A systems genomics and genetics approach to identify the genetic regulatory network for lignin content in Brassica napus seeds.

Autor:	Zhang W; Aquatic and Crop Resource Development, National Research Council of Canada, Saskatoon, SK, Canada., Higgins EE; Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, SK, Canada., Robinson SJ; Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, SK, Canada., Clarke WE; Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, SK, Canada., Boyle K; Aquatic and Crop Resource Development, National Research Council of Canada, Saskatoon, SK, Canada., Sharpe AG; Global Institute for Food Security (GIFS), University of Saskatchewan, Saskatoon, SK, Canada., Fobert PR; Aquatic and Crop Resource Development, National Research Council of Canada, Ottawa, ON, Canada., Parkin IAP; Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, Saskatoon, SK, Canada.
Jazyk:	angličtina
Zdroj:	Frontiers in plant science [Front Plant Sci] 2024 Jun 05; Vol. 15, pp. 1393621. Date of Electronic Publication: 2024 Jun 05 (Print Publication: 2024).
DOI:	10.3389/fpls.2024.1393621
Abstrakt:	Seed quality traits of oilseed rape, Brassica napus ( B. napus ), exhibit quantitative inheritance determined by its genetic makeup and the environment via the mediation of a complex genetic architecture of hundreds to thousands of genes. Thus, instead of single gene analysis, network-based systems genomics and genetics approaches that combine genotype, phenotype, and molecular phenotypes offer a promising alternative to uncover this complex genetic architecture. In the current study, systems genetics approaches were used to explore the genetic regulation of lignin traits in B. napus seeds. Four QTL (qLignin_A09_1, qLignin_A09_2, qLignin_A09_3, and qLignin_C08) distributed on two chromosomes were identified for lignin content. The qLignin_A09_2 and qLignin_C08 loci were homologous QTL from the A and C subgenomes, respectively. Genome-wide gene regulatory network analysis identified eighty-three subnetworks (or modules); and three modules with 910 genes in total, were associated with lignin content, which was confirmed by network QTL analysis. eQTL (expression quantitative trait loci) analysis revealed four cis-eQTL genes including lignin and flavonoid pathway genes, cinnamoyl-CoA-reductase ( CCR1 ), and TRANSPARENT TESTA genes TT4 , TT6 , TT8 , as causal genes. The findings validated the power of systems genetics to identify causal regulatory networks and genes underlying complex traits. Moreover, this information may enable the research community to explore new breeding strategies, such as network selection or gene engineering, to rewire networks to develop climate resilience crops with better seed quality. Competing Interests: The authors declare that the research was conducted in the absence of any commercial or financial relationships that could be construed as a potential conflict of interest. (Copyright © 2024 His Majesty the King in Right of Canada.)
Databáze:	MEDLINE
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