The incre asing interest in RNA modifications has signifcantly advanced epigenomic and epitranscriptomic technologies.This study focuses on the immuno oncological impact of ALYREF in human cancer through a pan-cancer ...The incre asing interest in RNA modifications has signifcantly advanced epigenomic and epitranscriptomic technologies.This study focuses on the immuno oncological impact of ALYREF in human cancer through a pan-cancer analysis,enhancing understanding of this gene's role in cancer.We observed differential ALYREF expression between tumor and normal samples,correl ating strongly with prognosis in various cancers,particularly kidney renal papillary cell carcinoma(KIRP)and liver hepatocellular carcinoma(LIHC).ALYREF showed a negative correlation with most tumor-infitrating cells in lung squamous cell carcinoma(LUSC)and lymphoid neoplasm difuse large B-cell lymphoma(DLBC),while positive correlations were noted in IIHC,kidney chromophobe(KICH),mesothelioma(MESO),KIRP,pheochromocytoma and paraganglioma(PARD),and glioma(GBMLGG).Aditionally,ALYREF expression was closely associated with tumor heterogeneity,stemness indices,and a high mutation rate in TP53 across these cancers.In conclusion,ALYREF may serve as an oncogenic biomarker in numerous cancers,meriting further research attention.展开更多
Largemouth bass(Micropterus salmoides) is an economically important fish species in North America, Europe, and China. Various genetic improvement programs and domestication processes have modified its genome sequence ...Largemouth bass(Micropterus salmoides) is an economically important fish species in North America, Europe, and China. Various genetic improvement programs and domestication processes have modified its genome sequence through selective pressure, leaving nucleotide signals that can be detected at the genomic level. In this study,we sequenced 149 largemouth bass fish, including protospecies(imported from the US) and improved breeds(four domestic breeding populations from China). We detected genomic regions harboring certain genes associated with improved traits, which may be useful molecular markers for practical domestication, breeding, and selection. Subsequent analyses of genetic diversity and population structure revealed that the improved breeds have undergone more rigorous genetic changes. Through selective signal analysis, we identified hundreds of putative selective sweep regions in each largemouth bass line. Interestingly, we predicted 103 putative candidate genes potentially subjected to selection,including several associated with growth(psst1 and grb10), early development(klf9, sp4, and sp8), and immune traits(pkn2, sept2, bcl6, and ripk2). These candidate genes represent potential genomic landmarks that could be used to improve important traits of biological and commercial interest. In summary, this study provides a genome-wide map of genetic variations and selection footprints in largemouth bass, which may benefit genetic studies and accelerate genetic improvement of this economically important fish.展开更多
Introduction About 72%of human genome is transcribed to non-coding RNAs,which have captivated researchers a lot for shedding light on their pivotal roles in regulating the initiation and progression of various disease...Introduction About 72%of human genome is transcribed to non-coding RNAs,which have captivated researchers a lot for shedding light on their pivotal roles in regulating the initiation and progression of various diseases,including cancers[1].Among these,long non-coding RNAs(lncRNAs)have emerged as key players in the complex landscape of gene regulation.LncRNAs perform a variety of roles,including scaffolding to encourage the interaction of related proteins,decoys to thwart transcriptional factors from the target gene’s promoter,sponges of linked miRNA to prevent target gene destruction,and guide molecules to recruit components for chromatin remodeling[1].Many cancers are closely related to age[2-5]and such patients are expected be increased gradually as almost 20%of the world’s population will be 65 or older by 2030[6]and those over the age of 65 have an 11-fold higher incidence of cancer than people under that age[7].As one of the typical hallmarks of aging[8],cellular senescence is Cellular senescence is induced by stressful insults and certain physiological processes and is characterized by a prolonged and essentially irreversible cell-cycle arrest with secretory features,macromolecular damage,and altered metabolism[9].Here,we aim to provide insights of the intersection between lncRNAs,cellular senescence,and urinary tumors,unraveling the potential implications and therapeutic avenues within this multifaceted network.展开更多
基金the Chinese Scholarship Council(Grant No.202206240086)the National Natural Science Foundation of China(Grant No.82170432)programs from Science and Technology Department of Sichuan Province(Grant No.2020YFSY0024).
文摘The incre asing interest in RNA modifications has signifcantly advanced epigenomic and epitranscriptomic technologies.This study focuses on the immuno oncological impact of ALYREF in human cancer through a pan-cancer analysis,enhancing understanding of this gene's role in cancer.We observed differential ALYREF expression between tumor and normal samples,correl ating strongly with prognosis in various cancers,particularly kidney renal papillary cell carcinoma(KIRP)and liver hepatocellular carcinoma(LIHC).ALYREF showed a negative correlation with most tumor-infitrating cells in lung squamous cell carcinoma(LUSC)and lymphoid neoplasm difuse large B-cell lymphoma(DLBC),while positive correlations were noted in IIHC,kidney chromophobe(KICH),mesothelioma(MESO),KIRP,pheochromocytoma and paraganglioma(PARD),and glioma(GBMLGG).Aditionally,ALYREF expression was closely associated with tumor heterogeneity,stemness indices,and a high mutation rate in TP53 across these cancers.In conclusion,ALYREF may serve as an oncogenic biomarker in numerous cancers,meriting further research attention.
基金supported by the Key-Area Research and Development Program of Guangdong Province(2021B0202020001)China Agriculture Research System of MOF and MARA(CARS-46)+2 种基金Central Public-interest Scientific Institution Basal Research Fund of CAFS(2020TD23,2020ZJTD-02)Project of Construction of Guangdong Aquatic Seed Industry Demonstration Base 2021Special Funds for Science Technology Innovation and Industrial Development of Shenzhen Dapeng New District(KJYF202101-02)。
文摘Largemouth bass(Micropterus salmoides) is an economically important fish species in North America, Europe, and China. Various genetic improvement programs and domestication processes have modified its genome sequence through selective pressure, leaving nucleotide signals that can be detected at the genomic level. In this study,we sequenced 149 largemouth bass fish, including protospecies(imported from the US) and improved breeds(four domestic breeding populations from China). We detected genomic regions harboring certain genes associated with improved traits, which may be useful molecular markers for practical domestication, breeding, and selection. Subsequent analyses of genetic diversity and population structure revealed that the improved breeds have undergone more rigorous genetic changes. Through selective signal analysis, we identified hundreds of putative selective sweep regions in each largemouth bass line. Interestingly, we predicted 103 putative candidate genes potentially subjected to selection,including several associated with growth(psst1 and grb10), early development(klf9, sp4, and sp8), and immune traits(pkn2, sept2, bcl6, and ripk2). These candidate genes represent potential genomic landmarks that could be used to improve important traits of biological and commercial interest. In summary, this study provides a genome-wide map of genetic variations and selection footprints in largemouth bass, which may benefit genetic studies and accelerate genetic improvement of this economically important fish.
文摘Introduction About 72%of human genome is transcribed to non-coding RNAs,which have captivated researchers a lot for shedding light on their pivotal roles in regulating the initiation and progression of various diseases,including cancers[1].Among these,long non-coding RNAs(lncRNAs)have emerged as key players in the complex landscape of gene regulation.LncRNAs perform a variety of roles,including scaffolding to encourage the interaction of related proteins,decoys to thwart transcriptional factors from the target gene’s promoter,sponges of linked miRNA to prevent target gene destruction,and guide molecules to recruit components for chromatin remodeling[1].Many cancers are closely related to age[2-5]and such patients are expected be increased gradually as almost 20%of the world’s population will be 65 or older by 2030[6]and those over the age of 65 have an 11-fold higher incidence of cancer than people under that age[7].As one of the typical hallmarks of aging[8],cellular senescence is Cellular senescence is induced by stressful insults and certain physiological processes and is characterized by a prolonged and essentially irreversible cell-cycle arrest with secretory features,macromolecular damage,and altered metabolism[9].Here,we aim to provide insights of the intersection between lncRNAs,cellular senescence,and urinary tumors,unraveling the potential implications and therapeutic avenues within this multifaceted network.
