Agronomy and Horticulture, Department of
ORCID IDs
Document Type
Article
Date of this Version
2014
Citation
Published in The Plant Genome 7:1 (March 2014), pp. 1–14
Abstract
The complex network of regulatory factors and interactions involved in transcriptional regulation within the seed is not well understood. To evaluate gene expression regulation in the immature seed, we utilized a genetical genomics approach on a soybean [Glycine max (L.) Merr.] recombinant inbred line (RIL) population and produced a genome-wide expression quantitative trait loci (eQTL) dataset. The validity of the dataset was confirmed by mapping the eQTL hotspot for flavonoid biosynthesis-related genes to a region containing repeats of chalcone synthase (CHS) genes known to correspond to the soybean inhibitor locus that regulates seed color. We then identified eQTL for genes with seed-specific expression and discovered striking eQTL hotspots at distinct genomic intervals on chromo-somes (Chr) 20, 7, and 13. The main eQTL hotspot for transcriptional regulation of fatty acid biosyn-thesis genes also coincided with regulation of oleosin genes. Transcriptional upregulation of genesets from eQTL with opposite allelic effects were also found. Gene-eQTL networks were constructed and candidate regulatory genes were identified from these three key loci specific to seed expression and enriched in genes involved in seed oil accumulation. Our data provides new insight into the complex nature of gene networks in the immature soybean seed and the genetic architecture that contributes to seed development.
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S2.xls (118 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S3.xls (34 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S4.xls (104 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S5.xls (18951 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S6.xls (384 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S7.xls (89 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S8.xls (149 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S9.xls (246 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S10.xls (1017 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S11.xls (90 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S12.xls (55 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S13.xls (63 kB)
Hyten 2014 PG eQTL networks reveal SUPPL TABLE S14.xls (280 kB)
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Copyright © 2014 Crop Science Society of America