PXD014152

PXD014152 is an original dataset announced via ProteomeXchange.

Title	Integrated analyses of shotgun proteomics and metabolomics reveal its association with rise of secondary metabolites of warm water imbibition soybean seeds
Description	For production of soy-foods or supplements, imbibition of soybean seeds in the water is required step for generation of tofu, soy-milk, and other soy-products. With an aim to get new insight into effects of different imbibition temperature (4, 25, and 55℃), this study conducted integrated proteomics and metabolomics analysis of soybean seeds. For total proteome analysis, we applied TMT labeling based quantitative proteomics combined to FASP (Filter-Aided Sample Preparation) with high-throughput LC-MS/MS. A total of 2,616 proteins were identified out of which 801 proteins showed significantly difference of protein abundance (≥1.5 fold change, Benjamini-Hochberg FDR <0.05) among 4, 25, and 55℃ imbibition seeds. Functional analysis of identified proteins showed an increased abundance of proteins functioning as glycosyl hydrolase enzymes such as beta-glucosidase, alpha and beta-galactosidase, and alpha-mannosidase, or protease, and PTMs related enzymes as well. UPLC TOF-MS analysis showed around 20 fold increase in isoflavone aglycones (daidzein and genistein) while isoflavone glycosides (daidzin and genistin) were decreased in 55℃ imbibition seed, in agreement with proteomics results which we assume positively related to increase abundance of glycosyl hydrolase. A metabolomics analysis revealed 64 metabolites were significantly altered, for example, various free amino acids showed accumulation patterns by increased abundance of various protease enzymes and further confirmed the accumulation of isoflavone aglycones and degradation of raffinose and stachyose in 55℃ imbibition seeds. Based on these results, we recommend the use of 55℃ for soybean seed imbibition to increase the quality of soy-food products.
HostingRepository	PRIDE
AnnounceDate	2020-09-25
AnnouncementXML	Submission_2020-09-24_22:36:08.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Sun Tae Kim
SpeciesList	scientific name: Glycine max; NCBI TaxID: 3847;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2019-06-06 02:28:49	ID requested
⏵ 1	2020-09-24 22:36:09	announced

Min CW, Hyeon H, Gupta R, Park J, Cheon YE, Lee GH, Jang JW, Ryu HW, Lee BW, Park SU, Kim Y, Kim JK, Kim ST, Integrated Proteomics and Metabolomics Analysis Highlights Correlative Metabolite-Protein Networks in Soybean Seeds Subjected to Warm-Water Soaking. J Agric Food Chem, 68(30):8057-8067(2020) [pubmed]

submitter keyword: Shotgun Proteomics, Filter-Aided Sample Preparation, Basic pH Reversed Phase, MaxQuant, Perseus, Tandem Mass Tag, Soybean Seed, Imbibition, Isoflavone

Sun Tae Kim
contact affiliation	Department of Plant Bioscience, Life and industry Convergence Research Institute, Pusan National University, Miryang, 50463, Republic of Korea
contact email	stkim71@pusan.ac.kr
lab head
Sun Tae Kim
contact affiliation	Pusan National University
contact email	stkim5505@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD014152
     1. Label: PRIDE project
     2. Name: Integrated analyses of shotgun proteomics and metabolomics reveal its association with rise of secondary metabolites of warm water imbibition soybean seeds