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Lyra, Danilo H., Griffiths, Cara A., Watson, Amy, Joynson, Ryan, Molero, Gemma, Igna, Alina-Andrada, Hassani-Pak, Keywan, Reynolds, Matthew P., Hall, Anthony 
ORCID: https://orcid.org/0000-0002-1806-020X and Paul, Matthew J.
(2021)
Gene-based mapping of trehalose biosynthetic pathway genes reveals association with source- and sink-related yield traits in a spring wheat panel.
Food and Energy Security, 10 (3).
ISSN 2048-3694
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Abstract
Trehalose 6-phosphate (T6P) signalling regulates carbon use and allocation and is a target to improve crop yields. However, the specific contributions of trehalose phosphate synthase (TPS) and trehalose phosphate phosphatase (TPP) genes to source- and sink-related traits remain largely unknown. We used enrichment capture sequencing on TPS and TPP genes to estimate and partition the genetic variation of yield-related traits in a spring wheat (Triticum aestivum) breeding panel specifically built to capture the diversity across the 75,000 CIMMYT wheat cultivar collection. Twelve phenotypes were correlated to variation in TPS and TPP genes including plant height and biomass (source), spikelets per spike, spike growth and grain filling traits (sink) which showed indications of both positive and negative gene selection. Individual genes explained proportions of heritability for biomass and grain-related traits. Three TPS1 homologues were particularly significant for trait variation. Epistatic interactions were found within and between the TPS and TPP gene families for both plant height and grain-related traits. Gene-based prediction improved predictive ability for grain weight when gene effects were combined with the whole-genome markers. Our study has generated a wealth of information on natural variation of TPS and TPP genes related to yield potential which confirms the role for T6P in resource allocation and in affecting traits such as grain number and size confirming other studies which now opens up the possibility of harnessing natural genetic variation more widely to better understand the contribution of native genes to yield traits for incorporation into breeding programmes.
| Item Type: | Article |
|---|---|
| Additional Information: | Data availability statement: The exome capture data, as well as the R scripts used for most of the analyses in this study, can be found at https://github.com/DaniloLyra/exome_HiBAP_data. The genotypic (35 K SNP Chip) and phenotypic data are available in Molero et al., (2019). Funding Information: Rothamsted Research receives strategic funding from the Biotechnological and Biological Sciences Research Council of the UK. We acknowledge International Wheat Yield Partnership grant (BB/S01280X/1) and Designing Future Wheat Institute Strategic Programme (BB/P016855/1). GM and MPR were supported by the International Wheat Yield Partnership (IWYP-HUB) and by the Sustainable Modernization of Traditional Agriculture (MasAgro) an initiative from the Secretariat of Agriculture and Rural Development (SADER) and CIMMYT. A.A.I received support from the Nottingham-Rothamsted Doctoral Training Partnership. |
| Uncontrolled Keywords: | enrichment capture sequencing,gene-based association analysis,partitioning heritability per gene,signature of selection,trehalose phosphate phosphatase,trehalose phosphate synthase,forestry,food science,renewable energy, sustainability and the environment,agronomy and crop science,sdg 7 - affordable and clean energy ,/dk/atira/pure/subjectarea/asjc/1100/1107 |
| Faculty \ School: | Faculty of Science > School of Biological Sciences |
| Related URLs: | |
| Depositing User: | LivePure Connector |
| Date Deposited: | 31 Oct 2024 13:30 |
| Last Modified: | 11 Nov 2024 01:02 |
| URI: | https://ueaeprints.uea.ac.uk/id/eprint/97377 |
| DOI: | 10.1002/fes3.292 |
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