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Transcript profiling in LTR mutants

ABSTRACT: STN7-dependent phosphorylation of an as yet unknown thylakoid protein triggers the signaling events associated with the long-term acclimatory response (LTR). The LTR-associated signaling events regulate the expression of photosynthesis-related genes on the post-transcriptional level (nucleus), as indicated by transcript profiling in LTR mutants.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE15939 | GEO | 2009/06/01

SECONDARY ACCESSION(S): PRJNA116987

REPOSITORIES: GEO

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Transcript profiling in LTR mutants

Project description:STN7-dependent phosphorylation of an as yet unknown thylakoid protein triggers the signaling events associated with the long-term acclimatory response (LTR). The LTR-associated signaling events regulate the expression of photosynthesis-related genes on the post-transcriptional level (nucleus), as indicated by transcript profiling in LTR mutants. 5 µg of total RNA of two to three biological replicates of the different pools (10 plants each pool) of rosette leaves of 4-week-old Col-0, Wassilewskija, stn7-1, psad1-1, stn7-1 psad1-1, psae1-3 and stn7-1 psae1-3 plants was processed and hybridized to a GeneChip Arabidopsis ATH1 Genome Array using the One-Cycle Target Labeling and Control Reagents according to the manufacturer’s instructions (Affymetrix); psad1 (2 replicates) psad1 stn7 (3 replicates) Col-0 (3 replicates) Ws (2 replicates) psae (2 replicates) psae stn7 (2 replicates) stn7 (3 replicates)

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Transcription profiling of Arabidopsis wild type and TROL (AT4G01050) knock-out plants

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Project description:LTR retrotransposons are repetitive DNA elements comprising ~10% of the human genome. However, Whether or how the LTR lncRNAs serve biological functions is largely unknown. Here we show that in primary human erythroblasts, lncRNAs transcribed from the LTR retrotransposons of ERV-9 human endogenous retrovirus regulated transcription of key erythroid genes. Global knock-down of ERV-LTR lncRNAs was performed in the in vitro erythropoiesis system of human CD34 cells, and genome wide RNA-seq was carried out to detect the effect on transcription.

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