ArticlePlant communications2023
Orthogroup and phylotranscriptomic analyses identify transcription factors involved in the plant cold response: A case study of Arabidopsis BBX29.
Article in Plant communications, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
- GmSNAT1 enhances cold tolerance in soybean by promoting melatonin biosynthesis and interacting with GmPSYR1.Plant physiology · 2026Article
- SlBBX19 modulates plant development and negatively regulates chilling tolerance in tomato.The Plant journal : for cell and molecular biology · 2026Article
- Physiological and transcriptomic analyses reveal HuBBX1 activating the transcription of COR genes to enhance pitaya cold tolerance.Plant cell reports · 2026Article
- Genome-wide identification of the histone gene family in foxtail millet (Setaria italica) and analysis of its expression pattern in response to abiotic stress.BMC plant biology · 2026Article
- PaMYBS3 balances cold tolerance and growth inhibition as a cold acclimation strategy in Plumbago auriculata L.BMC plant biology · 2026Article
- Integrating multiomic resources and gene expression studies to identify candidates for engineering climate-resilientFrontiers in plant science · 2026Review
- The CtrCBL1/CtrCIPK6 Complex of Citrus Phosphorylates CtrBBX32 to Regulate CtrSTP1-Mediated Sugar Accumulation and Cold Tolerance.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- ThePlants (Basel, Switzerland) · 2025Article
- Seasonal changes in daily temperature fluctuation control flowering through a time-dependent regulation ofResearch square · 2025Article
- Time-course transcriptome analysis reveals gene co-expression networks and transposable element responses to cold stress in cotton.BMC genomics · 2025Article
- Convergent evolution in angiosperms adapted to cold climates.Plant communications · 2025Review
- Unraveling the signaling pathways of plant cold stress: current insights and future directions.Frontiers in plant science · 2025Review
- Overexpression of StBBX14 Enhances Cold Tolerance in Potato.Plants (Basel, Switzerland) · 2024Article
- Identification and expression analysis of CCCH gene family and screening of key low temperature stress response gene CbuC3H24 and CbuC3H58 in Catalpa bungei.BMC genomics · 2024Article
- Functional Divergence in Orthologous Transcription Factors: Insights from AtCBF2/3/1 and OsDREB1C.Molecular biology and evolution · 2024Article
- Research progress on the physiological response and molecular mechanism of cold response in plants.Frontiers in plant science · 2024Review
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13 authors.
Funding
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Abstract
C-repeat binding factors (CBFs) are well-known transcription factors (TFs) that regulate plant cold acclimation. RNA sequencing (RNA-seq) data from diverse plant species provide opportunities to identify other TFs involved in the cold response. However, this task is challenging because gene gain and loss has led to an intertwined community of co-orthologs and in-paralogs between and within species. Using orthogroup (closely related homologs) analysis, we identified 10,549 orthogroups in five representative eudicots. A phylotranscriptomic analysis of cold-treated seedlings from eudicots identified 35 high-confidence conserved cold-responsive transcription factor orthogroups (CoCoFos). These 35 CoCoFos included the well-known cold-responsive regulators CBFs, HSFC1, ZAT6/10, and CZF1 among others. We used Arabidopsis BBX29 for experimental validation. Expression and genetic analyses showed that cold-induction of BBX29 is CBF- and abscisic acid-independent, and BBX29 is a negative regulator of cold tolerance. Integrative RNA-seq and Cleavage Under Targets and Tagmentation followed by sequencing analyses revealed that BBX29 represses a set of cold-induced TFs (ZAT12, PRR9, RVE1, MYB96, etc.). Altogether, our analysis yielded a library of eudicot CoCoFos and demonstrated that BBX29 is a negative regulator of cold tolerance in Arabidopsis.
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