ArticleBMC genomics2015
Deep sequencing-based characterization of transcriptome of trifoliate orange (Poncirus trifoliata (L.) Raf.) in response to cold stress.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 30 papers.
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Who cites it
30 citing papers in PubMed, 67 citations in OpenAlex.
- Article
- The CtrCBL1/CtrCIPK6 Complex of Citrus Phosphorylates CtrBBX32 to Regulate CtrSTP1-Mediated Sugar Accumulation and Cold Tolerance.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
- PiERF1 regulates cold tolerance in Plumbago indica L. through ethylene signalling.Scientific reports · 2025Article
- The GRAS transcription factor PtrPAT1 ofHorticulture research · 2025Article
- The transcription factor TGA2 orchestrates salicylic acid signal to regulate cold-induced proline accumulation in Citrus.The Plant cell · 2024Article
- Guijing2501 (International journal of molecular sciences · 2023Article
- Comparative Transcriptomic Analysis of the Metabolism of Betalains and Flavonoids in Red Amaranth Hypocotyl under Blue Light and Dark Conditions.Molecules (Basel, Switzerland) · 2023Article
- Transcriptome Analysis Reveals Brassinolide Signaling Pathway Control of Foxtail Millet Seedling Starch and Sucrose Metabolism under Freezing Stress, with Implications for Growth and Development.International journal of molecular sciences · 2023Article
- Protease inhibitor ASP enhances freezing tolerance by inhibiting protein degradation in kumquat.Horticulture research · 2023Article
- Comparative transcriptome analysis reveals the regulatory mechanisms of two tropical water lilies in response to cold stress.BMC genomics · 2023Article
- Comparative transcriptomic analyses of citrus cold-resistant vs. sensitive rootstocks might suggest a relevant role of ABA signaling in triggering cold scion adaption.BMC plant biology · 2022Article
- Jasmonic acid pretreatment improves salt tolerance of wheat by regulating hormones biosynthesis and antioxidant capacity.Frontiers in plant science · 2022Article
- A De Novo Transcriptome Analysis Identifies Cold-Responsive Genes in the Seeds ofBioMed research international · 2022Article
- ERF9 of Poncirus trifoliata (L.) Raf. undergoes feedback regulation by ethylene and modulates cold tolerance via regulating a glutathione S-transferase U17 gene.Plant biotechnology journal · 2022Article
- High-Density Genetic Map Construction and Identification of QTLs Controlling Leaf Abscission Trait inInternational journal of molecular sciences · 2021Article
- A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus.The Plant journal : for cell and molecular biology · 2020Article
- Physiological and transcriptome analysis of Poa pratensis var. anceps cv. Qinghai in response to cold stress.BMC plant biology · 2020Article
- Mikan Genome Database (MiGD): integrated database of genome annotation, genomic diversity, and CAPS marker information for mandarin molecular breeding.Breeding science · 2020Article
- Transcriptomic analyses of Pinus koraiensis under different cold stresses.BMC genomics · 2020Article
- Comparative Transcriptome Analyses Revealed Conserved and Novel Responses to Cold and Freezing Stress inG3 (Bethesda, Md.) · 2019Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundTrifoliate orange (Poncirus trifoliata (L.) Raf.) is extremely cold hardy after a full acclimation; however the underlying molecular mechanisms underlying this economically valuable trait remain poorly understood. In this study, global transcriptome profiles of trifoliate orange under cold conditions (4 °C) over a time course were generated by high-throughput sequencing.
resultsMore than 68 million high-quality reads were produced and assembled into a non-redundant data of 77,292 unigenes with an average length of 1112 bp (N50 = 1778 bp). Of these, 23,846 had significant sequence similarity to known genes and these were assigned to 61 gene ontology (GO) categories and 25 clusters of orthologous groups (COG) involved in 128 KEGG pathways. Sequences derived from cold-treated and control plants were mapped to the assembled transcriptome, resulting in the identification of 5549 differentially expressed genes (DEGs). These comprised 600 (462 up-regulated, 138 down-regulated), 2346 (1631 up-regulated, 715 down-regulated), and 5177 (2702 up-regulated, 2475 down-regulated) genes from the cold-treated samples at 6, 24 and 72 h, respectively. The accuracy of the RNA-seq derived transcript expression data was validated by analyzing the expression patterns of 17 DEGs by qPCR. Plant hormone signal transduction, plant-pathogen interaction, and secondary metabolism were the most significantly enriched GO categories amongst in the DEGs. A total of 60 transcription factors were shown to be cold responsive. In addition, a number of genes involved in the catabolism and signaling of hormones, such as abscisic acid, ethylene and gibberellin, were affected by the cold stress. Meanwhile, levels of putrescine progressively increased under cold, which was consistent with up-regulation of an arginine decarboxylase gene.
conclusionsThis dataset provides valuable information regarding the trifoliate orange transcriptome changes in response to cold stress and may help guide future identification and functional analysis of genes that are importnatn for enhancing cold hardiness.
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