Identification of soybean genes related to fatty acid content based on a soybean genome collinearity analysis

Abstract

Seed fatty acid content is an important consideration for soybean produced for food, feed, and industrial applications. In this study, MCScanX was used to analyze the entire soybean genome to generate a collinearity block, which was then used to assess the collinearity among the soybean fatty acid quantitative trait loci (QTL) in the SoyBase database. The hub‐QTLs located in the Gm06, Gm07, and Gm10 segments were identified. The Kyoto Encyclopedia of Genes and Genomes and gene ontology databases were used to analyze the genes in hub‐QTL regions, resulting in the identification of 17 candidate genes related to soybean fatty acid content. Two lines with different fatty acid contents and a recurrent parent were selected from a chromosome segment substitution line library for a subsequent quantitative real‐time polymerase chain reaction (qRT‐PCR) assay to verify the candidate gene expression patterns. Four genes were related to the total soybean fatty acid content, while three genes were related to the content of specific fatty acid types. The results of this study may be relevant for the fine mapping of soybean fatty acid QTLs/genes.

Multiomic analysis of genes related to oil traits in legumes provide insights into lipid metabolism and oil richness in soybean

“…In a second group of transferases, LPAATs regulate the synthesis of PA, an intermediate in the formation of membrane, signaling, and storage lipids (Kim and Wang 2020). From the four GmLPAATs reported here (Figure 2.B, Supplementary Table 7), Glyma.10G095500 was highly expressed in cotyledons, corroborating previous studies (X. Wang et al 2019).…”

“…From the four GmLPAATs reported here (Figure 2.B, Supplementary Table 7), Glyma.10G095500 was highly expressed in cotyledons, corroborating previous studies (X. Wang et al 2019). Glyma.02G181300 and Glyma.12G163500 are within QTL associated to phosphatidylcholine (qPC-2.1) and phosphatidylinositol (qPI-12.1), respectively (Anshu et al 2022) (Supplementary Table 7).…”

“…The cyan module comprises 33 TFs (Supplementary table 14) and important genes involved in seed oil quality and accumulation, such as GmFATA1A (Glyma.18G167300), GmFATA1B (Glyma.08G349200), GmDGAT1C (Glyma.09G065300), biotin carboxyl carrier protein (Glyma.18G243500, Glyma.09G248900), biotin carboxylase (Glyma.08G027600, Glyma.05G221100), ketoacyl-ACP synthase (KASI: Glyma.08G084300; KASII: Glyma.17G047000; KAS III: Glyma.09G277400), and Long-chain Acyl-Coa Synthetase (LACS: Glyma.06G112900, Glyma.13G079900, Glyma.20G060100) (Torabi et al 2021; X. Wang et al 2019).…”

“…Glyma.07G110900 and Glyma.06G122600 encode a cytochrome P450 and an alcohol dehydrogenase, respectively. A previous study suggested that relative expression of these two genes promote the synthesis of linolenic acid in mature soybean seeds (X. Wang et al 2019).…”

“…A previous study suggested that relative expression of these two genes promote the synthesis of linolenic acid in mature soybean seeds (X. Wang et al 2019). In addition, we encountered four unannotated genes (Glyma.12G105300, Glyma.10G277900, Glyma.04G044200, and Glyma.05G141600) with potential activity in lipid metabolism (Supplementary Table 14).…”