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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Optimum design of family structure and allocation of resources in association mapping with lines from multiple crosses</title><author><name sortKey="Liu, W" sort="Liu, W" uniqKey="Liu W" first="W" last="Liu">W. Liu</name><affiliation><nlm:aff id="aff1"><institution>Crop Genetics and Breeding Department, China Agricultural University</institution>, Beijing,<country>China</country></nlm:aff></affiliation><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Maurer, H P" sort="Maurer, H P" uniqKey="Maurer H" first="H P" last="Maurer">H P Maurer</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Reif, J C" sort="Reif, J C" uniqKey="Reif J" first="J C" last="Reif">J C Reif</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Melchinger, A E" sort="Melchinger, A E" uniqKey="Melchinger A" first="A E" last="Melchinger">A E Melchinger</name><affiliation><nlm:aff id="aff3"><institution>Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Utz, H F" sort="Utz, H F" uniqKey="Utz H" first="H F" last="Utz">H F Utz</name><affiliation><nlm:aff id="aff3"><institution>Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Tucker, M R" sort="Tucker, M R" uniqKey="Tucker M" first="M R" last="Tucker">M R Tucker</name><affiliation><nlm:aff id="aff4"><institution>ARC Centre of Excellence for Plant Cell Walls, University of Adelaide</institution>, Urrbrae, South Australia,<country>Australia</country></nlm:aff></affiliation></author><author><name sortKey="Ranc, N" sort="Ranc, N" uniqKey="Ranc N" first="N" last="Ranc">N. Ranc</name><affiliation><nlm:aff id="aff5"><institution>Syngenta Seeds SAS, chemin de l′Hobit</institution>, Saint-Sauveur,<country>France</country></nlm:aff></affiliation></author><author><name sortKey="Della Porta, G" sort="Della Porta, G" uniqKey="Della Porta G" first="G" last="Della Porta">G. Della Porta</name><affiliation><nlm:aff id="aff6"><institution>Syngenta Seeds SpA</institution>, Casalmorano,<country>Italy</country></nlm:aff></affiliation></author><author><name sortKey="Wurschum, T" sort="Wurschum, T" uniqKey="Wurschum T" first="T" last="Würschum">T. Würschum</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">23047199</idno><idno type="pmc">3522231</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3522231</idno><idno type="RBID">PMC:3522231</idno><idno type="doi">10.1038/hdy.2012.63</idno><date when="2012">2012</date><idno type="wicri:Area/Pmc/Corpus">000057</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000057</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Optimum design of family structure and allocation of resources in association mapping with lines from multiple crosses</title><author><name sortKey="Liu, W" sort="Liu, W" uniqKey="Liu W" first="W" last="Liu">W. Liu</name><affiliation><nlm:aff id="aff1"><institution>Crop Genetics and Breeding Department, China Agricultural University</institution>, Beijing,<country>China</country></nlm:aff></affiliation><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Maurer, H P" sort="Maurer, H P" uniqKey="Maurer H" first="H P" last="Maurer">H P Maurer</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Reif, J C" sort="Reif, J C" uniqKey="Reif J" first="J C" last="Reif">J C Reif</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Melchinger, A E" sort="Melchinger, A E" uniqKey="Melchinger A" first="A E" last="Melchinger">A E Melchinger</name><affiliation><nlm:aff id="aff3"><institution>Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Utz, H F" sort="Utz, H F" uniqKey="Utz H" first="H F" last="Utz">H F Utz</name><affiliation><nlm:aff id="aff3"><institution>Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author><author><name sortKey="Tucker, M R" sort="Tucker, M R" uniqKey="Tucker M" first="M R" last="Tucker">M R Tucker</name><affiliation><nlm:aff id="aff4"><institution>ARC Centre of Excellence for Plant Cell Walls, University of Adelaide</institution>, Urrbrae, South Australia,<country>Australia</country></nlm:aff></affiliation></author><author><name sortKey="Ranc, N" sort="Ranc, N" uniqKey="Ranc N" first="N" last="Ranc">N. Ranc</name><affiliation><nlm:aff id="aff5"><institution>Syngenta Seeds SAS, chemin de l′Hobit</institution>, Saint-Sauveur,<country>France</country></nlm:aff></affiliation></author><author><name sortKey="Della Porta, G" sort="Della Porta, G" uniqKey="Della Porta G" first="G" last="Della Porta">G. Della Porta</name><affiliation><nlm:aff id="aff6"><institution>Syngenta Seeds SpA</institution>, Casalmorano,<country>Italy</country></nlm:aff></affiliation></author><author><name sortKey="Wurschum, T" sort="Wurschum, T" uniqKey="Wurschum T" first="T" last="Würschum">T. Würschum</name><affiliation><nlm:aff id="aff2"><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></nlm:aff></affiliation></author></analytic><series><title level="j">Heredity</title><idno type="ISSN">0018-067X</idno><idno type="eISSN">1365-2540</idno><imprint><date when="2012">2012</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Family mapping is based on multiple segregating families and is becoming increasingly popular because of its advantages over population mapping. Athough much progress has been made recently, the optimum design and allocation of resources for family mapping remains unclear. Here, we addressed these issues using a simulation study, resample model averaging and cross-validation approaches. Our results show that in family mapping, the predictive power and the accuracy of quatitative trait loci (QTL) detection depend greatly on the population size and phenotyping intensity. With small population sizes or few test environments, QTL results become unreliable and are hampered by a large bias in the estimation of the proportion of genotypic variance explained by the detected QTL. In addition, we observed that even though good results can be achieved with low marker densities, no plateau is reached with our full marker complement. This suggests that higher quality results could be achieved with greater marker densities or sequence data, which will be available in the near future for many species.</p></div></front></TEI><pmc article-type="research-article"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
<front><journal-meta><journal-id journal-id-type="nlm-ta">Heredity (Edinb)</journal-id><journal-id journal-id-type="iso-abbrev">Heredity (Edinb)</journal-id><journal-title-group><journal-title>Heredity</journal-title></journal-title-group><issn pub-type="ppub">0018-067X</issn><issn pub-type="epub">1365-2540</issn><publisher><publisher-name>Nature Publishing Group</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">23047199</article-id><article-id pub-id-type="pmc">3522231</article-id><article-id pub-id-type="pii">hdy201263</article-id><article-id pub-id-type="doi">10.1038/hdy.2012.63</article-id><article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject></subj-group></article-categories><title-group><article-title>Optimum design of family structure and allocation of resources in association mapping with lines from multiple crosses</article-title><alt-title alt-title-type="running">Optimum design for family mapping</alt-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Liu</surname><given-names>W</given-names></name><xref ref-type="aff" rid="aff1">1</xref><xref ref-type="aff" rid="aff2">2</xref></contrib><contrib contrib-type="author"><name><surname>Maurer</surname><given-names>H P</given-names></name><xref ref-type="aff" rid="aff2">2</xref></contrib><contrib contrib-type="author"><name><surname>Reif</surname><given-names>J C</given-names></name><xref ref-type="aff" rid="aff2">2</xref></contrib><contrib contrib-type="author"><name><surname>Melchinger</surname><given-names>A E</given-names></name><xref ref-type="aff" rid="aff3">3</xref></contrib><contrib contrib-type="author"><name><surname>Utz</surname><given-names>H F</given-names></name><xref ref-type="aff" rid="aff3">3</xref></contrib><contrib contrib-type="author"><name><surname>Tucker</surname><given-names>M R</given-names></name><xref ref-type="aff" rid="aff4">4</xref></contrib><contrib contrib-type="author"><name><surname>Ranc</surname><given-names>N</given-names></name><xref ref-type="aff" rid="aff5">5</xref></contrib><contrib contrib-type="author"><name><surname>Della Porta</surname><given-names>G</given-names></name><xref ref-type="aff" rid="aff6">6</xref></contrib><contrib contrib-type="author"><name><surname>Würschum</surname><given-names>T</given-names></name><xref ref-type="aff" rid="aff2">2</xref><xref ref-type="corresp" rid="caf1">*</xref></contrib><aff id="aff1"><label>1</label><institution>Crop Genetics and Breeding Department, China Agricultural University</institution>, Beijing,<country>China</country></aff><aff id="aff2"><label>2</label><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></aff><aff id="aff3"><label>3</label><institution>Institute of Plant Breeding, Seed Science and Population Genetics, University of Hohenheim</institution>, Stuttgart,<country>Germany</country></aff><aff id="aff4"><label>4</label><institution>ARC Centre of Excellence for Plant Cell Walls, University of Adelaide</institution>, Urrbrae, South Australia,<country>Australia</country></aff><aff id="aff5"><label>5</label><institution>Syngenta Seeds SAS, chemin de l′Hobit</institution>, Saint-Sauveur,<country>France</country></aff><aff id="aff6"><label>6</label><institution>Syngenta Seeds SpA</institution>, Casalmorano,<country>Italy</country></aff></contrib-group><author-notes><corresp id="caf1"><label>*</label><institution>State Plant Breeding Institute, University of Hohenheim</institution>, Fruwirthstrasse 21, Stuttgart 70599, <country>Germany</country>. E-mail: <email>tobias.wuerschum@uni-hohenheim.de</email></corresp></author-notes><pub-date pub-type="ppub"><month>01</month><year>2013</year></pub-date><pub-date pub-type="epub"><day>10</day><month>10</month><year>2012</year></pub-date><volume>110</volume><issue>1</issue><fpage>71</fpage><lpage>79</lpage><history><date date-type="received"><day>31</day><month>01</month><year>2012</year></date><date date-type="rev-recd"><day>26</day><month>06</month><year>2012</year></date><date date-type="accepted"><day>12</day><month>07</month><year>2012</year></date></history><permissions><copyright-statement>Copyright © 2013 The Genetics Society</copyright-statement><copyright-year>2013</copyright-year><copyright-holder>The Genetics Society</copyright-holder></permissions><abstract><p>Family mapping is based on multiple segregating families and is becoming increasingly popular because of its advantages over population mapping. Athough much progress has been made recently, the optimum design and allocation of resources for family mapping remains unclear. Here, we addressed these issues using a simulation study, resample model averaging and cross-validation approaches. Our results show that in family mapping, the predictive power and the accuracy of quatitative trait loci (QTL) detection depend greatly on the population size and phenotyping intensity. With small population sizes or few test environments, QTL results become unreliable and are hampered by a large bias in the estimation of the proportion of genotypic variance explained by the detected QTL. In addition, we observed that even though good results can be achieved with low marker densities, no plateau is reached with our full marker complement. This suggests that higher quality results could be achieved with greater marker densities or sequence data, which will be available in the near future for many species.</p></abstract></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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