A SNP transferability survey within the genus <it<Vitis</it<

<p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it...
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Autor*in:	Walker M Andrew [verfasserIn] This Patrice [verfasserIn] Viola Roberto [verfasserIn] Pindo Massimo [verfasserIn] Riaz Summaira [verfasserIn] Micheletti Diego [verfasserIn] Vezzulli Silvia [verfasserIn] Troggio Michela [verfasserIn] Velasco Riccardo [verfasserIn]

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2008

Übergeordnetes Werk:	In: BMC Plant Biology - BMC, 2003, 8(2008), 1, p 128
Übergeordnetes Werk:	volume:8 ; year:2008 ; number:1, p 128

Links:	Link aufrufen Link aufrufen Link aufrufen Journal toc

DOI / URN:	10.1186/1471-2229-8-128

Katalog-ID:	DOAJ035101806

Internformat


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520			\|a <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p<
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allfields	10.1186/1471-2229-8-128 doi (DE-627)DOAJ035101806 (DE-599)DOAJ7c49610987894bb2b868959fb235c70d DE-627 ger DE-627 rakwb eng QK1-989 Walker M Andrew verfasserin aut A SNP transferability survey within the genus <it<Vitis</it< 2008 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p< Botany This Patrice verfasserin aut Viola Roberto verfasserin aut Pindo Massimo verfasserin aut Riaz Summaira verfasserin aut Micheletti Diego verfasserin aut Vezzulli Silvia verfasserin aut Troggio Michela verfasserin aut Velasco Riccardo verfasserin aut In BMC Plant Biology BMC, 2003 8(2008), 1, p 128 (DE-627)335489060 (DE-600)2059868-3 14712229 nnns volume:8 year:2008 number:1, p 128 https://doi.org/10.1186/1471-2229-8-128 kostenfrei https://doaj.org/article/7c49610987894bb2b868959fb235c70d kostenfrei http://www.biomedcentral.com/1471-2229/8/128 kostenfrei https://doaj.org/toc/1471-2229 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2008 1, p 128
spelling	10.1186/1471-2229-8-128 doi (DE-627)DOAJ035101806 (DE-599)DOAJ7c49610987894bb2b868959fb235c70d DE-627 ger DE-627 rakwb eng QK1-989 Walker M Andrew verfasserin aut A SNP transferability survey within the genus <it<Vitis</it< 2008 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p< Botany This Patrice verfasserin aut Viola Roberto verfasserin aut Pindo Massimo verfasserin aut Riaz Summaira verfasserin aut Micheletti Diego verfasserin aut Vezzulli Silvia verfasserin aut Troggio Michela verfasserin aut Velasco Riccardo verfasserin aut In BMC Plant Biology BMC, 2003 8(2008), 1, p 128 (DE-627)335489060 (DE-600)2059868-3 14712229 nnns volume:8 year:2008 number:1, p 128 https://doi.org/10.1186/1471-2229-8-128 kostenfrei https://doaj.org/article/7c49610987894bb2b868959fb235c70d kostenfrei http://www.biomedcentral.com/1471-2229/8/128 kostenfrei https://doaj.org/toc/1471-2229 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2008 1, p 128
allfields_unstemmed	10.1186/1471-2229-8-128 doi (DE-627)DOAJ035101806 (DE-599)DOAJ7c49610987894bb2b868959fb235c70d DE-627 ger DE-627 rakwb eng QK1-989 Walker M Andrew verfasserin aut A SNP transferability survey within the genus <it<Vitis</it< 2008 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p< Botany This Patrice verfasserin aut Viola Roberto verfasserin aut Pindo Massimo verfasserin aut Riaz Summaira verfasserin aut Micheletti Diego verfasserin aut Vezzulli Silvia verfasserin aut Troggio Michela verfasserin aut Velasco Riccardo verfasserin aut In BMC Plant Biology BMC, 2003 8(2008), 1, p 128 (DE-627)335489060 (DE-600)2059868-3 14712229 nnns volume:8 year:2008 number:1, p 128 https://doi.org/10.1186/1471-2229-8-128 kostenfrei https://doaj.org/article/7c49610987894bb2b868959fb235c70d kostenfrei http://www.biomedcentral.com/1471-2229/8/128 kostenfrei https://doaj.org/toc/1471-2229 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2008 1, p 128
allfieldsGer	10.1186/1471-2229-8-128 doi (DE-627)DOAJ035101806 (DE-599)DOAJ7c49610987894bb2b868959fb235c70d DE-627 ger DE-627 rakwb eng QK1-989 Walker M Andrew verfasserin aut A SNP transferability survey within the genus <it<Vitis</it< 2008 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p< Botany This Patrice verfasserin aut Viola Roberto verfasserin aut Pindo Massimo verfasserin aut Riaz Summaira verfasserin aut Micheletti Diego verfasserin aut Vezzulli Silvia verfasserin aut Troggio Michela verfasserin aut Velasco Riccardo verfasserin aut In BMC Plant Biology BMC, 2003 8(2008), 1, p 128 (DE-627)335489060 (DE-600)2059868-3 14712229 nnns volume:8 year:2008 number:1, p 128 https://doi.org/10.1186/1471-2229-8-128 kostenfrei https://doaj.org/article/7c49610987894bb2b868959fb235c70d kostenfrei http://www.biomedcentral.com/1471-2229/8/128 kostenfrei https://doaj.org/toc/1471-2229 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2008 1, p 128
allfieldsSound	10.1186/1471-2229-8-128 doi (DE-627)DOAJ035101806 (DE-599)DOAJ7c49610987894bb2b868959fb235c70d DE-627 ger DE-627 rakwb eng QK1-989 Walker M Andrew verfasserin aut A SNP transferability survey within the genus <it<Vitis</it< 2008 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier <p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p< Botany This Patrice verfasserin aut Viola Roberto verfasserin aut Pindo Massimo verfasserin aut Riaz Summaira verfasserin aut Micheletti Diego verfasserin aut Vezzulli Silvia verfasserin aut Troggio Michela verfasserin aut Velasco Riccardo verfasserin aut In BMC Plant Biology BMC, 2003 8(2008), 1, p 128 (DE-627)335489060 (DE-600)2059868-3 14712229 nnns volume:8 year:2008 number:1, p 128 https://doi.org/10.1186/1471-2229-8-128 kostenfrei https://doaj.org/article/7c49610987894bb2b868959fb235c70d kostenfrei http://www.biomedcentral.com/1471-2229/8/128 kostenfrei https://doaj.org/toc/1471-2229 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ GBV_ILN_11 GBV_ILN_20 GBV_ILN_22 GBV_ILN_23 GBV_ILN_24 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_74 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_170 GBV_ILN_206 GBV_ILN_213 GBV_ILN_224 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_702 GBV_ILN_2001 GBV_ILN_2003 GBV_ILN_2005 GBV_ILN_2006 GBV_ILN_2008 GBV_ILN_2009 GBV_ILN_2010 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2015 GBV_ILN_2020 GBV_ILN_2021 GBV_ILN_2025 GBV_ILN_2031 GBV_ILN_2038 GBV_ILN_2044 GBV_ILN_2048 GBV_ILN_2050 GBV_ILN_2055 GBV_ILN_2056 GBV_ILN_2057 GBV_ILN_2061 GBV_ILN_2111 GBV_ILN_2113 GBV_ILN_2190 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4338 GBV_ILN_4367 GBV_ILN_4700 AR 8 2008 1, p 128
language	English
source	In BMC Plant Biology 8(2008), 1, p 128 volume:8 year:2008 number:1, p 128
sourceStr	In BMC Plant Biology 8(2008), 1, p 128 volume:8 year:2008 number:1, p 128
format_phy_str_mv	Article
institution	findex.gbv.de
topic_facet	Botany
isfreeaccess_bool	true
container_title	BMC Plant Biology
authorswithroles_txt_mv	Walker M Andrew @@aut@@ This Patrice @@aut@@ Viola Roberto @@aut@@ Pindo Massimo @@aut@@ Riaz Summaira @@aut@@ Micheletti Diego @@aut@@ Vezzulli Silvia @@aut@@ Troggio Michela @@aut@@ Velasco Riccardo @@aut@@
publishDateDaySort_date	2008-01-01T00:00:00Z
hierarchy_top_id	335489060
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callnumber-first	Q - Science
author	Walker M Andrew
spellingShingle	Walker M Andrew misc QK1-989 misc Botany A SNP transferability survey within the genus <it<Vitis</it<
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topic_title	QK1-989 A SNP transferability survey within the genus <it<Vitis</it<
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title	A SNP transferability survey within the genus <it<Vitis</it<
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title_full	A SNP transferability survey within the genus <it<Vitis</it<
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title_sort	snp transferability survey within the genus <it<vitis</it<
callnumber	QK1-989
title_auth	A SNP transferability survey within the genus <it<Vitis</it<
abstract	<p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p<
abstractGer	<p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p<
abstract_unstemmed	<p<Abstract</p< <p<Background</p< <p<Efforts to sequence the genomes of different organisms continue to increase. The DNA sequence is usually decoded for one individual and its application is for the whole species. The recent sequencing of the highly heterozygous <it<Vitis vinifera </it<L. cultivar Pinot Noir (clone ENTAV 115) genome gave rise to several thousand polymorphisms and offers a good model to study the transferability of its degree of polymorphism to other individuals of the same species and within the genus.</p< <p<Results</p< <p<This study was performed by genotyping 137 SNPs through the SNPlex™ Genotyping System (Applied Biosystems Inc.) and by comparing the SNPlex sequencing results across 35 (of the 137) regions from 69 grape accessions. A heterozygous state transferability of 31.5% across the unrelated cultivars of <it<V. vinifera</it<, of 18.8% across the wild forms of <it<V. vinifera</it<, of 2.3% among non-<it<vinifera Vitis </it<species, and of 0% with <it<Muscadinia rotundifolia </it<was found. In addition, mean allele frequencies were used to evaluate SNP informativeness and develop useful subsets of markers.</p< <p<Conclusion</p< <p<Using SNPlex application and corroboration from the sequencing analysis, the informativeness of SNP markers from the heterozygous grape cultivar Pinot Noir was validated in <it<V. vinifera </it<(including cultivars and wild forms), but had a limited application for non-<it<vinifera Vitis </it<species where a resequencing strategy may be preferred, knowing that homology at priming sites is sufficient. This work will allow future applications such as mapping and diversity studies, accession identification and genomic-research assisted breeding within <it<V. vinifera</it<.</p<
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title_short	A SNP transferability survey within the genus <it<Vitis</it<
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score	7.4006042

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A SNP transferability survey within the genus <it<Vitis</it<

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