Abstract
Pigmented rice is enriched with antioxidants, macro- and micronutrients. A comprehensive investigation of the gene expression patterns among the pigmented rice varieties would help to understand the cellular mechanism and biological processes of rice grain pigmentation. Hence, we performed RNA sequencing and analysis on the whole grain of dehusked mature seeds of selected six Malaysian rice varieties with varying grain pigmentations. These varieties were black rice (BALI and Pulut Hitam 9), red rice (MRM16 and MRQ100) and white rice (MR297 and MRQ76). Illumina HiSeq™ 4000 sequencer was used to generate total raw nucleotides of approximately 53 Gb in size. From 353,937,212 total paired-end raw reads, 340,131,496 total clean reads were obtained. The raw reads were deposited into European Nucleotide Archive (ENA) database and can be accessed via accession number PRJEB34340. This dataset allows us to identify and profile all expressed genes with functions related to nutritional traits (i.e. antioxidants, folate and amylose content) and quality trait (i.e. aroma) across both pigmented and non-pigmented rice varieties. In addition, the transcriptome data obtained will be valuable for discovery of potential gene markers and functional SNPs related to functional traits to assist in rice breeding programme.
Highlights
Rabiatul-Adawiah Zainal-Abidin a,b, Zamri Zainal b,c, Zeti-Azura Mohamed-Hussein b,c, Norliza Abu-Bakar a, Mohd Shahril Firdaus Ab Razak a, Sanimah Simoh a, Yun Shin Sew a,∗
The raw reads were deposited into European Nucleotide Archive (ENA) database and can be accessed via accession number PRJEB34340
This dataset allows us to identify and profile all expressed genes with functions related to nutritional traits and quality trait across both pigmented and non-pigmented rice varieties
Summary
Agricultural and Biological Sciences Plant transcriptomics Table, text file Illumina HiSeqTM 4000 sequencing platform Raw (FASTQ) Mature rice seeds of 6 rice varieties with varying grain pigmentations namely black rice (BALI and Pulut Hitam 9), red rice (MRM16 and MRQ100) and white rice (MR297 and MRQ76) were collected from MARDI rice field plots. RNAseq dataset was collected from paired-end sequencing of rice cDNA libraries using Illumina HiSeq4000TM platform with 2 × 150 bp reads. City/Town/Region: Serdang, Selangor Country: Malaysia Latitude and longitude (and GPS coordinates) for collected samples/data:] 2.9885871 N 101.697955417 E The raw paired-end transcriptome sequence reads from BALI, PH9, MRM16, MRQ100, MR297 and MRQ76 were deposited in the ENA database (www.ebi.ac.uk/ena) under the accession number PRJEB34340. This dataset allows us to discover functional genes related to rice grain pigmentation, nutritional and aromatic properties. 8085,206,100 9475,027,200 9171,495,600 7199,944,800 10,972,773,0 0 0 8186,134,100 53,090,580,800 ∼53 Gb
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