Molecular Analysis of GmFAD3A in Two Soybean Populations Segregating for the fan, fap1, and fapnc Loci

Cardinal, Andrea J.; Burton, J. W.; Camacho-Roger, Ana Maria; Whetten, Rebecca; Chappell, Andrew; Bilyeu, Kristin; Auclair, Jéròme; Dewey, Ralph E.

doi:10.2135/cropsci2010.08.0500

Cited by 5 publications

(4 citation statements)

References 40 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…FAD3A encodes a linoleate desaturase that introduces a third double bond in linoleic acid to form linolenic acid. Cardinal et al [ 65 ] suggest that lower expression of the FAD3A allele in N0304-303-3 is likely to cause a lower level of linolenic acid (18:3) content and is mirrored in our finding. M23 has a 164 kb deleted region containing the fatty acid desaturase gene FAD2-1A [ 66 , 67 ] and therefore, as expected, we detected little more than background expression of the FAD2-1A gene in M23.…”

Section: Discussionsupporting

confidence: 78%

Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content

et al. 2014

View full text Add to dashboard Cite

BackgroundVariation in seed oil composition and content among soybean varieties is largely attributed to differences in transcript sequences and/or transcript accumulation of oil production related genes in seeds. Discovery and analysis of sequence and expression variations in these genes will accelerate soybean oil quality improvement.ResultsIn an effort to identify these variations, we sequenced the transcriptomes of soybean seeds from nine lines varying in oil composition and/or total oil content. Our results showed that 69,338 distinct transcripts from 32,885 annotated genes were expressed in seeds. A total of 8,037 transcript expression polymorphisms and 50,485 transcript sequence polymorphisms (48,792 SNPs and 1,693 small Indels) were identified among the lines. Effects of the transcript polymorphisms on their encoded protein sequences and functions were predicted. The studies also provided independent evidence that the lack of FAD2-1A gene activity and a non-synonymous SNP in the coding sequence of FAB2C caused elevated oleic acid and stearic acid levels in soybean lines M23 and FAM94-41, respectively.ConclusionsAs a proof-of-concept, we developed an integrated RNA-seq and bioinformatics approach to identify and functionally annotate transcript polymorphisms, and demonstrated its high effectiveness for discovery of genetic and transcript variations that result in altered oil quality traits. The collection of transcript polymorphisms coupled with their predicted functional effects will be a valuable asset for further discovery of genes, gene variants, and functional markers to improve soybean oil quality.

show abstract

Section: Discussionsupporting

confidence: 78%

Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content

et al. 2014

View full text Add to dashboard Cite

show abstract

“…In addition to the FAD3B and FAD3C genes, the FAD3A gene has a strong influence on the concentration of linolenic acid (Cardinal et al 2011). Different combinations of mutations in these three genes are capable of producing soybeans with low levels of linolenic acid (1%) .…”

Section: Resultsmentioning

confidence: 99%

Association of candidate genes for fatty acid content in soybean by temperature-switch PCR (TSP) genotyping

Bueno

God

Prata

et al. 2018

Crop Breed. Appl. Biotechnol.

View full text Add to dashboard Cite

“…N98-4445 is a F 3 -derived higholeate (563.1 g kg -1 ), low-linoleate (26.3 g kg -1 ;homozygous for fan PI 123440) line that is a sister line of the released germplasm N98-4445A developed by the USDA-ARS in Raleigh, NC (Burton et al 2006). Satelite is a lowpalmitate (39.8 g kg -1 ; homozygous for fap nc and fap1), low-linolenate cultivar (fan PI 123440) (Cardinal et al 2007;Bachlava et al 2008aBachlava et al , b, 2009bCardinal et al 2011). FAHH00 (F 4 derived lines) was derived from the cross of a high yielding line, 'Corsica' (Kenworthy 1996), and N97-3681-11, a low linolenic (fan PI 123440) and low palmitic acid (homozygous for fap nc and fap1) line.…”

Section: Population Developmentmentioning

confidence: 99%

Mapping the low palmitate fap1 mutation and validation of its effects in soybean oil and agronomic traits in three soybean populations

et al. 2013

Self Cite

View full text Add to dashboard Cite

Key message fap1 mutation is caused by a G174A change in GmKASIIIA that disrupts a donor splice site recognition and creates a GATCTG motif that enhanced its expression. Abstract Soybean oil with reduced palmitic acid content is desirable to reduce the health risks associated with consumption of this fatty acid. The objectives of this study were: to identify the genomic location of the reduced palmitate fap1 mutation, determine its molecular basis, estimate the amount of phenotypic variation in fatty acid composition explained by this locus, determine if there are epistatic interactions between the fap1 and fap nc loci and, determine if the fap1 mutation has pleiotropic effects on seed yield, oil and protein content in three soybean populations. This study detected two major QTL for 16:0 content located in chromosome 5 (GmFATB1a, fap nc ) and chromosome 9 near BARCSOYSSR_09_1707 that explained, with their interaction, 66-94 % of the variation in 16:0 content in the three populations. Sequencing results of a putative candidate gene, GmKASIIIA, revealed a single unique polymorphism in the germplasm line C1726, which was predicted to disrupt the donor splice site recognition between exon one and intron one and produce a truncated KASIIIA protein. This G to A change also created the GATCTG motif that enhanced gene expression of the mutated GmKASIIIA gene. Lines homozygous for the GmKASIIIA mutation (fap1) had a significant reduction in 16:0, 18:0, and oil content; and an increase in unsaturated fatty acids content. There were significant epistatic interactions between GmKASIIIA (fap1) and fap nc for 16:0 and oil contents, and seed yield in two populations. In conclusion, the fap1 phenotype is caused by a single unique SNP in the GmKASIIIA gene.

show abstract

Molecular Analysis of GmFAD3A in Two Soybean Populations Segregating for the fan, fap1, and fap_nc Loci

Cited by 5 publications

References 40 publications

Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content

Identification and characterization of transcript polymorphisms in soybean lines varying in oil composition and content

Association of candidate genes for fatty acid content in soybean by temperature-switch PCR (TSP) genotyping

Mapping the low palmitate fap1 mutation and validation of its effects in soybean oil and agronomic traits in three soybean populations

Contact Info

Product

Resources

About