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Article

Data Mining Nitrogen-Responsive Gene Expression for Source–Sink Relations and Indicators of N Status in Potato

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Department of Mathematics & Statistics, Dalhousie University, 6316 Coburg Rd., P. O. Box 15000, Halifax, NS B3H 4R2, Canada
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Fredericton Research and Development Centre, Agriculture and Agri-Food Canada, 850 Lincoln Rd., P.O. Box 20280, Fredericton, NB E3B 4Z7, Canada
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Quebec Research and Development Centre, Agriculture and Agri-Food Canada, 2560 Hochelaga Boulevard, Quebec, QC G1V 2J3, Canada
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Normandin Experimental Farm, Agriculture and Agri-Food Canada, 1468, Saint-Cyrille, Normandin, QC G8M 4K3, Canada
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Canada-Manitoba Crop Diversification Centre, P.O. Box 309, Carberry, MB R0K 0H0, Canada
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Charlottetown Research and Development Centre, Agriculture and Agri-Food Canada, 440 University Ave., Charlottetown, PEI C1A 4N6, Canada
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Department of Plant Science, McGill University, 21111 Lakeshore Rd., Ste-Anne-de-Bellevue, QC H9X 3V9, Canada
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Author to whom correspondence should be addressed.
Agronomy 2020, 10(10), 1617; https://doi.org/10.3390/agronomy10101617
Received: 11 September 2020 / Revised: 17 October 2020 / Accepted: 19 October 2020 / Published: 21 October 2020
(This article belongs to the Section Soil and Plant Nutrition)
Potato tuber yields depend on nitrogen (N) supply, which affects source–sink relations. Transcriptome sequencing of the foliar source using a single field trial identified gene expression responsive to 180 kg N ha−1. The expression of N-responsive genes was further analyzed in the next stage using a NanoString nCounter over an expanded number of foliar samples from seven field trials with varying N rates, sites, and cultivars. Least absolute shrinkage and selection operator (LASSO) regression models of gene expression predictive of yield, total plant N uptake, and tuber-specific gravity (proxy for dry matter) were built. Genes in the LASSO model for yield were associated with source–sink partitioning. A key gene regulating tuberization and senescence, StSP6A Flowering locus T, was found in the LASSO model predicting tuber yield, but not the other models. An aminotransferase involved in photorespiratory N assimilation and amino acid biosynthesis was found in all LASSO models. Other genes functioning in amino acid biosynthesis and integration of sulfur (S) and N metabolism were also found in the yield prediction model. The study provides insights on N responses in foliage of potato plants that affect source–sink partitioning. Additionally, N-responsive genes predictive of yield are candidate indicators of N status. View Full-Text
Keywords: nitrogen utilization; tuber yield; specific gravity; LASSO; gene expression; source–sink; crop N status nitrogen utilization; tuber yield; specific gravity; LASSO; gene expression; source–sink; crop N status
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MDPI and ACS Style

Parenteau, M.T.; Gu, H.; Zebarth, B.J.; Cambouris, A.N.; Lafond, J.; Nelson, A.; Nyiraneza, J.; Davidson, C.; Lagüe, M.; Galvez, J.H.; Strömvik, M.V.; Tai, H.H. Data Mining Nitrogen-Responsive Gene Expression for Source–Sink Relations and Indicators of N Status in Potato. Agronomy 2020, 10, 1617. https://doi.org/10.3390/agronomy10101617

AMA Style

Parenteau MT, Gu H, Zebarth BJ, Cambouris AN, Lafond J, Nelson A, Nyiraneza J, Davidson C, Lagüe M, Galvez JH, Strömvik MV, Tai HH. Data Mining Nitrogen-Responsive Gene Expression for Source–Sink Relations and Indicators of N Status in Potato. Agronomy. 2020; 10(10):1617. https://doi.org/10.3390/agronomy10101617

Chicago/Turabian Style

Parenteau, Mia T., Hong Gu, Bernie J. Zebarth, Athyna N. Cambouris, Jean Lafond, Alison Nelson, Judith Nyiraneza, Charlotte Davidson, Martin Lagüe, José H. Galvez, Martina V. Strömvik, and Helen H. Tai 2020. "Data Mining Nitrogen-Responsive Gene Expression for Source–Sink Relations and Indicators of N Status in Potato" Agronomy 10, no. 10: 1617. https://doi.org/10.3390/agronomy10101617

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