Elemental profiling and genome-wide association studies reveal genomic variants modulating ionomic composition in Populus trichocarpa leaves

Ployet, Raphael; Feng, Kai; Zhang, Jin; Baxter, Ivan; Glasgow, David C.; Andrews, Hunter B.; Rodriguez, Miguel; Chen, Jin-Gui; Tuskan, Gerald A.; Tschaplinski, Timothy J.; Weston, David J.; Martin, Madhavi Z.; Muchero, Wellington

doi:10.3389/fpls.2024.1450646

Elemental profiling and genome-wide association studies reveal genomic variants modulating ionomic composition in Populus trichocarpa leaves

Journal Article · Thu Nov 28 04:00:00 EST 2024 · Frontiers in Plant Science

DOI:https://doi.org/10.3389/fpls.2024.1450646· OSTI ID:2538468

Ployet, Raphael ^[1]; Feng, Kai ^[1]; ^[1]; Baxter, Ivan ^[2]; ^[1]; Andrews, Hunter B. ^[1]; Rodriguez, Miguel ^[1]; ^[1]; ^[1]; ^[1]; ^[1]; ^[1]; ^[1]

Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)
Donald Danforth Plant Science Center, St. Louis, MO (United States)

The ionome represents elemental composition in plant tissues and can be an indicator of nutrient status as well as overall plant performance. Thus, identifying genetic determinants governing elemental uptake and storage is an important goal for breeding and engineering biomass feedstocks with improved performance. In this study, we coupled high-throughput ionome characterization of leaf tissues with high-resolution genome-wide association studies (GWAS) to uncover genetic loci that modulate ionomic composition in leaves of poplar (Populus trichocarpa). Significant agreement was observed across the three ionomic profiling platforms tested: inductively coupled plasma-mass spectrometry (ICP-MS), neutron activation analysis (NAA) and laser-induced breakdown spectroscopy (LIBS). Relative quantification of 20 elements using ICP-MS across a population of 584 genotypes, revealed larger variation in micro-nutrients and trace elements content than for macro-nutrients across genotypes. The GWAS performed using a set of high-density (>8.2 million) single nucleotide polymorphisms, identified over 600 loci significantly associated with variations in these mineral elements, pointing to numerous uncharacterized candidate genes. A significant enrichment for genes related to ion homeostasis and transport was observed, including several members of the cation-proton antiporters (CPA) family and MATE efflux transporters, previously reported to be critical for plant growth and fitness in other species. Our results also included a polymorphic copy of the high-affinity molybdenum transporter MOT1 found directly associated to molybdenum content. For the first time in a perennial plant, our results provide evidence of genetic control of mineral content in a model tree species.

View Accepted Manuscript (DOE)

Research Organization:: Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States). Compute and Data Environment for Science (CADES)

Sponsoring Organization:: USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725

OSTI ID:: 2538468

Alternate ID(s):: OSTI ID: 2538502

Journal Information:: Frontiers in Plant Science, Journal Name: Frontiers in Plant Science Vol. 15; ISSN 1664-462X

Publisher:: Frontiers Research FoundationCopyright Statement

Country of Publication:: United States

Language:: English

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Genome-Wide Association Study of Wood Anatomical and Morphological Traits in Populus trichocarpa Chhetri, Hari B.; Furches, Anna; Macaya-Sanz, David Frontiers in Plant Science, Vol. 11 https://doi.org/10.3389/fpls.2020.545748	journal	September 2020
Vacuolar Proton Pyrophosphatase Is Required for High Magnesium Tolerance in Arabidopsis Yang, Yang; Tang, Ren-Jie; Mu, Baicong International Journal of Molecular Sciences, Vol. 19, Issue 11 https://doi.org/10.3390/IJMS19113617	journal	November 2018
Ionomic Approaches for Discovery of Novel Stress-Resilient Genes in Plants Ali, Sajad; Tyagi, Anshika; Bae, Hanhong International Journal of Molecular Sciences, Vol. 22, Issue 13 https://doi.org/10.3390/IJMS22137182	journal	July 2021
Potassium Control of Plant Functions: Ecological and Agricultural Implications Sardans, Jordi; Peñuelas, Josep Plants, Vol. 10, Issue 2 https://doi.org/10.3390/plants10020419	journal	February 2021
Ionomic Screening of Field-Grown Soybean Identifies Mutants with Altered Seed Elemental Composition Ziegler, Greg; Terauchi, Aimee; Becker, Anthony The Plant Genome, Vol. 6, Issue 2 https://doi.org/10.3835/PLANTGENOME2012.07.0012	journal	January 2013

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