Temporal regulation of alternative splicing events in rice memory under drought stress

Yang, Hong; Li, Ping; Jin, Guihua; Gui, Daping; Liu, Li; Zhang, Chengjun

doi:10.1016/j.pld.2020.11.004

Cited by 15 publications

(8 citation statements)

References 81 publications

(107 reference statements)

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“…Alternative splicing (AS) is an important post‐transcriptional regulation strategy in eukaryotes that can increase proteome diversity and regulate mRNA levels (Wang et al, 2017; Xun et al, 2021). Multiple exon genes can be alternatively spliced to produce two or more transcripts, thereby increasing plant adaptation to different tissue development (Patil and Nicander, 2013) and environmental factors, including high temperature (Kim et al, 2016) and drought (Tian et al, 2019; Yang et al, 2022). Many flowering‐related genes regulate flowering by AS.…”

Section: Introductionmentioning

confidence: 99%

A bZIP transcription factor (CiFD) regulates drought‐ and low‐temperature‐induced flowering by alternative splicing in citrus

Zhang

et al. 2022

JIPB

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Drought and low temperature are two key environmental factors that induce adult citrus flowering. However, the underlying regulation mechanism is poorly understood. The bZIP transcription factor FD is a key component of the florigen activation complex (FAC) which is composed of FLOWERING LOCUS T (FT), FD, and 14-3-3 proteins. In this study, isolation and characterization of CiFD in citrus found that there was alternative splicing (AS) of CiFD, forming two different proteins (CiFDα and CiFDβ). Further investigation found that their expression patterns were similar in different tissues of citrus, but the subcellular localization and transcriptional activity were different. Overexpression of the CiFD DNA sequence (CiFD-DNA), CiFDα, or CiFDβ in tobacco and citrus showed early flowering, and CiFD-DNA transgenic plants were the earliest, followed by CiFDβ and CiFDα. Interestingly, CiFDα and CiFDβ were induced by low temperature and drought, respectively. Further analysis showed that CiFDα can form a FAC complex with CiFT, Ci14-3-3, and then bind to the citrus APETALA1 (CiAP1) promoter and promote its expression. However, CiFDβ can directly bind to the CiAP1 promoter independently of CiFT and Ci14-3-3. These results showed that CiFDβ can form a more direct and simplified pathway that is independent of the FAC complex to regulate drought-induced flowering through AS. In addition, a bHLH transcription factor (CibHLH96) binds to CiFD promoter and promotes the expression of CiFD under drought condition. Transgenic analysis found that CibHLH96 can promote flowering in transgenic tobacco. These results suggest that CiFD is involved in drought-and low-temperature-induced citrus flowering through different regulatory patterns.

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Section: Introductionmentioning

confidence: 99%

A bZIP transcription factor (CiFD) regulates drought‐ and low‐temperature‐induced flowering by alternative splicing in citrus

Zhang

et al. 2022

JIPB

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“…Auler et al, 2021 [32] Solanum tuberosum (Potato) (JSY, CIP 706205) One-month old plant Decrease of 10 to 20% of SWC One day after priming Decrease of 10 to 20% of SWC Chen et al, 2020 [33] Arabidopsis thaliana Three-weeks old plant Air drying: 2 h at 22 • C 22 h after priming Air drying: 2 h at 22 • C 22 h after second stress Air drying: 2 h at 22 • C Ding et al, 2012 [25] Zea mays (Mays) (B73) Two-weeks old seedling Air drying: 2 h at 22 • C 22 h after priming Air drying: 2 h at 22 • C Ding et al, 2014 [26] Coffea canephora (Cofee) (clone 120 and 109) 9 month old plants 25% FC during 14 d ≈ 10 days after priming 25% FC, during 14 d drying: 90 min at 22 • C Liu et al, 2014 [39] • C Yang et al, 2020[45] …”

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confidence: 99%

Drought Stress Memory at the Plant Cycle Level: A Review

Jacques

Salon

Barnard

et al. 2021

Plants

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Plants are sessile organisms whose survival depends on their strategy to cope with dynamic, stressful conditions. It is urgent to improve the ability of crops to adapt to recurrent stresses in order to alleviate the negative impacts on their productivity. Although our knowledge of plant adaptation to drought has been extensively enhanced during the last decades, recent studies have tackled plant responses to recurrent stresses. The present review synthesizes the major findings from studies addressing plant responses to multiple drought events, and demonstrates the ability of plants to memorize drought stress. Stress memory is described as a priming effect allowing a different response to a reiterated stress when compared to a single stress event. Here, by specifically focusing on water stress memory at the plant cycle level, we describe the different underlying processes at the molecular, physiological and morphological levels in crops as well as in the model species Arabidopsis thaliana. Moreover, a conceptual analysis framework is proposed to study drought stress memory. Finally, the essential role of interactions between plants and soil microorganisms is emphasized during reiterated stresses because their plasticity can play a key role in supporting overall plant resilience.

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“…Apart from unique variants and SVs identified in the flowering genes such as Hd3a, RFT1, OsMADS14, OsMADS15, and OsMADS56 (Tables S8 and S9), there were changes in the splicing events (Tables 2 and S7), which could have contributed to the differential expression pattern between PSRR-1 and Cypress. Differential AS events in rice were reported as coping mechanisms under adverse environments [41][42][43], and specifically, the flowering time in coconut was influenced by AS of the FT gene [44].…”

Section: Discussionmentioning

confidence: 99%

Whole-Genome Sequencing and RNA-Seq Reveal Differences in Genetic Mechanism for Flowering Response between Weedy Rice and Cultivated Rice

Garcia

Coronejo

Concepcion

et al. 2022

IJMS

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Flowering is a key agronomic trait that influences adaptation and productivity. Previous studies have indicated the genetic complexity associated with the flowering response in a photoinsensitive weedy rice accession PSRR-1 despite the presence of a photosensitive allele of a key flowering gene Hd1. In this study, we used whole-genome and RNA sequencing data from both cultivated and weedy rice to add further insights. The de novo assembly of unaligned sequences predicted 225 genes, in which 45 were specific to PSRR-1, including two genes associated with flowering. Comparison of the variants in PSRR-1 with the 3K rice genome (RG) dataset identified unique variants within the heading date QTLs. Analyses of the RNA-Seq result under both short-day (SD) and long-day (LD) conditions revealed that many differentially expressed genes (DEGs) colocalized with the flowering QTLs, and some DEGs such as Hd1, OsMADS56, Hd3a, and RFT1 had unique variants in PSRR-1. Ehd1, Hd1, OsMADS15, and OsMADS56 showed different alternate splicing (AS) events between genotypes and day length conditions. OsMADS56 was expressed in PSRR-1 but not in Cypress under both LD and SD conditions. Based on variations in both sequence and expression, the unique flowering response in PSRR-1 may be due to the high-impact variants of flowering genes, and OsMADS56 is proposed as a key regulator for its day-neutral flowering response.

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Temporal regulation of alternative splicing events in rice memory under drought stress

Cited by 15 publications

References 81 publications

A bZIP transcription factor (CiFD) regulates drought‐ and low‐temperature‐induced flowering by alternative splicing in citrus

A bZIP transcription factor (CiFD) regulates drought‐ and low‐temperature‐induced flowering by alternative splicing in citrus

Drought Stress Memory at the Plant Cycle Level: A Review

Whole-Genome Sequencing and RNA-Seq Reveal Differences in Genetic Mechanism for Flowering Response between Weedy Rice and Cultivated Rice

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