AIM To investigate the role of long noncoding RNA(lnc RNA) RP4 in colorectal cancer.METHODS Lentivirus-mediated lnc RNA RP4 overexpression and knockdown were performed in the colorectal cancer cell line SW480. Cell pr...AIM To investigate the role of long noncoding RNA(lnc RNA) RP4 in colorectal cancer.METHODS Lentivirus-mediated lnc RNA RP4 overexpression and knockdown were performed in the colorectal cancer cell line SW480. Cell proliferation, tumor growth, and early apoptosis were evaluated by a cell counting kit-8 assay, an in vivo xenograft tumor model, and annexin V/propidium iodide staining, respectively. Analysis of the lnc RNA RP4 mechanism involved assessment of the association of its expression with mi R-7-5 p and the SH3 GLB1 gene. Western blot analysis was also performed to assess the effect of lnc RNA RP4 on the autophagy-mediated cell death pathway and phosphatidylinositol-3-kinase(PI3 K)/Akt signaling.RESULTS Cell proliferation, tumor growth, and early apoptosis in SW480 cells were negatively regulated by lnc RNA RP4. Functional experiments indicated that lnc RNA RP4 directly upregulated SH3 GLB1 expression by acting as a competing endogenous RNA(ce RNA) for mi R-7-5 p. This interaction led to activation of the autophagy-mediated cell death pathway and de-repression of PI3 K and Akt phosphorylation in colorectal cancer cells in vivo.CONCLUSION Our results demonstrated that lnc RNA RP4 is a ce RNA that plays an important role in the pathogenesis of colorectal cancer, and could be a potential therapeutic target for colorectal cancer treatment.展开更多
Rice eating and cooking quality(ECQ)is significantly influenced by the physicochemical properties of rice starch.This study integrates whole-genome resequencing,transcriptomic data,and phenotypic analysis to identify t...Rice eating and cooking quality(ECQ)is significantly influenced by the physicochemical properties of rice starch.This study integrates whole-genome resequencing,transcriptomic data,and phenotypic analysis to identify the genetic factors that regulate transcript expression levels and contribute to phenotypic variation in rice ECQ traits.A TWAS(transcriptome-wide association study)identified 285 transcripts linked to 6 ECQ traits.Genome-wide mapping of these transcripts revealed 21747 local eQTLs(expression quantitative trait loci)and 45158 distal eQTLs.TWAS and eQTL analysis detected several known and novel genes,including starch synthesis-related genes,heat shock proteins,transcription factors,genes related to ATP accumulation,and UDP-glucosyltransferases,showcasing the complex genetic regulation of rice ECQ.WGCNA(weighted gene co-expression network analysis)uncovered key co-expression networks,including a module that links alpha-globulin1(GLB1)tostarchandsucrosemetabolism.GeneticdiversityanalysisoftheGLB1geneacrossaKorean rice collection identified 26 haplotypes,with indica and aus forming 7 and 3 haplotypes,respectively,which showedsignificantphenotypiceffectsonECQtraits.CRISPR-Cas9-createdknockoutlinesvalidatedthesefind-ings,demonstrating that loss of GLB1 function caused significant changes in seed storage proteins,reduced amylose content,altered starch granules,and modified pasting properties without affecting plant phenotypes.By integrating TWAS,eQTL mapping,haplotype analysis,gene expression networks,and CRISPR validation,this study establishes GLB1 as a regulator of ECQ,linking starch biosynthesis and protein accumulation path-ways.This transcriptogenomic convergence approach provides novel insights into the genetic regulation of ECQ in rice,demonstrating its effectiveness for characterizing complex traits and enabling precision breeding.展开更多
基金Supported by Scientific Research Foundation of Anhui Education Department,No.KJ2017A219 to Liu MLScientific Research Foundation of Academic Leader of Anhui Province,No.2016H105 to Liu ML+2 种基金Education Talent Foundation of Universities of Anhui Education Department,No.gxbj ZD2016070 to Liu MLNational Natural Science Foundation of China,No.81500373 to Wang WBNatural Science Foundation of Anhui Province,No.1608085MH193 to Wang WB
文摘AIM To investigate the role of long noncoding RNA(lnc RNA) RP4 in colorectal cancer.METHODS Lentivirus-mediated lnc RNA RP4 overexpression and knockdown were performed in the colorectal cancer cell line SW480. Cell proliferation, tumor growth, and early apoptosis were evaluated by a cell counting kit-8 assay, an in vivo xenograft tumor model, and annexin V/propidium iodide staining, respectively. Analysis of the lnc RNA RP4 mechanism involved assessment of the association of its expression with mi R-7-5 p and the SH3 GLB1 gene. Western blot analysis was also performed to assess the effect of lnc RNA RP4 on the autophagy-mediated cell death pathway and phosphatidylinositol-3-kinase(PI3 K)/Akt signaling.RESULTS Cell proliferation, tumor growth, and early apoptosis in SW480 cells were negatively regulated by lnc RNA RP4. Functional experiments indicated that lnc RNA RP4 directly upregulated SH3 GLB1 expression by acting as a competing endogenous RNA(ce RNA) for mi R-7-5 p. This interaction led to activation of the autophagy-mediated cell death pathway and de-repression of PI3 K and Akt phosphorylation in colorectal cancer cells in vivo.CONCLUSION Our results demonstrated that lnc RNA RP4 is a ce RNA that plays an important role in the pathogenesis of colorectal cancer, and could be a potential therapeutic target for colorectal cancer treatment.
基金supported by the National Natural Science Foundation of China(No.82125012,91849208)the National Key Research and Development Program of China(No.2021ZD0202400)。
基金supported by National Research Foundation of Korea(NRF)grants funded by the Korean government(MSIT)(NRF-2022R1A 4A1030348 and NRF-2023R1A2C1004432)the Development of Next-Generation Crop Breeding Technologies(RS-2024-00322378)Rural Development Administration,Republic of Korea.
文摘Rice eating and cooking quality(ECQ)is significantly influenced by the physicochemical properties of rice starch.This study integrates whole-genome resequencing,transcriptomic data,and phenotypic analysis to identify the genetic factors that regulate transcript expression levels and contribute to phenotypic variation in rice ECQ traits.A TWAS(transcriptome-wide association study)identified 285 transcripts linked to 6 ECQ traits.Genome-wide mapping of these transcripts revealed 21747 local eQTLs(expression quantitative trait loci)and 45158 distal eQTLs.TWAS and eQTL analysis detected several known and novel genes,including starch synthesis-related genes,heat shock proteins,transcription factors,genes related to ATP accumulation,and UDP-glucosyltransferases,showcasing the complex genetic regulation of rice ECQ.WGCNA(weighted gene co-expression network analysis)uncovered key co-expression networks,including a module that links alpha-globulin1(GLB1)tostarchandsucrosemetabolism.GeneticdiversityanalysisoftheGLB1geneacrossaKorean rice collection identified 26 haplotypes,with indica and aus forming 7 and 3 haplotypes,respectively,which showedsignificantphenotypiceffectsonECQtraits.CRISPR-Cas9-createdknockoutlinesvalidatedthesefind-ings,demonstrating that loss of GLB1 function caused significant changes in seed storage proteins,reduced amylose content,altered starch granules,and modified pasting properties without affecting plant phenotypes.By integrating TWAS,eQTL mapping,haplotype analysis,gene expression networks,and CRISPR validation,this study establishes GLB1 as a regulator of ECQ,linking starch biosynthesis and protein accumulation path-ways.This transcriptogenomic convergence approach provides novel insights into the genetic regulation of ECQ in rice,demonstrating its effectiveness for characterizing complex traits and enabling precision breeding.
