Drought-regulated MicroRNAs in Rice 8 - SRA

SRX1092626: Drought-regulated MicroRNAs in Rice 8
1 ILLUMINA (Illumina HiSeq 2500) run: 20.4M spots, 997.2M bases, 612.7Mb downloads

Design: Three rice varieties with different drought tolerance: Vandana (drought-tolerant; ancestry is 50% tropical japonica and 50% aus), Aday Sel (drought-tolerant; aus) and IR64 (drought susceptible; indica) were used. They were planted in potted soil in greenhouse subjected to natural solar radiation. All plants were grown under well-water conditions up to three weeks following emergence. For each rice variety, two experimental conditions were set up, which were drought and control. Drought treatment was given to three week old seedlings by stopping the watering according to the following dry-down protocol in glasshouse. The afternoon before drought treatment, all pots were fully watered (saturation). After draining overnight, the pots were enclosed in white plastic bags, around the stem to prevent direct soil-evaporation, and to avoid a rapid imposition of drought stress and homogenize the development of drought stress across replicated plants. A small tube was inserted in the plastic bags for re-watering pots. The pots were weighed after enclosing in plastic bags and this value was recorded as the initial target pot weight. Thereafter, the pots were weighed every morning at 8 AM and re-watering was only given to control plants to maintain their initial target pot weight. Drought treatment lasted until the leaves of the stressed plants started to roll (approximately 21 days). At that point, leaf and stem samples from each group were collected, snap frozen and kept in -80˚C until use. Taking account of the three experimental factors: the rice variety, experimental condition and plant tissue, a total of twelve small RNA libraries were constructed. Total RNA of the samples was extracted by using mirVana miRNA Isolation Kit (Invitrogen) according to the manufacturer’s protocol. Small RNA libraries were constructed and Solexa sequencing was performed by Beijing Genomics Institute (BGI).

Submitted by: Universiti Kebangsaan Malaysia

Study: Oryza sativa Raw sequence reads

PRJNA289554 • SRP060717 • All experiments • All runs

show Abstracthide Abstract

Hence here we chose to analyze and compare the differential expression profiles of microRNAs in three drought treated rice varieties: Vandana (drought-tolerant), Aday Sel (drought-tolerant) and IR64 (drought-susceptible) in greenhouse conditions via high-throughput sequencing.

Sample:

SAMN03855779 • SRS988199 • All experiments • All runs

Organism: Oryza sativa

Library:

Name: At-stem

Instrument: Illumina HiSeq 2500

Strategy: miRNA-Seq

Source: OTHER

Selection: other

Layout: SINGLE

Spot descriptor:

1 forward

Runs: 1 run, 20.4M spots, 997.2M bases, 612.7Mb

Run	# of Spots	# of Bases	Size	Published
SRR2099436	20,350,527	997.2M	612.7Mb	2015-07-16

ID:: 1598242

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