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SRX158000: GSM957188: tassel2 and 3-ChIP; Zea mays; ChIP-Seq
2 ILLUMINA (Illumina Genome Analyzer II) runs: 368,268 spots, 13.3M bases, 10.6Mb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: Zea mays Epigenomics
show Abstracthide Abstract
KNOTTED1(KN1)-like homeobox (KNOX) transcription factors function in plant meristems, self-renewing structures consisting of stem cells and their immediate daughters. Despite their importance for plant development, the genomic network targeted by KNOX proteins is poorly understood. Using ChIP-seq, we defined the KN1 cistrome in maize inflorescences and found that KN1 binds to several thousand loci. To understand how these binding occupancies correlate with changes in transcriptional regulation, we performed RNA-seq on immature ears and tassels, and compared expression profiles between normal and loss-of-function kn1 plants, in addition to immature leaves from normal and gain-of-function Kn1 plants. We found that 643 of the KN1 targets were modulated in one or multiple tissues, with a strong enrichment for transcription factors (including other homeobox genes) and genes participating in several hormonal pathways, most significantly auxin, implicating KN1 at the crossroads of plant hormone signaling. The loss-of-function kn1 phenotype is reminiscent of auxin mutants and kn1 mis-expression in leaves correlates with increased auxin signaling. Our results demonstrate that KN1 plays a key role in orchestrating the upper levels of a hierarchical gene regulatory network that impacts plant meristem identity and function. Overall design: ChIP-seq was performed using ear primordia and tassel primordia. Input DNA from each sample was used as a normalization control
Sample: tassel2 and 3-ChIP
SAMN01085991 • SRS348709 • All experiments • All runs
Organism: Zea mays
Library:
Name: GSM957188: tassel2 and 3-ChIP
Instrument: Illumina Genome Analyzer II
Strategy: ChIP-Seq
Source: GENOMIC
Selection: ChIP
Layout: SINGLE
Spot descriptor:
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Experiment attributes:
GEO Accession: GSM957188
Links:
External link:
Runs: 2 runs, 368,268 spots, 13.3M bases, 10.6Mb
Run# of Spots# of BasesSizePublished
SRR518975226,7308.2M6.6Mb2012-09-05
SRR518976141,5385.1M4Mb2012-09-05

ID:
199624

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