Genomic prediction of switchgrass winter survivorship across diverse lowland populations

In the North-Central United States, lowland ecotype switchgrass can increase yield by up to 50% compared with locally adapted but early flowering cultivars. However, lowland ecotypes are not winter tolerant. The mechanism for winter damage is unknown but previously has been associated with late flow...

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Autores principales: Tilhou, Neal W, Poudel, Hari P, Lovell, John, Mamidi, Sujan, Schmutz, Jeremy, Daum, Christopher, Zane, Matthew, Yoshinaga, Yuko, Lipzen, Anna, Casler, Michael D
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9997553/
https://www.ncbi.nlm.nih.gov/pubmed/36648238
http://dx.doi.org/10.1093/g3journal/jkad014
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author Tilhou, Neal W
Poudel, Hari P
Lovell, John
Mamidi, Sujan
Schmutz, Jeremy
Daum, Christopher
Zane, Matthew
Yoshinaga, Yuko
Lipzen, Anna
Casler, Michael D
author_facet Tilhou, Neal W
Poudel, Hari P
Lovell, John
Mamidi, Sujan
Schmutz, Jeremy
Daum, Christopher
Zane, Matthew
Yoshinaga, Yuko
Lipzen, Anna
Casler, Michael D
author_sort Tilhou, Neal W
collection PubMed
description In the North-Central United States, lowland ecotype switchgrass can increase yield by up to 50% compared with locally adapted but early flowering cultivars. However, lowland ecotypes are not winter tolerant. The mechanism for winter damage is unknown but previously has been associated with late flowering time. This study investigated heading date (measured for two years) and winter survivorship (measured for three years) in a multi-generation population generated from two winter-hardy lowland individuals and diverse southern lowland populations. Sequencing data (311,776 markers) from 1,306 individuals were used to evaluate genome-wide trait prediction through cross-validation and progeny prediction (n = 52). Genetic variance for heading date and winter survivorship was additive with high narrow-sense heritability (0.64 and 0.71, respectively) and reliability (0.68 and 0.76, respectively). The initial negative correlation between winter survivorship and heading date degraded across generations (F(1)r = −0.43, pseudo-F(2)r = −0.28, pseudo-F(2) progeny r = −0.15). Within-family predictive ability was moderately high for heading date and winter survivorship (0.53 and 0.52, respectively). A multi-trait model did not improve predictive ability for either trait. Progeny predictive ability was 0.71 for winter survivorship and 0.53 for heading date. These results suggest that lowland ecotype populations can obtain sufficient survival rates in the northern United States with two or three cycles of effective selection. Despite accurate genomic prediction, naturally occurring winter mortality successfully isolated winter tolerant genotypes and appears to be an efficient method to develop high-yielding, cold-tolerant switchgrass cultivars.
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spelling pubmed-99975532023-03-10 Genomic prediction of switchgrass winter survivorship across diverse lowland populations Tilhou, Neal W Poudel, Hari P Lovell, John Mamidi, Sujan Schmutz, Jeremy Daum, Christopher Zane, Matthew Yoshinaga, Yuko Lipzen, Anna Casler, Michael D G3 (Bethesda) Genomic Prediction In the North-Central United States, lowland ecotype switchgrass can increase yield by up to 50% compared with locally adapted but early flowering cultivars. However, lowland ecotypes are not winter tolerant. The mechanism for winter damage is unknown but previously has been associated with late flowering time. This study investigated heading date (measured for two years) and winter survivorship (measured for three years) in a multi-generation population generated from two winter-hardy lowland individuals and diverse southern lowland populations. Sequencing data (311,776 markers) from 1,306 individuals were used to evaluate genome-wide trait prediction through cross-validation and progeny prediction (n = 52). Genetic variance for heading date and winter survivorship was additive with high narrow-sense heritability (0.64 and 0.71, respectively) and reliability (0.68 and 0.76, respectively). The initial negative correlation between winter survivorship and heading date degraded across generations (F(1)r = −0.43, pseudo-F(2)r = −0.28, pseudo-F(2) progeny r = −0.15). Within-family predictive ability was moderately high for heading date and winter survivorship (0.53 and 0.52, respectively). A multi-trait model did not improve predictive ability for either trait. Progeny predictive ability was 0.71 for winter survivorship and 0.53 for heading date. These results suggest that lowland ecotype populations can obtain sufficient survival rates in the northern United States with two or three cycles of effective selection. Despite accurate genomic prediction, naturally occurring winter mortality successfully isolated winter tolerant genotypes and appears to be an efficient method to develop high-yielding, cold-tolerant switchgrass cultivars. Oxford University Press 2023-01-17 /pmc/articles/PMC9997553/ /pubmed/36648238 http://dx.doi.org/10.1093/g3journal/jkad014 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of the Genetics Society of America. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Genomic Prediction
Tilhou, Neal W
Poudel, Hari P
Lovell, John
Mamidi, Sujan
Schmutz, Jeremy
Daum, Christopher
Zane, Matthew
Yoshinaga, Yuko
Lipzen, Anna
Casler, Michael D
Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title_full Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title_fullStr Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title_full_unstemmed Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title_short Genomic prediction of switchgrass winter survivorship across diverse lowland populations
title_sort genomic prediction of switchgrass winter survivorship across diverse lowland populations
topic Genomic Prediction
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9997553/
https://www.ncbi.nlm.nih.gov/pubmed/36648238
http://dx.doi.org/10.1093/g3journal/jkad014
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