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http://hdl.handle.net/10261/279769
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dc.contributor.author | Cappa, Eduardo P. | es_ES |
dc.contributor.author | Chen, Charles | es_ES |
dc.contributor.author | Klutsch, Jennifer | es_ES |
dc.contributor.author | Sebastián Azcona, Jaime | es_ES |
dc.contributor.author | Ratcliffe, Blaise | es_ES |
dc.contributor.author | Wei, Xiaojing | es_ES |
dc.contributor.author | Da Ros, Letitia | es_ES |
dc.contributor.author | Ullah, Aziz | es_ES |
dc.contributor.author | Liu, Yang | es_ES |
dc.contributor.author | Benowicz, Andy | es_ES |
dc.contributor.author | Sadoway, Shane | es_ES |
dc.contributor.author | Mansfield, S.D. | es_ES |
dc.contributor.author | Erbilgin, Nadir | es_ES |
dc.contributor.author | Thomas, Barb R. | es_ES |
dc.contributor.author | El-Kassaby, Yousry A. | es_ES |
dc.date.accessioned | 2022-09-23T11:32:26Z | - |
dc.date.available | 2022-09-23T11:32:26Z | - |
dc.date.issued | 2022-07-23 | - |
dc.identifier.citation | BMC Genomics 23: 536 (2022) | es_ES |
dc.identifier.issn | 1471-2164 | - |
dc.identifier.uri | http://hdl.handle.net/10261/279769 | - |
dc.description | 20 páginas.- 7 figuras.- 2 tablas.- 93 referencias.- The online version contains supplementary material available at https://doi.org/10.1186/s12864-022-08747-7 | es_ES |
dc.description.abstract | Background Genomic prediction (GP) and genome-wide association (GWA) analyses are currently being employed to accelerate breeding cycles and to identify alleles or genomic regions of complex traits in forest trees species. Here, 1490 interior lodgepole pine (Pinus contorta Dougl. ex. Loud. var. latifolia Engelm) trees from four open-pollinated progeny trials were genotyped with 25,099 SNPs, and phenotyped for 15 growth, wood quality, pest resistance, drought tolerance, and defense chemical (monoterpenes) traits. The main objectives of this study were to: (1) identify genetic markers associated with these traits and determine their genetic architecture, and to compare the marker detected by single- (ST) and multiple-trait (MT) GWA models; (2) evaluate and compare the accuracy and control of bias of the genomic predictions for these traits underlying different ST and MT parametric and non-parametric GP methods. GWA, ST and MT analyses were compared using a linear transformation of genomic breeding values from the respective genomic best linear unbiased prediction (GBLUP) model. GP, ST and MT parametric and non-parametric (Reproducing Kernel Hilbert Spaces, RKHS) models were compared in terms of prediction accuracy (PA) and control of bias. Results MT-GWA analyses identified more significant associations than ST. Some SNPs showed potential pleiotropic effects. Averaging across traits, PA from the studied ST-GP models did not differ significantly from each other, with generally a slight superiority of the RKHS method. MT-GP models showed significantly higher PA (and lower bias) than the ST models, being generally the PA (bias) of the RKHS approach significantly higher (lower) than the GBLUP. Conclusions The power of GWA and the accuracy of GP were improved when MT models were used in this lodgepole pine population. Given the number of GP and GWA models fitted and the traits assessed across four progeny trials, this work has produced the most comprehensive empirical genomic study across any lodgepole pine population to date. | es_ES |
dc.description.sponsorship | This work was funded by Genome Canada (https://www.genomecanada. ca/) RES-FOR ID 10207, grants 16R75036 to YAE, RES0034654 to NE, and RES0031330 to BRT; Genome Alberta (https://genomealberta.ca/) RES-FORID: LRF, grants RES0034664 to NE, 16R10106 to SDM, and RES0034657 to BRT; University of Alberta/Faculty ALES/Dept RR (https://www.ualberta.ca/index. html) grant RES0034569 to BRT; Alberta Innovates – BioSolutions (https://albertainnovates.ca/) grants RES0035327 to NE, 16R75221 to SDM, and RES0028979 to BRT; Genome BC (https://www.genomebc.ca/) grants 16R75421 to YAE and 16R75546 to SDM; Forest Resource Improvement Association of Alberta (FRIAA, https://friaa.ab.ca/) grants RES0037021 and RES0036845 to BRT; National Science Foundation (NSF, tps://www.nsf.gov/) grants MRI-1531128, ACI-1548562, and ACI-1445606 to CC; The Extreme Science and Engineering Discovery (XSEDE, ttps://xras.xsede.org/public/requests/29304-XSEDE-MCB180177) grant MCB180177 to CC. The funding bodies played no role in the design of the study and collection, analysis, and interpretation of data and in writing the manuscript | es_ES |
dc.language.iso | eng | es_ES |
dc.publisher | Springer Nature | es_ES |
dc.relation.isversionof | Publisher's version | es_ES |
dc.rights | openAccess | es_ES |
dc.subject | Quantitative genetic parameters | es_ES |
dc.subject | Genomic prediction | es_ES |
dc.subject | Genome wide association analyses | es_ES |
dc.subject | Single- and multiple-trait mixed models | es_ES |
dc.subject | Lodgepole pine | es_ES |
dc.title | Multiple-trait analyses improved the accuracy of genomic prediction and the power of genome-wide association of productivity and climate change-adaptive traits in lodgepole pine | es_ES |
dc.type | artículo | es_ES |
dc.identifier.doi | 10.1186/s12864-022-08747-7 | - |
dc.description.peerreviewed | Peer reviewed | es_ES |
dc.relation.publisherversion | http://dx.doi.org/10.1186/s12864-022-08747-7 | es_ES |
dc.rights.license | https://creativecommons.org/licenses/by/4.0/ | es_ES |
dc.contributor.funder | Genome Canada | es_ES |
dc.contributor.funder | University of Alberta | es_ES |
dc.contributor.funder | Alberta Innovates Health Solutions | es_ES |
dc.contributor.funder | Forest Resource Improvement Association of Alberta | es_ES |
dc.contributor.funder | National Science Foundation (US) | es_ES |
dc.contributor.funder | Extreme Science and Engineering Discovery Environment (US) | es_ES |
dc.relation.csic | Sí | es_ES |
oprm.item.hasRevision | no ko 0 false | * |
dc.identifier.funder | http://dx.doi.org/10.13039/100008762 | es_ES |
dc.identifier.funder | http://dx.doi.org/10.13039/501100000190 | es_ES |
dc.identifier.funder | http://dx.doi.org/10.13039/100000001 | es_ES |
dc.identifier.funder | http://dx.doi.org/10.13039/501100000145 | es_ES |
dc.contributor.orcid | Cappa, Eduardo P. [0000-0002-6234-2263] | es_ES |
dc.contributor.orcid | Chen, Charles [0000-0002-2203-0433] | es_ES |
dc.contributor.orcid | Klutsch, Jennifer [0000-0001-8839-972X] | es_ES |
dc.contributor.orcid | Sebastián Azcona, Jaime [0000-0003-2819-1825] | es_ES |
dc.contributor.orcid | Ratcliffe, Blaise [0000-0003-4469-2929] | es_ES |
dc.contributor.orcid | Da Ros, Letitia [0000-0002-9988-4971] | es_ES |
dc.contributor.orcid | Mansfield, S.D. [0000-0002-0175-554X] | es_ES |
dc.contributor.orcid | Thomas, Barb R. [0000-0002-9718-9297] | es_ES |
dc.contributor.orcid | El-Kassaby, Yousry A. [0000-0002-4887-8977] | es_ES |
dc.type.coar | http://purl.org/coar/resource_type/c_6501 | es_ES |
item.grantfulltext | open | - |
item.openairetype | artículo | - |
item.cerifentitytype | Publications | - |
item.languageiso639-1 | en | - |
item.fulltext | With Fulltext | - |
item.openairecristype | http://purl.org/coar/resource_type/c_18cf | - |
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