed for other species of pangolins. Two loci deviated from Hardy-Weinberg equilibrium and two loci showed linkage disequilibrium. Genetic variance (PCoA) was increased with the addition of 13 pangolins of unknown origin, possibly suggesting that the Douala market is fed from differentiated source populations of white-bellied pangolins. Each of the 37 individuals had a unique multilocus genotype. The unbiased probability of identity (uPI) and the probability of identity among siblings (PIsibs) were both very low (uPI = 8.443 e-21; PIsibs = 1.011 e-07). Only five microsatellite loci were needed to reach the conservative value of PIsibs < 0.01, overall indicating a powerful discriminating power of our combined loci. These 20 newly developed microsatellite loci might prove useful in tracing the local-to-global trade of the white-bellied pangolin, and will hopefully contribute to the DNA-assisted implementation of future conservation strategies at reasonable costs.

DOI: 10.1007/s11033-020-05511-6
PubMed: 32419053
PubMed Central: PMC7230135

Affiliations:

Links toward previous steps (curation, corpus...)

to stream Main, to step Corpus: 001245
to stream Main, to step Curation: 001245

Le document en format XML

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<profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Alleles (MeSH)</term>
<term>Animals (MeSH)</term>
<term>Betacoronavirus (pathogenicity)</term>
<term>Cameroon (epidemiology)</term>
<term>Coronavirus Infections (epidemiology)</term>
<term>Coronavirus Infections (prevention & control)</term>
<term>Coronavirus Infections (transmission)</term>
<term>Coronavirus Infections (virology)</term>
<term>Disease Reservoirs (virology)</term>
<term>Eutheria (genetics)</term>
<term>Eutheria (virology)</term>
<term>Female (MeSH)</term>
<term>Genetic Loci (MeSH)</term>
<term>Genetic Markers (MeSH)</term>
<term>Genotype (MeSH)</term>
<term>Humans (MeSH)</term>
<term>Linkage Disequilibrium (MeSH)</term>
<term>Male (MeSH)</term>
<term>Microsatellite Repeats (MeSH)</term>
<term>Pandemics (prevention & control)</term>
<term>Pneumonia, Viral (epidemiology)</term>
<term>Pneumonia, Viral (prevention & control)</term>
<term>Pneumonia, Viral (transmission)</term>
<term>Pneumonia, Viral (virology)</term>
<term>Zoonoses (epidemiology)</term>
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<term>Zoonoses (transmission)</term>
<term>Zoonoses (virology)</term>
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<keywords scheme="KwdFr" xml:lang="fr"><term>Allèles (MeSH)</term>
<term>Animaux (MeSH)</term>
<term>Betacoronavirus (pathogénicité)</term>
<term>Cameroun (épidémiologie)</term>
<term>Déséquilibre de liaison (MeSH)</term>
<term>Eutheria (génétique)</term>
<term>Eutheria (virologie)</term>
<term>Femelle (MeSH)</term>
<term>Génotype (MeSH)</term>
<term>Humains (MeSH)</term>
<term>Infections à coronavirus (prévention et contrôle)</term>
<term>Infections à coronavirus (transmission)</term>
<term>Infections à coronavirus (virologie)</term>
<term>Infections à coronavirus (épidémiologie)</term>
<term>Locus génétiques (MeSH)</term>
<term>Marqueurs génétiques (MeSH)</term>
<term>Mâle (MeSH)</term>
<term>Pandémies (prévention et contrôle)</term>
<term>Pneumopathie virale (prévention et contrôle)</term>
<term>Pneumopathie virale (transmission)</term>
<term>Pneumopathie virale (virologie)</term>
<term>Pneumopathie virale (épidémiologie)</term>
<term>Répétitions microsatellites (MeSH)</term>
<term>Réservoirs de maladies (virologie)</term>
<term>Zoonoses (prévention et contrôle)</term>
<term>Zoonoses (transmission)</term>
<term>Zoonoses (virologie)</term>
<term>Zoonoses (épidémiologie)</term>
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<keywords scheme="MESH" type="chemical" xml:lang="en"><term>Genetic Markers</term>
</keywords>
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</keywords>
<keywords scheme="MESH" qualifier="epidemiology" xml:lang="en"><term>Coronavirus Infections</term>
<term>Pneumonia, Viral</term>
<term>Zoonoses</term>
</keywords>
<keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Eutheria</term>
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<term>Zoonoses</term>
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<term>Pandémies</term>
<term>Pneumopathie virale</term>
<term>Zoonoses</term>
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<keywords scheme="MESH" qualifier="transmission" xml:lang="en"><term>Coronavirus Infections</term>
<term>Pneumonia, Viral</term>
<term>Zoonoses</term>
</keywords>
<keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Eutheria</term>
<term>Infections à coronavirus</term>
<term>Pneumopathie virale</term>
<term>Réservoirs de maladies</term>
<term>Zoonoses</term>
</keywords>
<keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Coronavirus Infections</term>
<term>Disease Reservoirs</term>
<term>Eutheria</term>
<term>Pneumonia, Viral</term>
<term>Zoonoses</term>
</keywords>
<keywords scheme="MESH" qualifier="épidémiologie" xml:lang="fr"><term>Cameroun</term>
<term>Infections à coronavirus</term>
<term>Pneumopathie virale</term>
<term>Zoonoses</term>
</keywords>
<keywords scheme="MESH" xml:lang="en"><term>Alleles</term>
<term>Animals</term>
<term>Female</term>
<term>Genetic Loci</term>
<term>Genotype</term>
<term>Humans</term>
<term>Linkage Disequilibrium</term>
<term>Male</term>
<term>Microsatellite Repeats</term>
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<keywords scheme="MESH" xml:lang="fr"><term>Allèles</term>
<term>Animaux</term>
<term>Déséquilibre de liaison</term>
<term>Femelle</term>
<term>Génotype</term>
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<term>Mâle</term>
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<front><div type="abstract" xml:lang="en">Pangolins, or scaly anteaters, have recently been flagshiped as one of the most illegally traded mammals, and as a corollary, as potential intermediate hosts at the origin of the COVID-19 pandemic. In order to improve the traceability of their trade, we developed 20 polymorphic microsatellite loci for the white-bellied pangolin (Phataginus tricuspis), the species most frequently found on African bushmeat markets. We genotyped 24 white-bellied pangolins from the Douala market, Cameroon, originating from the Ebo forest c. 75 km north-east of Douala. The number of alleles per locus ranged from 4 to 12 (mean = 6.95), and mean observed and expected heterozygosities were 0.592 (0.208-0.875) and 0.671 (0.469-0.836), respectively. Genetic diversity was higher than that cross-estimated from microsatellite loci developed for other species of pangolins. Two loci deviated from Hardy-Weinberg equilibrium and two loci showed linkage disequilibrium. Genetic variance (PCoA) was increased with the addition of 13 pangolins of unknown origin, possibly suggesting that the Douala market is fed from differentiated source populations of white-bellied pangolins. Each of the 37 individuals had a unique multilocus genotype. The unbiased probability of identity (uPI) and the probability of identity among siblings (PIsibs) were both very low (uPI = 8.443 e-21; PIsibs = 1.011 e-07). Only five microsatellite loci were needed to reach the conservative value of PIsibs < 0.01, overall indicating a powerful discriminating power of our combined loci. These 20 newly developed microsatellite loci might prove useful in tracing the local-to-global trade of the white-bellied pangolin, and will hopefully contribute to the DNA-assisted implementation of future conservation strategies at reasonable costs.</div>
</front>
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<ELocationID EIdType="doi" ValidYN="Y">10.1007/s11033-020-05511-6</ELocationID>
<Abstract><AbstractText>Pangolins, or scaly anteaters, have recently been flagshiped as one of the most illegally traded mammals, and as a corollary, as potential intermediate hosts at the origin of the COVID-19 pandemic. In order to improve the traceability of their trade, we developed 20 polymorphic microsatellite loci for the white-bellied pangolin (Phataginus tricuspis), the species most frequently found on African bushmeat markets. We genotyped 24 white-bellied pangolins from the Douala market, Cameroon, originating from the Ebo forest c. 75 km north-east of Douala. The number of alleles per locus ranged from 4 to 12 (mean = 6.95), and mean observed and expected heterozygosities were 0.592 (0.208-0.875) and 0.671 (0.469-0.836), respectively. Genetic diversity was higher than that cross-estimated from microsatellite loci developed for other species of pangolins. Two loci deviated from Hardy-Weinberg equilibrium and two loci showed linkage disequilibrium. Genetic variance (PCoA) was increased with the addition of 13 pangolins of unknown origin, possibly suggesting that the Douala market is fed from differentiated source populations of white-bellied pangolins. Each of the 37 individuals had a unique multilocus genotype. The unbiased probability of identity (uPI) and the probability of identity among siblings (PIsibs) were both very low (uPI = 8.443 e-21; PIsibs = 1.011 e-07). Only five microsatellite loci were needed to reach the conservative value of PIsibs < 0.01, overall indicating a powerful discriminating power of our combined loci. These 20 newly developed microsatellite loci might prove useful in tracing the local-to-global trade of the white-bellied pangolin, and will hopefully contribute to the DNA-assisted implementation of future conservation strategies at reasonable costs.</AbstractText>
</Abstract>
<AuthorList CompleteYN="Y"><Author ValidYN="Y"><LastName>Aguillon</LastName>
<ForeName>Samantha</ForeName>
<Initials>S</Initials>
<AffiliationInfo><Affiliation>Laboratoire Evolution et Diversité Biologique (EDB), CNRS/UPS/IRD, Université Toulouse III Paul Sabatier - Bâtiment 4R1, 118 route de Narbonne, 31062, Toulouse Cedex 9, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Din Dipita</LastName>
<ForeName>Alain</ForeName>
<Initials>A</Initials>
<AffiliationInfo><Affiliation>Unité de Zoologie, Laboratoire de Biologie et Physiologie des Organismes Animaux, Faculté des Sciences, Université de Douala, BP 24157, Douala, Cameroon.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Lecompte</LastName>
<ForeName>Emilie</ForeName>
<Initials>E</Initials>
<AffiliationInfo><Affiliation>Laboratoire Evolution et Diversité Biologique (EDB), CNRS/UPS/IRD, Université Toulouse III Paul Sabatier - Bâtiment 4R1, 118 route de Narbonne, 31062, Toulouse Cedex 9, France.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Missoup</LastName>
<ForeName>Alain Didier</ForeName>
<Initials>AD</Initials>
<AffiliationInfo><Affiliation>Unité de Zoologie, Laboratoire de Biologie et Physiologie des Organismes Animaux, Faculté des Sciences, Université de Douala, BP 24157, Douala, Cameroon.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Tindo</LastName>
<ForeName>Maurice</ForeName>
<Initials>M</Initials>
<AffiliationInfo><Affiliation>Unité de Zoologie, Laboratoire de Biologie et Physiologie des Organismes Animaux, Faculté des Sciences, Université de Douala, BP 24157, Douala, Cameroon.</Affiliation>
</AffiliationInfo>
</Author>
<Author ValidYN="Y"><LastName>Gaubert</LastName>
<ForeName>Philippe</ForeName>
<Initials>P</Initials>
<Identifier Source="ORCID">http://orcid.org/0000-0002-1375-9935</Identifier>
<AffiliationInfo><Affiliation>Laboratoire Evolution et Diversité Biologique (EDB), CNRS/UPS/IRD, Université Toulouse III Paul Sabatier - Bâtiment 4R1, 118 route de Narbonne, 31062, Toulouse Cedex 9, France. philippe.gaubert@univ-tlse3.fr.</Affiliation>
</AffiliationInfo>
</Author>
</AuthorList>
<Language>eng</Language>
<GrantList CompleteYN="Y"><Grant><GrantID>ANR-17-CE02-0001</GrantID>
<Agency>Agence Nationale de la Recherche (ANR)</Agency>
<Country></Country>
</Grant>
<Grant><GrantID>939537G</GrantID>
<Agency>Service de Coopération et d'Action Culturelle (SCAC) de l'Ambassade de France au Cameroun</Agency>
<Country></Country>
</Grant>
</GrantList>
<PublicationTypeList><PublicationType UI="D016428">Journal Article</PublicationType>
</PublicationTypeList>
<ArticleDate DateType="Electronic"><Year>2020</Year>
<Month>05</Month>
<Day>17</Day>
</ArticleDate>
</Article>
<MedlineJournalInfo><Country>Netherlands</Country>
<MedlineTA>Mol Biol Rep</MedlineTA>
<NlmUniqueID>0403234</NlmUniqueID>
<ISSNLinking>0301-4851</ISSNLinking>
</MedlineJournalInfo>
<ChemicalList><Chemical><RegistryNumber>0</RegistryNumber>
<NameOfSubstance UI="D005819">Genetic Markers</NameOfSubstance>
</Chemical>
</ChemicalList>
<SupplMeshList><SupplMeshName Type="Disease" UI="C000657245">COVID-19</SupplMeshName>
<SupplMeshName Type="Organism" UI="C000656484">severe acute respiratory syndrome coronavirus 2</SupplMeshName>
</SupplMeshList>
<CitationSubset>IM</CitationSubset>
<MeshHeadingList><MeshHeading><DescriptorName UI="D000483" MajorTopicYN="N">Alleles</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D000818" MajorTopicYN="N">Animals</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D000073640" MajorTopicYN="N">Betacoronavirus</DescriptorName>
<QualifierName UI="Q000472" MajorTopicYN="Y">pathogenicity</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D002163" MajorTopicYN="N" Type="Geographic">Cameroon</DescriptorName>
<QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018352" MajorTopicYN="N">Coronavirus Infections</DescriptorName>
<QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName>
<QualifierName UI="Q000517" MajorTopicYN="N">prevention & control</QualifierName>
<QualifierName UI="Q000635" MajorTopicYN="Y">transmission</QualifierName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D004197" MajorTopicYN="N">Disease Reservoirs</DescriptorName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D000073566" MajorTopicYN="N">Eutheria</DescriptorName>
<QualifierName UI="Q000235" MajorTopicYN="Y">genetics</QualifierName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D005260" MajorTopicYN="N">Female</DescriptorName>
</MeshHeading>
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</MeshHeading>
<MeshHeading><DescriptorName UI="D005819" MajorTopicYN="N">Genetic Markers</DescriptorName>
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<MeshHeading><DescriptorName UI="D005838" MajorTopicYN="N">Genotype</DescriptorName>
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<MeshHeading><DescriptorName UI="D006801" MajorTopicYN="N">Humans</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015810" MajorTopicYN="N">Linkage Disequilibrium</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D008297" MajorTopicYN="N">Male</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D018895" MajorTopicYN="Y">Microsatellite Repeats</DescriptorName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D058873" MajorTopicYN="Y">Pandemics</DescriptorName>
<QualifierName UI="Q000517" MajorTopicYN="N">prevention & control</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D011024" MajorTopicYN="N">Pneumonia, Viral</DescriptorName>
<QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName>
<QualifierName UI="Q000517" MajorTopicYN="N">prevention & control</QualifierName>
<QualifierName UI="Q000635" MajorTopicYN="Y">transmission</QualifierName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
</MeshHeading>
<MeshHeading><DescriptorName UI="D015047" MajorTopicYN="N">Zoonoses</DescriptorName>
<QualifierName UI="Q000453" MajorTopicYN="N">epidemiology</QualifierName>
<QualifierName UI="Q000517" MajorTopicYN="N">prevention & control</QualifierName>
<QualifierName UI="Q000635" MajorTopicYN="Y">transmission</QualifierName>
<QualifierName UI="Q000821" MajorTopicYN="N">virology</QualifierName>
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</MeshHeadingList>
<KeywordList Owner="NOTNLM"><Keyword MajorTopicYN="N">Bushmeat</Keyword>
<Keyword MajorTopicYN="N">Cameroon</Keyword>
<Keyword MajorTopicYN="N">Illegal wildlife trade</Keyword>
<Keyword MajorTopicYN="N">Microsatellite loci</Keyword>
<Keyword MajorTopicYN="N">Pangolins</Keyword>
<Keyword MajorTopicYN="N">Phataginus tricuspis</Keyword>
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<Month>02</Month>
<Day>28</Day>
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<Month>05</Month>
<Day>08</Day>
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<affiliations><list><country><li>Cameroun</li>
<li>France</li>
</country>
<region><li>Midi-Pyrénées</li>
<li>Occitanie (région administrative)</li>
</region>
<settlement><li>Toulouse</li>
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<tree><country name="France"><region name="Occitanie (région administrative)"><name sortKey="Aguillon, Samantha" sort="Aguillon, Samantha" uniqKey="Aguillon S" first="Samantha" last="Aguillon">Samantha Aguillon</name>
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Development and characterization of 20 polymorphic microsatellite markers for the white-bellied pangolin Phataginus tricuspis (Mammalia, Pholidota).

Development and characterization of 20 polymorphic microsatellite markers for the white-bellied pangolin Phataginus tricuspis (Mammalia, Pholidota).

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