Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps
Descripción del Articulo
Proyecto FEMCIDI-OEA SEDI/AE-305 /09 (2008-2012), Proyecto Bilateral Argentina, Per; FINCyT (099-FINCyT-EQUIP-2009) / (076-FINCyT-PIN-2008), Prestamo BID no. 1663/OC-PE, Instituto Nacional de Innovacion Agraria, Ministry of Agriculture of Peru, Peruvian Ministry of Agriculture, Technical Secretariat...
| Autores: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
|---|---|
| Formato: | artículo |
| Fecha de Publicación: | 2013 |
| Institución: | Consejo Nacional de Ciencia Tecnología e Innovación |
| Repositorio: | CONCYTEC-Institucional |
| Lenguaje: | inglés |
| OAI Identifier: | oai:repositorio.concytec.gob.pe:20.500.12390/1241 |
| Enlace del recurso: | https://hdl.handle.net/20.500.12390/1241 https://doi.org/10.1534/g3.113.007153 |
| Nivel de acceso: | acceso abierto |
| Materia: | Pseudomolecules potato Genetic map Anchoring scaffold |
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| dc.title.none.fl_str_mv |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| title |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| spellingShingle |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps Sharma, SK Pseudomolecules potato Genetic map Anchoring scaffold |
| title_short |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| title_full |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| title_fullStr |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| title_full_unstemmed |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| title_sort |
Construction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Maps |
| author |
Sharma, SK |
| author_facet |
Sharma, SK Bolser, D de Boer, J Sonderkaer, M Amoros, W Carboni, MF D'Ambrosio, JM de la Cruz, G Di Genova, A Douches, DS Eguiluz, M Guo, X Guzman, F Hackett, CA Hamilton, JP Li, GC Li, Y Lozano, R Maass, A Marshall, D Martinez, D McLean, K Mejia, N Milne, L Munive, S Nagy, I Ponce, O Ramirez, M Simon, R Thomson, SJ Torres, Y Waugh, R Zhang, ZH Huang, SW Visser, RGF Bachem, CWB Sagredo, B Feingold, SE Orjeda, G Veilleux, RE Bonierbale, M Jacobs, JME Milbourne, D Martin, DMA Bryan, GJ |
| author_role |
author |
| author2 |
Bolser, D de Boer, J Sonderkaer, M Amoros, W Carboni, MF D'Ambrosio, JM de la Cruz, G Di Genova, A Douches, DS Eguiluz, M Guo, X Guzman, F Hackett, CA Hamilton, JP Li, GC Li, Y Lozano, R Maass, A Marshall, D Martinez, D McLean, K Mejia, N Milne, L Munive, S Nagy, I Ponce, O Ramirez, M Simon, R Thomson, SJ Torres, Y Waugh, R Zhang, ZH Huang, SW Visser, RGF Bachem, CWB Sagredo, B Feingold, SE Orjeda, G Veilleux, RE Bonierbale, M Jacobs, JME Milbourne, D Martin, DMA Bryan, GJ |
| author2_role |
author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author author |
| dc.contributor.author.fl_str_mv |
Sharma, SK Bolser, D de Boer, J Sonderkaer, M Amoros, W Carboni, MF D'Ambrosio, JM de la Cruz, G Di Genova, A Douches, DS Eguiluz, M Guo, X Guzman, F Hackett, CA Hamilton, JP Li, GC Li, Y Lozano, R Maass, A Marshall, D Martinez, D McLean, K Mejia, N Milne, L Munive, S Nagy, I Ponce, O Ramirez, M Simon, R Thomson, SJ Torres, Y Waugh, R Zhang, ZH Huang, SW Visser, RGF Bachem, CWB Sagredo, B Feingold, SE Orjeda, G Veilleux, RE Bonierbale, M Jacobs, JME Milbourne, D Martin, DMA Bryan, GJ |
| dc.subject.en.fl_str_mv |
Pseudomolecules potato Genetic map Anchoring scaffold |
| topic |
Pseudomolecules potato Genetic map Anchoring scaffold |
| description |
Proyecto FEMCIDI-OEA SEDI/AE-305 /09 (2008-2012), Proyecto Bilateral Argentina, Per; FINCyT (099-FINCyT-EQUIP-2009) / (076-FINCyT-PIN-2008), Prestamo BID no. 1663/OC-PE, Instituto Nacional de Innovacion Agraria, Ministry of Agriculture of Peru, Peruvian Ministry of Agriculture, Technical Secretariat of coordination with the CGIAR, Consejo Nacional de Ciencia, Tecnologia e Innovacion Tecnologica, Peru (CONCYTEC), Special Multilateral Fund of the Inter-American Council for Integral Development (FEMCIDI-Peru). |
| publishDate |
2013 |
| dc.date.accessioned.none.fl_str_mv |
2024-05-30T23:13:38Z |
| dc.date.available.none.fl_str_mv |
2024-05-30T23:13:38Z |
| dc.date.issued.fl_str_mv |
2013 |
| dc.type.none.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| dc.identifier.uri.none.fl_str_mv |
https://hdl.handle.net/20.500.12390/1241 |
| dc.identifier.doi.none.fl_str_mv |
https://doi.org/10.1534/g3.113.007153 |
| dc.identifier.isi.none.fl_str_mv |
327241900011 |
| url |
https://hdl.handle.net/20.500.12390/1241 https://doi.org/10.1534/g3.113.007153 |
| identifier_str_mv |
327241900011 |
| dc.language.iso.none.fl_str_mv |
eng |
| language |
eng |
| dc.relation.ispartof.none.fl_str_mv |
G3-Genes Genomes Genetics |
| dc.rights.none.fl_str_mv |
info:eu-repo/semantics/openAccess |
| eu_rights_str_mv |
openAccess |
| dc.publisher.en.fl_str_mv |
Genetics Society of America |
| dc.source.none.fl_str_mv |
reponame:CONCYTEC-Institucional instname:Consejo Nacional de Ciencia Tecnología e Innovación instacron:CONCYTEC |
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Consejo Nacional de Ciencia Tecnología e Innovación |
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CONCYTEC |
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CONCYTEC |
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CONCYTEC-Institucional |
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CONCYTEC-Institucional |
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Repositorio Institucional CONCYTEC |
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repositorio@concytec.gob.pe |
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Publicationrp01649500rp01576500rp01789400rp01612500rp03575600rp03579600rp03580600rp01611500rp01602500rp03586600rp03582600rp03583600rp01620500rp03584600rp03577600rp03585600rp01583500rp00555500rp03587600rp01627500rp01648500rp03581600rp01618500rp03573600rp02670500rp01608500rp01644500rp00795400rp03572600rp01587500rp03578600rp01596500rp03574600rp03576600rp01622500rp01656500rp01653500rp01652500rp01572500rp01637500rp01586500rp01588500rp01634500rp01573500rp01578500Sharma, SKBolser, Dde Boer, JSonderkaer, MAmoros, WCarboni, MFD'Ambrosio, JMde la Cruz, GDi Genova, ADouches, DSEguiluz, MGuo, XGuzman, FHackett, CAHamilton, JPLi, GCLi, YLozano, RMaass, AMarshall, DMartinez, DMcLean, KMejia, NMilne, LMunive, SNagy, IPonce, ORamirez, MSimon, RThomson, SJTorres, YWaugh, RZhang, ZHHuang, SWVisser, RGFBachem, CWBSagredo, BFeingold, SEOrjeda, GVeilleux, REBonierbale, MJacobs, JMEMilbourne, DMartin, DMABryan, GJ2024-05-30T23:13:38Z2024-05-30T23:13:38Z2013https://hdl.handle.net/20.500.12390/1241https://doi.org/10.1534/g3.113.007153327241900011Proyecto FEMCIDI-OEA SEDI/AE-305 /09 (2008-2012), Proyecto Bilateral Argentina, Per; FINCyT (099-FINCyT-EQUIP-2009) / (076-FINCyT-PIN-2008), Prestamo BID no. 1663/OC-PE, Instituto Nacional de Innovacion Agraria, Ministry of Agriculture of Peru, Peruvian Ministry of Agriculture, Technical Secretariat of coordination with the CGIAR, Consejo Nacional de Ciencia, Tecnologia e Innovacion Tecnologica, Peru (CONCYTEC), Special Multilateral Fund of the Inter-American Council for Integral Development (FEMCIDI-Peru).The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker2based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal “pseudomolecules”.Consejo Nacional de Ciencia, Tecnología e Innovación Tecnológica - ConcytecengGenetics Society of AmericaG3-Genes Genomes Geneticsinfo:eu-repo/semantics/openAccessPseudomolecules potatoGenetic mapAnchoring scaffoldConstruction of Reference Chromosome-Scale Pseudomolecules for Potato: Integrating the Potato Genome with Genetic and Physical Mapsinfo:eu-repo/semantics/articlereponame:CONCYTEC-Institucionalinstname:Consejo Nacional de Ciencia Tecnología e Innovacióninstacron:CONCYTEC#PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE##PLACEHOLDER_PARENT_METADATA_VALUE#20.500.12390/1241oai:repositorio.concytec.gob.pe:20.500.12390/12412025-09-23 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SW</DisplayName> <Person id="rp03576" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Visser, RGF</DisplayName> <Person id="rp01622" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Bachem, CWB</DisplayName> <Person id="rp01656" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Sagredo, B</DisplayName> <Person id="rp01653" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Feingold, SE</DisplayName> <Person id="rp01652" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Orjeda, G</DisplayName> <Person id="rp01572" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Veilleux, RE</DisplayName> <Person id="rp01637" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Bonierbale, M</DisplayName> <Person id="rp01586" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Jacobs, JME</DisplayName> <Person id="rp01588" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Milbourne, D</DisplayName> <Person id="rp01634" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Martin, DMA</DisplayName> <Person id="rp01573" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> <Author> <DisplayName>Bryan, GJ</DisplayName> <Person id="rp01578" /> <Affiliation> <OrgUnit> </OrgUnit> </Affiliation> </Author> </Authors> <Editors> </Editors> <Publishers> <Publisher> <DisplayName>Genetics Society of America</DisplayName> <OrgUnit /> </Publisher> </Publishers> <Keyword>Pseudomolecules potato</Keyword> <Keyword>Genetic map</Keyword> <Keyword>Anchoring scaffold</Keyword> <Abstract>The genome of potato, a major global food crop, was recently sequenced. The work presented here details the integration of the potato reference genome (DM) with a new sequence-tagged site marker2based linkage map and other physical and genetic maps of potato and the closely related species tomato. Primary anchoring of the DM genome assembly was accomplished by the use of a diploid segregating population, which was genotyped with several types of molecular genetic markers to construct a new ~936 cM linkage map comprising 2469 marker loci. In silico anchoring approaches used genetic and physical maps from the diploid potato genotype RH89-039-16 (RH) and tomato. This combined approach has allowed 951 superscaffolds to be ordered into pseudomolecules corresponding to the 12 potato chromosomes. These pseudomolecules represent 674 Mb (~93%) of the 723 Mb genome assembly and 37,482 (~96%) of the 39,031 predicted genes. The superscaffold order and orientation within the pseudomolecules are closely collinear with independently constructed high density linkage maps. Comparisons between marker distribution and physical location reveal regions of greater and lesser recombination, as well as regions exhibiting significant segregation distortion. The work presented here has led to a greatly improved ordering of the potato reference genome superscaffolds into chromosomal “pseudomolecules”.</Abstract> <Access xmlns="http://purl.org/coar/access_right" > </Access> </Publication> -1 |
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Nota importante:
La información contenida en este registro es de entera responsabilidad de la institución que gestiona el repositorio institucional donde esta contenido este documento o set de datos. El CONCYTEC no se hace responsable por los contenidos (publicaciones y/o datos) accesibles a través del Repositorio Nacional Digital de Ciencia, Tecnología e Innovación de Acceso Abierto (ALICIA).
La información contenida en este registro es de entera responsabilidad de la institución que gestiona el repositorio institucional donde esta contenido este documento o set de datos. El CONCYTEC no se hace responsable por los contenidos (publicaciones y/o datos) accesibles a través del Repositorio Nacional Digital de Ciencia, Tecnología e Innovación de Acceso Abierto (ALICIA).
