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Protein profile of commercial rice milks analyzed by label-free quantitative proteomics

ABSTRACT: Rice milk is a non-diary beverage made primarily from milled rice and water that has an opaque white or beige color and creamy texture resembling that of cow’s milk. Rice milk is generally considered hypoallergic and gluten-free hence, is an excellent choice for people with lactose intolerance and multiple allergies. Besides having anti-inflammatory properties, it is beneficial in lowering cholesterol and hypertenstion and is known to contain a range of bio-active components such as α-tocopherol, c-oryzano, ß-sitosterol, thiamin, niacin and pyridoxine. The consumption of rice milk is increasing worldwide for its nutritional value and health benefits, however, its protein composition after commercialization is not well known. This study compared the protein profile of 9 different commercial rice milks using a label-free quantitative proteomics approach.

INSTRUMENT(S): LTQ Orbitrap

ORGANISM(S): Oryza Sativa (rice)

SUBMITTER: Giorgio Arrigoni

LAB HEAD: Giorgio Arrigoni

PROVIDER: PXD043429 | Pride | 2024-12-06

REPOSITORIES: pride

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			Action	DRS
	Rice_Milk_MQ_Results_Proteins_Peptides.xlsx	Xlsx
	Riso_1_nuovo_Sep2019.raw	Raw
	Riso_2_vecchio_May2018.raw	Raw
	Riso_3_vecchio_May2018.raw	Raw
	Riso_4_vecchio_May2018.raw	Raw

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Project description:Endogenous small RNAs, including microRNAs (miRNAs) and short-interfering RNAs (siRNAs), function as posttranscriptional or transcriptional regulators in plants. miRNA function is essential for normal development and therefore likely to be important in the growth of the rice grain. To investigate the likely roles of miRNAs in rice grain development we carried out deep sequencing of the small RNA populations of rice grains. A total of 96,091 (including 23,867 reads from vegetative tissues) and 5,379,724 small RNA sequences that are longer than 17nt were generated. Approximately 94% of these small RNAs were 20-24nt in length. The majority of the small RNAs were singletons, indicating that rice genome has a very complex small RNA population, which is harder to be saturated. From these smal RNA sequences we found representatives of all 20 conserved plant miRNA families and evidence for changes in expression of miRNAs during rice grain development. Using an approach based on the presence of the miRNA and miRNA* sequences, we identified 51 novel, non-conserved rice miRNA families expressed in grains with functionally diverse predicted target genes. miRNA-guided cleavage was confirmed for a number of targets genes including ones with roles in sugar signalling and restoration of cytoplasmic male sterility. We identified a likely mirtron, indicating that plants can also use spliced introns as a source of miRNAs. Our sequencing results revealed four TAS3 loci; these all contain dual miR390 sites of which only the 3? site is cleaved. We also found a miRNA-like long hairpin generating phased 21nt small RNAs, strongly expressed in developing grains and show that these small RNAs act in trans to cleave target mRNAs. Keywords: high throughput pyrosequencing, small RNA, microRNA, grain development, rice Small RNA populations of shoots and roots of 7 days old seedlings, and 1-5 and 6-10 days after fertilization grains were determined using high throughput sequencing technology. The abundance of known miRNAs were compared based on the number of sequence reads. To give a whole picture of the rice small RNA populations and to reflect un-biasly the sequencing results, small RNAs that are longer than 17nt no matter whether or not they matched with the rice genome were included in this submitted dataset. The unmatched sequences may be derived from un-sequenced regions or sequencing errors.

Dataset Information

Protein profile of commercial rice milks analyzed by label-free quantitative proteomics

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