ArticleGenome biology and evolution2017
Diurnal Cycling Transcription Factors of Pineapple Revealed by Genome-Wide Annotation and Global Transcriptomic Analysis.
Article in Genome biology and evolution, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers.
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21 citing papers in PubMed, 37 citations in OpenAlex.
- Regulation of Crassulacean acid metabolism at the protein level in Kalanchoë laxiflora.Plant physiology · 2025Article
- Comparative transcriptome analysis reveals candidate genes for cold stress response and early flowering in pineapple.Scientific reports · 2023Article
- Comparative Analysis of Circadian Transcriptomes Reveals Circadian Characteristics betweenPlants (Basel, Switzerland) · 2023Article
- Diel dynamics of multi-omics in elkhorn fern provide new insights into weak CAM photosynthesis.Plant communications · 2023Article
- Identification of the global diurnal rhythmic transcripts, transcription factors and time-of-day specific cis elements in Chenopodium quinoa.BMC plant biology · 2023Article
- Genome-wide mapping of DNase I hypersensitive sites in pineapple leaves.Frontiers in genetics · 2023Article
- STOP1 and STOP1-like proteins, key transcription factors to cope with acid soil syndrome.Frontiers in plant science · 2023Review
- Core circadian clock and light signaling genes brought into genetic linkage across the green lineage.Plant physiology · 2022Article
- Ectopic Overexpression of Pineapple Transcription Factor AcWRKY31 Reduces Drought and Salt Tolerance in Rice andInternational journal of molecular sciences · 2022Article
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- Identification and expression profiling of genes involved in circadian clock regulation in red dragon fruit (Plant signaling & behavior · 2021Article
- Integrated analysis of DNA methylome and transcriptome reveals epigenetic regulation of CAM photosynthesis in pineapple.BMC plant biology · 2021Article
- Floral transcriptomes reveal gene networks in pineapple floral growth and fruit development.Communications biology · 2020Article
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- Interaction between the Circadian Clock and Regulators of Heat Stress Responses in Plants.Genes · 2020Review
- Analysis of MADS-box genes revealed modified flowering gene network and diurnal expression in pineapple.BMC genomics · 2020Article
- The role ofHorticulture research · 2020Review
- Identification and characterization of pineapple leaf lncRNAs in crassulacean acid metabolism (CAM) photosynthesis pathway.Scientific reports · 2019Article
- RNA-seq transcriptomic profiling of crassulacean acid metabolism pathway in Dendrobium catenatum.Scientific data · 2018Article
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Circadian clock provides fitness advantage by coordinating internal metabolic and physiological processes to external cyclic environments. Core clock components exhibit daily rhythmic changes in gene expression, and the majority of them are transcription factors (TFs) and transcription coregulators (TCs). We annotated 1,398 TFs from 67 TF families and 80 TCs from 20 TC families in pineapple, and analyzed their tissue-specific and diurnal expression patterns. Approximately 42% of TFs and 45% of TCs displayed diel rhythmic expression, including 177 TF/TCs cycling only in the nonphotosynthetic leaf tissue, 247 cycling only in the photosynthetic leaf tissue, and 201 cycling in both. We identified 68 TF/TCs whose cycling expression was tightly coupled between the photosynthetic and nonphotosynthetic leaf tissues. These TF/TCs likely coordinate key biological processes in pineapple as we demonstrated that this group is enriched in homologous genes that form the core circadian clock in Arabidopsis and includes a STOP1 homolog. Two lines of evidence support the important role of the STOP1 homolog in regulating CAM photosynthesis in pineapple. First, STOP1 responds to acidic pH and regulates a malate channel in multiple plant species. Second, the cycling expression pattern of the pineapple STOP1 and the diurnal pattern of malate accumulation in pineapple leaf are correlated. We further examined duplicate-gene retention and loss in major known circadian genes and refined their evolutionary relationships between pineapple and other plants. Significant variations in duplicate-gene retention and loss were observed for most clock genes in both monocots and dicots.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.