The lincRNA XH123 is involved in cotton cold-stress regulation

Cao, Zijian; Zhao, Ting; Wang, Luyao; jinsoo, Han; Chen, Jinwen; Hao, Yupeng; Guan, Xueying

doi:10.1007/s11103-021-01169-1

Cited by 25 publications

(10 citation statements)

References 45 publications

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“…4C). LncRNAs have been shown to be involved in the response to cold stress [30][31][32]. We also identified 62 and 44 lncRNAs that were upand down-regulated in both lines under cold stress, and the target genes of up-regulated lncRNAs were mainly involved in protein phosphorylation (Fig.…”

Section: Discussionmentioning

confidence: 82%

Full-length transcriptome analysis of maize root tips reveals the molecular mechanism of cold stress during the seedling stage

Chen

et al. 2022

BMC Plant Biol

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Background As maize originated in tropical or subtropical zones, most maize germplasm is extremely sensitive to low temperatures during the seedling stage. Clarifying the molecular mechanism of cold acclimation would facilitate the breeding of cold tolerant maize varieties, which is one of the major sustainability factors for crop production. To meet this goal, we investigated two maize inbred lines with contrasting levels of cold tolerance at the seedling stage (IL85, a cold tolerant line; B73, a cold sensitive line), and performed full-length transcriptome sequencing on the root tips of seedlings before and after 24 h of cold treatment. Results We identified 152,263 transcripts, including 20,993 novel transcripts, and determined per-transcript expression levels. A total of 1,475 transcripts were specifically up-regulated in the cold tolerant line IL85 under cold stress. GO enrichment analysis revealed that 25 transcripts were involved in reactive oxygen species (ROS) metabolic processes and 15 transcripts were related to the response to heat. Eight genes showed specific differential alternative splicing (DAS) in IL85 under cold stress, and were mainly involved in amine metabolism. A total of 1,111 lncRNAs were further identified, 62 of which were up-regulated in IL85 or B73 under cold stress, and their corresponding target genes were enriched in protein phosphorylation. Conclusions These results provide new insights into the molecular mechanism of cold acclimation during the seedling stage in maize, and will facilitate the development of cultivars with improved cold stress tolerance.

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Section: Discussionmentioning

confidence: 82%

Full-length transcriptome analysis of maize root tips reveals the molecular mechanism of cold stress during the seedling stage

Chen

et al. 2022

BMC Plant Biol

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“…In addition, the intergenic lncRNA COLD‐INDUCED lncRNA 1 is a positive regulator of Arabidopsis freezing tolerance (Liu, Liu, et al, 2022). Several other lncRNAs have recently been associated with cold‐stress responses both in the Brassica family and in different plant species, including tomato, banana, cotton and casava (Cao et al, 2021; Li et al, 2022; Li, Yu, et al, 2017; Liu, Cheng, et al, 2018; Moison et al, 2021; Wang et al, 2018; Waseem et al, 2022). These findings suggest that the regulation of plant cold responses by lncRNAs might be a widely conserved mechanism.…”

Section: Molecular Mechanisms Underlying Cold Stress and Developmenta...mentioning

confidence: 99%

Is winter coming? Impact of the changing climate on plant responses to cold temperature

Larran

Pajoro

Qüesta

2023

Plant Cell & Environment

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Climate change is causing alterations in annual temperature regimes worldwide. Important aspects of this include the reduction of winter chilling temperatures as well as the occurrence of unpredicted frosts, both significantly affecting plant growth and yields. Recent studies advanced the knowledge of the mechanisms underlying cold responses and tolerance in the model plant Arabidopsis thaliana. However, how these cold‐responsive pathways will readjust to ongoing seasonal temperature variation caused by global warming remains an open question. In this review, we highlight the plant developmental programmes that depend on cold temperature. We focus on the molecular mechanisms that plants have evolved to adjust their development and stress responses upon exposure to cold. Covering both genetic and epigenetic aspects, we present the latest insights into how alternative splicing, noncoding RNAs and the formation of biomolecular condensates play key roles in the regulation of cold responses. We conclude by commenting on attractive targets to accelerate the breeding of increased cold tolerance, bringing up biotechnological tools that might assist in overcoming current limitations. Our aim is to guide the reflection on the current agricultural challenges imposed by a changing climate and to provide useful information for improving plant resilience to unpredictable cold regimes.

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“…Unlike the lncRNAs in mammals that have gained extensive attention in recent years, only a few studies have reported the roles of lncRNAs in plants. Recently, some studies found that lncRNAs play important regulatory roles in response to biotic and abiotic stresses in plants and crop models, including Oryza sativa [ 11 ], Gossypium hirsutum [ 12 ], and Arabidopsis thaliana [ 13 ]. In rice, the lncRNA TCONS_00021861 was shown to inhibit miR528-3p -mediated cleavage of YUCCA7 as a competitor for YUCCA7 , which increased the resistance of the plants to drought stress [ 14 ].…”

Section: Introductionmentioning

confidence: 99%

Combined lncRNA and mRNA Expression Profiles Identified the lncRNA–miRNA–mRNA Modules Regulating the Cold Stress Response in Ammopiptanthus nanus

Zhu

Dong

Jie

et al. 2023

IJMS

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Long non-coding RNAs (lncRNAs) have been shown to play critical regulatory roles in plants. Ammopiptanthus nanus can survive under severe low-temperature stress, and lncRNAs may play crucial roles in the gene regulation network underlying the cold stress response in A. nanus. To investigate the roles of lncRNAs in the cold stress response of A. nanus, a combined lncRNA and mRNA expression profiling under cold stress was conducted. Up to 4890 novel lncRNAs were identified in A. nanus and 1322 of them were differentially expressed under cold stress, including 543 up-regulated and 779 down-regulated lncRNAs. A total of 421 lncRNAs were found to participate in the cold stress response by forming lncRNA–mRNA modules and regulating the genes encoding the stress-related transcription factors and enzymes in a cis-acting manner. We found that 31 lncRNAs acting as miRNA precursors and 8 lncRNAs acting as endogenous competitive targets of miRNAs participated in the cold stress response by forming lncRNA–miRNA–mRNA regulatory modules. In particular, a cold stress-responsive lncRNA, TCONS00065739, which was experimentally proven to be an endogenous competitive target of miR530, contributed to the cold stress adaptation by regulating TZP in A. nanus. These results provide new data for understanding the biological roles of lncRNAs in response to cold stress in plants.

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The lincRNA XH123 is involved in cotton cold-stress regulation

Cited by 25 publications

References 45 publications

Full-length transcriptome analysis of maize root tips reveals the molecular mechanism of cold stress during the seedling stage

Full-length transcriptome analysis of maize root tips reveals the molecular mechanism of cold stress during the seedling stage

Is winter coming? Impact of the changing climate on plant responses to cold temperature

Combined lncRNA and mRNA Expression Profiles Identified the lncRNA–miRNA–mRNA Modules Regulating the Cold Stress Response in Ammopiptanthus nanus

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