High phosphate, lateral root, biol. Repl. 2 - SRA

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SRX2436933: High phosphate, lateral root, biol. Repl. 2
1 ILLUMINA (Illumina HiSeq 2000) run: 33.2M spots, 10G bases, 3.8Gb downloads

Design: For this transcriptome study seeds of the maize hybrid ZD958 were sown under low and high phosphate conditions in the field. At flowering stage, all mature axial roots with emerged lateral roots of two neighboring plants from the top 0-30 cm soil were vigorously washed with sterilized deionized water in order to remove all soil from the root surface. Subsequently the root system was separated into axial and lateral root samples with sterilized scissors. Separated axial and lateral root samples were gently dried with clean soft tissue and immediately frozen in liquid nitrogen and stored at -80 °C for downstream transcriptome analysis. For each of the two root types and two phosphate conditions frozen samples of the axial and lateral roots were ground in liquid nitrogen in four biological replicates resulting in a total of sixteen samples. Total RNA was isolated with the RNeasy Plus Universal Mini Kit (Qiagen, Venlo, Netherlands). RNA quality was assessed via agarose gel electrophoresis and a Bioanalyzer (Agilent RNA 6000 Nano Chip, Agilent Technologies, Santa Clara, USA). For all samples, a RIN 7.6-8.9 were detected. cDNA libraries for Illumina sequencing were constructed according to the protocol of the manufacturer (TruSeq RNA Sample Preparation, Illumina, San Diego CA, USA). For sequencing, each library was indexed by an Illumina TruSeq Adapter in which no adapter was used more than twice. Indexed libraries were loaded onto a flow cell following an incomplete block design with four pooled libraries per lane. Cluster preparation and pair-end read sequencing were performed according to the manufacturer’s instructions (HiSeq 2000, Illumina, San Diego CA, USA).

Submitted by: University of Bonn

Study: Transcriptomes of maize axial and lateral root types under diverse phosphate conditions

PRJNA357710 • SRP095256 • All experiments • All runs

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In this study RNA-sequencing was used to monitor gene expression changes in axial and lateral root types of maize (Zea mays L.) under diverse phosphate conditions to gain a better understanding of the mechanisms underlying phosphate associated developmental program of root types.

Sample: HP-LR-2

SAMN06159547 • SRS1871770 • All experiments • All runs

Organism: Zea mays

Library:

Instrument: Illumina HiSeq 2000

Strategy: RNA-Seq

Source: TRANSCRIPTOMIC

Selection: PCR

Layout: PAIRED

Spot descriptor:

1 forward101 reverse

Runs: 1 run, 33.2M spots, 10G bases, 3.8Gb

Run	# of Spots	# of Bases	Size	Published
SRR5121762	33,209,996	10G	3.8Gb	2017-12-16

ID:: 3536199

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