Identification of lncRNAs and their regulatory relationships with target genes and corresponding miRNAs in melon response to powdery mildew fungi

Zhou, Xiaoxu; Cui, Jun; Cui, Haonan; Jiang, Ning; Hou, Xinxin; Liu, Shi; Gao, Peng; Luan, Yushi; Meng, Jun; Luan, Feishi

doi:10.1016/j.gene.2020.144403

Cited by 20 publications

(14 citation statements)

References 69 publications

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“…It is well known that cytoplasmic lncRNAs could function as ceRNAs to be a sponge of miRNAs and thereby mediate the expression of miRNA targets at a posttranscriptional level [ 18 , 19 ]. A previous study has identified that LINC00514 was mainly located in the cytoplasm [ 20 ].…”

Section: Resultsmentioning

confidence: 99%

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The AKT/mTOR Signaling Pathway Was Mediated through the LINC00514/miR-28-5p/TRIM44 Axis

et al. 2022

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Objective. Increasing evidence has demonstrated the essential role of lncRNAs in tumorigenesis. LINC00514, a novel lncRNA, was reported to be a promoter of malignant behaviors in cancer, but in pituitary adenoma (PA), its biological functions remain unclear. Methods. Herein, we measured LINC00514 expression by RT-qPCR analysis which indicated a significant elevation of LINC00514 expression in human PA tissues. Moreover, the effect of LINC00514 silencing on PA cell proliferation and invasion was, respectively, examined by CCK-8 and transwell assays. Results. The results showed that LINC00514 deletion markedly inhibited PA cell proliferation and invasion. Besides, investigation on the molecular mechanisms showed that LINC00514 might function as an endogenous RNA (ceRNA) to sponge miR-28-5p and TRIM44 was mediated by LINC00514-derived miR-28-5p in PA cells. Furthermore, the AKT/mTOR signaling pathway was mediated through the LINC00514/miR-28-5p/TRIM44 axis. Conclusion. To sum up, we suggested LINC00514 as a novel therapeutic target for PA treatment.

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Section: Resultsmentioning

confidence: 99%

“…By acting as ceRNAs, lncRNAs exert their biological functions to affect cancer development [ 18 , 19 ]. A previous study indicated the cytoplasmic location of LNC00514 in a subcellular fractionation assay [ 20 ], indicating the ability of LINC00514 to function in PA progression as a ceRNA.…”

Section: Discussionmentioning

confidence: 99%

The AKT/mTOR Signaling Pathway Was Mediated through the LINC00514/miR-28-5p/TRIM44 Axis

et al. 2022

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“…Moreover, the expression changes tended to be maintained during the infection [ 76 ]. There are also several non-coding RNAs (long non-coding RNAs (lncRNAs) and circular RNAs (circRNAs)) [ 77 , 78 ] that have been described as being related to Px resistance, promoting the expression of genes involved in defense processes. Therefore, the resistance to Px in melons comprises many defense-related mechanisms.…”

Section: Discussionmentioning

confidence: 99%

Advanced Genetic Studies on Powdery Mildew Resistance in TGR-1551

López-Martín

Pérez‐de‐Castro

Picó

2022

IJMS

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Cucurbits powdery mildew (CPM) is one of the main limiting factors of melon cultivation worldwide. Resistance to races 1, 2, and 5 has been reported in the African accession TGR-1551, whose resistance is controlled by a dominant–recessive epistasis. The dominant and recessive quantitative trail loci (QTL) have previously been located in chromosomes 5 and 12, respectively. We used several densely genotyped BC3 families derived from the cross between TGR-1551 and the susceptible cultivar ‘Bola de Oro’ to finely map these resistance regions. The further phenotyping and genotyping of the selected BC5, BC5S1, BC5S2, BC4S1, BC4xPS, and (BC4xPS) S1 offspring allowed for the narrowing of the candidate intervals to a 250 and 381 kb region in chromosomes 5 and 12, respectively. Moreover, the temperature effect over the resistance provided by the dominant gene has been confirmed. High resolution melting markers (HRM) were tightly linked to both resistance regions and will be useful in marker-assisted selection programs. Candidate R genes with variants between parents that caused a potential modifier impact on the protein function were identified within both intervals. These candidate genes provide targets for future functional analyses to better understand the resistance to powdery mildew in melons.

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“…Long non-coding RNAs (LncRNAs) can regulate the transcription of downstream genes by activating transcription factors, recruiting them to bind to the promoters of target genes, and promoting their polymerization and expression ( Rinn and Chang, 2012 ; Clark and Blackshaw, 2014 ; Nejat and Mantri, 2018 ). LncRNAs also regulate the expression of target genes in Arabidopsis ( Arabidopsis thaliana L.), melon ( Cucumis melo L.) and other plants ( Severing et al., 2018 ; Zhou et al., 2020 ). For instance, a number of lncRNAs with target genes were identified that were resistant to Fusarium oxysporum in Arabidopsis ( Zhu et al., 2014 ).…”

Section: Introductionmentioning

confidence: 99%

Mining of long non-coding RNAs with target genes in response to rust based on full-length transcriptome in Kentucky bluegrass

et al. 2023

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Kentucky bluegrass (Poa pratensis L.) is an eminent turfgrass species with a complex genome, but it is sensitive to rust (Puccinia striiformis). The molecular mechanisms of Kentucky bluegrass in response to rust still remain unclear. This study aimed to elucidate differentially expressed lncRNAs (DELs) and genes (DEGs) for rust resistance based on the full-length transcriptome. First, we used single-molecule real-time sequencing technology to generate the full-length transcriptome of Kentucky bluegrass. A total of 33,541 unigenes with an average read length of 2,233 bp were obtained, which contained 220 lncRNAs and 1,604 transcription factors. Then, the comparative transcriptome between the mock-inoculated leaves and rust-infected leaves was analyzed using the full-length transcriptome as a reference genome. A total of 105 DELs were identified in response to rust infection. A total of 15,711 DEGs were detected (8,278 upregulated genes, 7,433 downregulated genes) and were enriched in plant hormone signal transduction and plant–pathogen interaction pathways. Additionally, through co-location and expression analysis, it was found that lncRNA56517, lncRNA53468, and lncRNA40596 were highly expressed in infected plants and upregulated the expression of target genes AUX/IAA, RPM1, and RPS2, respectively; meanwhile, lncRNA25980 decreased the expression level of target gene EIN3 after infection. The results suggest that these DEGs and DELs are important candidates for potentially breeding the rust-resistant Kentucky bluegrass.

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Identification of lncRNAs and their regulatory relationships with target genes and corresponding miRNAs in melon response to powdery mildew fungi

Cited by 20 publications

References 69 publications

The AKT/mTOR Signaling Pathway Was Mediated through the LINC00514/miR-28-5p/TRIM44 Axis

The AKT/mTOR Signaling Pathway Was Mediated through the LINC00514/miR-28-5p/TRIM44 Axis

Advanced Genetic Studies on Powdery Mildew Resistance in TGR-1551

Mining of long non-coding RNAs with target genes in response to rust based on full-length transcriptome in Kentucky bluegrass

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