Dataset Information

Proteomic analysis of Glycine max seeds during controlled deterioration treatment

ABSTRACT: Controlled deterioration treatment (CDT) negatively affects the seed quality and vigor during post-harvest storage. A label-free proteomic approach was utilized to understand the CDT responses in soybean seeds. Soybean seed are rich in seed-storage proteins (SSPs) constituting up to 70 to 80% of the total seed protein content. Due to the presence of these SSPs, it is very difficult to identify and/or characterize the low-abundance regulatory proteins. Availability of appropriate methods for extraction of low-abundance proteins (LAPs) are now providing a platform for the identification of novel proteins involved in the signal perception and transduction during environmental perturbations. To enrich LAPs, the extracted total seed proteins were subjected to protamine sulfate precipitation (PSP) method to deplete SSPs. Fractionated protein fractions thus prepared were analyzed for identification of differential proteins using Label-free quantitative proteomics approaches.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Glycine Max

TISSUE(S): Seed

SUBMITTER: Sun Tae Kim

LAB HEAD: Sun Tae Kim

PROVIDER: PXD006064 | Pride | 2017-10-10

REPOSITORIES: Pride

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Publications

Gel-based and gel-free proteome data associated with controlled deterioration treatment of <i>Glycine max</i> seeds.

Min Cheol Woo CW Lee Seo Hyun SH Cheon Ye Eun YE Han Won Young WY Ko Jong Min JM Kang Hang Won HW Kim Yong Chul YC Agrawal Ganesh Kumar GK Rakwal Randeep R Gupta Ravi R Kim Sun Tae ST

Data in brief 20171002

Data presented here are associated with the article: "In-depth proteomic analysis of soybean (<i>Glycine max</i>) seeds during controlled deterioration treatment (CDT) reveals a shift in seed metabolism" (Min et al., 2017) [1]. Seed deterioration is one of the major problems, affecting the seed quality, viability, and vigor in a negative manner. Here, we display the gel-based and gel-free proteomic data, associated with the CDT in soybean seeds. The present data was obtained from 2-DE, shotgun p ...[more]

PMID: 29062869

Publication: 1/2

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Project description:To understand gene expression networks leading to functional properties and compositional traits of the soybean seed, we have undertaken a detailed examination of soybean seed development from a few days post-fertilization to the mature seed using Illumina high-throughput transcriptome sequencing (RNA-Seq). RNA was sequenced from seven different stages of seed development, yielding between 12 million and 78 million sequenced transcripts. These have been aligned to the 79,000 gene models predicted from the soybean genome recently sequenced by the Department of Energy Joint Genome Institute. Over one hundred gene models were identified with high expression exclusively in young seed stages, starting at just four days after fertilization. These were annotated as being related to many basic components and processes such as histones and proline-rich proteins. Genes involved with some storage proteins such as glycinin and beta-conglycinin had their highest expression levels at the stages of largest fresh weight, confirming previous knowledge that these storage products are being rapidly accumulated before the seed begins the desiccation process. Other gene models showed high expression in the dry, mature seeds, perhaps indicating the preparation of pathways needed later, in the early stages of imbibition. Many highly-expressed gene models at the dry seed stage are, as expected, annotated as hydrophilic proteins associated with low water conditions, such as late embryogenesis abundant (LEA) proteins and dehydrins, which help preserve the cellular structures and nutrients within the seed during desiccation. Hundreds of transcription factors with notable expression in at least one stage of seed development were also identified and examined. Results from a second biological replicate demonstrate high reproducibility of these data. High-throughput sequencing using Illumina Genome Analyzer II and Illumina HiSeq 2000 (RNA-Seq) was performed on seven stages of soybean seeds, with two biological replicates per stage.

Dataset Information

Proteomic analysis of Glycine max seeds during controlled deterioration treatment

Publications

Gel-based and gel-free proteome data associated with controlled deterioration treatment of <i>Glycine max</i> seeds.

Similar Datasets

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