GEO 数据集

主题由标题与摘要自动归类；样本量为数据集标注之和，SuperSeries 可能与其 SubSeries 重复计算。

• A PolyQ Repeat in PIF7 acts as a tunable thermosensor in Arabidopsis [RNA-seq]
  GSE318452Arabidopsis thaliana3 个样本2026-10-31

  Plant growth is a highly plastic response requiring the integration of endogenous and environmental signals. Organisms from different climates must adapt to different temperature ranges, but the mechanisms by which proteins can alter their temperature response profile are not well understood. Central regulators of growth are the PHYTOCHROME INTERACTING FACTOR (PIF) family of bHLH transcription factors that activate the transcription of genes encoding auxin biosynthesis enzymes in response to temperature (thermomorphogenesis). Enhanced auxin levels direct cell elongation and growth. PIF7 is necessary for thermomorphogenesis, but it is not known how temperature activates PIF7. We have identified a critical role for a polyglutamine (polyQ) sequence in PIF7 that is necessary for PIF7 dimerization and DNA binding in response to temperature. We show that higher temperatures directly increase dimerization of PIF7 via the polyQ and thermal responsiveness is proportional to the polyQ length. We are able to use this thermosensory module to create synthetic transcription factors and confer temperature dependency on independent developmental decisions such as the specification of stomata. Extensive variation in the polyQ repeat length in different species suggests a mechanism to tune responsiveness to climate.
• A PolyQ Repeat in PIF7 acts as a tunable thermosensor in Arabidopsis
  GSE318393Arabidopsis thaliana4 个样本2026-10-31

  Plant growth is a highly plastic response requiring the integration of endogenous and environmental signals. Organisms from different climates must adapt to different temperature ranges, but the mechanisms by which proteins can alter their temperature response profile are not well understood. Central regulators of growth are the PHYTOCHROME INTERACTING FACTOR (PIF) family of bHLH transcription factors that activate the transcription of genes encoding auxin biosynthesis enzymes in response to temperature (thermomorphogenesis). Enhanced auxin levels direct cell elongation and growth. PIF7 is necessary for thermomorphogenesis, but it is not known how temperature activates PIF7. We have identified a critical role for a polyglutamine (polyQ) sequence in PIF7 that is necessary for PIF7 dimerization and DNA binding in response to temperature. We show that higher temperatures directly increase dimerization of PIF7 via the polyQ and thermal responsiveness is proportional to the polyQ length. We are able to use this thermosensory module to create synthetic transcription factors and confer temperature dependency on independent developmental decisions such as the specification of stomata. Extensive variation in the polyQ repeat length in different species suggests a mechanism to tune responsiveness to climate.
• Determination of transcriptomic changes associated with salt stress in ethanol-treated control plants and TRB3-SRDX mutants.
  GSE302039Arabidopsis thaliana32 个样本2026-10-31

  Soil salinization severely threatens crop productivity. We previously revealed that ethanol treatment enhances abiotic stress tolerance, including salt stress, in plants. Ethanol up-regulated the transcription and activity of ascorbate peroxidase (APX1/2), key ROS detoxifing enzymes, thereby reducing ROS accumulation and improving salt stress tolerance. However, the transcriptional regulation underlying ethanol-mediated stress tolerance remains unclear. In this study, we identified Telomere repeat binding (TRB) proteins as transcription factors involved in ethanol-mediated salt stress tolerance. Transcriptome analysis revealed that copper/zinc superoxide dismutase (CSD) genes were down-regulated in TRB3-SRDX mutant. We further demonstrated that SOD activity was reduced in trb1/2/3 mutantm and csd mutant showed salt stress sensitivity even presence with ethanol, indicating that CSD are essential for ethanol-mediated salt stress tolerance. ChIP assays confirmed that TRB3 directly binds to CSD genes. Furthermore, ethanol treatment promoted H4K5 acetylation at CSD loci. These findings suggests that ethanol metabolism contributes to histone acetylation, and TRB3 facilitates its deposition at CSD loci, leading to enhanced CSD activation and improved salt stress tolerance.
• VIPP1/pTAC4 indirectly supports PEP accumulation and RpoB occupancy on chloroplast DNA
  GSE339035Arabidopsis thaliana108 个样本2026-10-27

  Chloroplast DNA together with proteins and RNAs form nucleoids, where genomes are stored, replicated and expressed. VIPP1/pTAC4 is a conserved membrane-associated protein previously identified in chloroplast nucleoid fractions, suggesting a possible role of this protein in linking plastid DNA, thylakoid membranes, and transcription. Here, we used plastid ChIP-seq to test whether VIPP1/pTAC4 directly affects plastid-encoded RNA polymerase (PEP) association with chloroplast DNA. Loss of VIPP1/pTAC4 caused a genome-wide reduction in RpoB occupancy, but we found no evidence of VIPP1/pTAC4 binding to chloroplast DNA. Likewise, the VIPP1-interacting protein VIA1 did not detectably bind chloroplast DNA, but was not required for normal RpoB occupancy. Comparison with other non-photosynthetic mutants and immunoblot analyses indicated that reduced PEP occupancy in ptac4 is likely an indirect consequence of impaired chloroplast development and reduced PEP core subunit accumulation. These findings challenge a direct role of VIPP1/pTAC4 in the chloroplast nucleoid and highlight the pleiotropic effects of chloroplast biogenesis defects on plastid transcription.
• cinedathodes experiment-Cinedathodes experiment.
  GSE308406Arabidopsis thaliana42 个样本2026-10-26

  2023_03_qs_cinedathodes-cinedathodes experiment-Transcriptomic Profiling of Differentiating Hydathodes after LAM (laser microdissection)-Transcriptome of hydathode development (H samples) kinetics compared to leaf mesophyll (C control samples) using the first leaf of Arabidopsis thaliana, 5 to 11 days after germination.