Comparative analysis of metabolome of rice seeds at three developmental stages using a recombinant inbred line population

Abstract

Plants are considered an important food and nutrition source for humans. Despite advances in plant seed metabolomics, knowledge about the genetic and molecular bases of rice seed metabolomes at different developmental stages is still limited. Here, using Zhenshan 97 (ZS97) and Minghui 63 (MH63), we performed a widely targeted metabolic profiling in seeds during grain filling, mature seeds and germinating seeds. The diversity between MH63 and ZS97 was characterized in terms of the content of metabolites and the metabolic shifting across developmental stages. Taking advantage of the ultra-high-density genetic map of a population of 210 recombinant inbred lines (RILs) derived from a cross between ZS97 and MH63, we identified 4681 putative metabolic quantitative trait loci (mQTLs) in seeds across the three stages. Further analysis of the mQTLs for the codetected metabolites across the three stages revealed that the genetic regulation of metabolite accumulation was closely related to developmental stage. Using in silico analyses, we characterized 35 candidate genes responsible for 30 structurally identified or annotated compounds, among which LOC_Os07g04970 and LOC_Os06g03990 were identified to be responsible for feruloylserotonin and L-asparagine content variation across populations, respectively. MetaboliteÀagronomic trait association and colocation between mQTLs and phenotypic quantitative trait loci (pQTLs) revealed the complexity of the metaboliteÀagronomic trait relationship and the corresponding genetic basis.

Cross-Species Comparison of Metabolomics to Decipher the Metabolic Diversity in Ten Fruits

“…The accumulation of metabolites varied in different species and varieties [ 37 , 38 , 39 , 40 , 41 , 42 ]. The metabolome of the ten fruits showed significant differences.…”

Tricin Biosynthesis and Bioengineering

“…A number of UGTs from rice (Ko et al, 2006(Ko et al, , 2008Hong et al, 2007;Luang et al, 2013;Chen et al, 2014;Peng et al, 2017) and wheat (Shi et al, 2020) are capable of catalyzing the conjugation of sugars, usually glucose, to one or multiple hydroxyl groups of tricin in vitro and/or when over-expressed in transgenic plants. Singlenucleotide polymorphisms (SNPs) in several putative UGTs were also found to be directly associated with the variations of flavone O-glycoside accumulation in different natural cultivars and/or recombinant inbred lines of rice (Chen et al, 2014;Dong et al, 2014;Peng et al, 2017;Li et al, 2019) and wheat (Shi et al, 2020). The different O-glycosylations could enhance solubility and stability, and might be involved in regulating storage, transport, and detoxification of tricin (Yonekura-Sakakibara and Hanada, 2011).…”

Metabolomics for Crop Breeding: General Considerations

“…Among 800-850 metabolites observed, 372 metabolites were common for all three stages. Several metabolites were correlated with heading date at all three tested states of grains: fatty acid 9,10-epoxy-18-hydroxy-octadecanoic acid (R = 0.34 to 0.39), terpene Momilactone (R = 0.30 to 0.41) and a sugar derivative Methyl di-alpha-L-rhamnoside (R = 0.31 to 0.36) [89].…”