Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data
Identifieur interne : 00D123 ( Main/Exploration ); précédent : 00D122; suivant : 00D124Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data
Auteurs : J. M. Cornuet ; G. LuikartSource :
- Genetics [ 0016-6731 ] ; 1996.
Abstract
When a population experiences a reduction of its effective size, it generally develops a heterozygosity excess at selectively neutral loci, i.e., the heterozygosity computed from a sample of genes is larger than the heterozygosity expected from the number of alleles found in the sample if the population were at mutation drift equilibrium. The heterozygosity excess persists only a certain number of generations until a new equilibrium is established. Two statistical tests for detecting a heterozygosity excess are described. They require measurements of the number of alleles and heterozygosity at each of several loci from a population sample. The first test determines if the proportion of loci with heterozygosity excess is significantly larger than expected at equilibrium. The second test establishes if the average of standardized differences between observed and expected heterozygosities is significantly different from zero. Type I and II errors have been evaluated by computer simulations, varying sample size, number of loci, bottleneck size, time elapsed since the beginning of the bottleneck and level of variability of loci. These analyses show that the most useful markers for bottleneck detection are those evolving under the infinite allele model (IAM) and they provide guidelines for selecting sample sizes of individuals and loci. The usefulness of these tests for conservation biology is discussed.
Url:
PubMed: 8978083
PubMed Central: 1207747
Affiliations:
Links toward previous steps (curation, corpus...)
- to stream Pmc, to step Corpus: 000F81
- to stream Pmc, to step Curation: 000E42
- to stream Pmc, to step Checkpoint: 002D90
- to stream Ncbi, to step Merge: 005243
- to stream Ncbi, to step Curation: 005243
- to stream Ncbi, to step Checkpoint: 005243
- to stream Main, to step Merge: 00E285
- to stream Main, to step Curation: 00D123
Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data</title><author><name sortKey="Cornuet, J M" sort="Cornuet, J M" uniqKey="Cornuet J" first="J. M." last="Cornuet">J. M. Cornuet</name></author><author><name sortKey="Luikart, G" sort="Luikart, G" uniqKey="Luikart G" first="G." last="Luikart">G. Luikart</name></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">8978083</idno><idno type="pmc">1207747</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1207747</idno><idno type="RBID">PMC:1207747</idno><date when="1996">1996</date><idno type="wicri:Area/Pmc/Corpus">000F81</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000F81</idno><idno type="wicri:Area/Pmc/Curation">000E42</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000E42</idno><idno type="wicri:Area/Pmc/Checkpoint">002D90</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">002D90</idno><idno type="wicri:Area/Ncbi/Merge">005243</idno><idno type="wicri:Area/Ncbi/Curation">005243</idno><idno type="wicri:Area/Ncbi/Checkpoint">005243</idno><idno type="wicri:doubleKey">0016-6731:1996:Cornuet J:description:and:power</idno><idno type="wicri:Area/Main/Merge">00E285</idno><idno type="wicri:Area/Main/Curation">00D123</idno><idno type="wicri:Area/Main/Exploration">00D123</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data</title><author><name sortKey="Cornuet, J M" sort="Cornuet, J M" uniqKey="Cornuet J" first="J. M." last="Cornuet">J. M. Cornuet</name></author><author><name sortKey="Luikart, G" sort="Luikart, G" uniqKey="Luikart G" first="G." last="Luikart">G. Luikart</name></author></analytic><series><title level="j">Genetics</title><idno type="ISSN">0016-6731</idno><imprint><date when="1996">1996</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>When a population experiences a reduction of its effective size, it generally develops a heterozygosity excess at selectively neutral loci, i.e., the heterozygosity computed from a sample of genes is larger than the heterozygosity expected from the number of alleles found in the sample if the population were at mutation drift equilibrium. The heterozygosity excess persists only a certain number of generations until a new equilibrium is established. Two statistical tests for detecting a heterozygosity excess are described. They require measurements of the number of alleles and heterozygosity at each of several loci from a population sample. The first test determines if the proportion of loci with heterozygosity excess is significantly larger than expected at equilibrium. The second test establishes if the average of standardized differences between observed and expected heterozygosities is significantly different from zero. Type I and II errors have been evaluated by computer simulations, varying sample size, number of loci, bottleneck size, time elapsed since the beginning of the bottleneck and level of variability of loci. These analyses show that the most useful markers for bottleneck detection are those evolving under the infinite allele model (IAM) and they provide guidelines for selecting sample sizes of individuals and loci. The usefulness of these tests for conservation biology is discussed.</p></div></front></TEI><affiliations><list></list><tree><noCountry><name sortKey="Cornuet, J M" sort="Cornuet, J M" uniqKey="Cornuet J" first="J. M." last="Cornuet">J. M. Cornuet</name><name sortKey="Luikart, G" sort="Luikart, G" uniqKey="Luikart G" first="G." last="Luikart">G. Luikart</name></noCountry></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Wicri/Asie/explor/AustralieFrV1/Data/Main/Exploration
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 00D123 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd -nk 00D123 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Wicri/Asie
|area= AustralieFrV1
|flux= Main
|étape= Exploration
|type= RBID
|clé= PMC:1207747
|texte= Description and Power Analysis of Two Tests for Detecting Recent Population Bottlenecks from Allele Frequency Data
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Exploration/RBID.i -Sk "pubmed:8978083" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Exploration/biblio.hfd \
| NlmPubMed2Wicri -a AustralieFrV1
| This area was generated with Dilib version V0.6.33. |  |