Objective To analyze the differential gene expression profile of serum exosomes in patients with acute cerebral infarction(ACI)and clarify the changes in gene expression related to cerebral infarction injury and the p...Objective To analyze the differential gene expression profile of serum exosomes in patients with acute cerebral infarction(ACI)and clarify the changes in gene expression related to cerebral infarction injury and the potential serum markers.Methods Four patients with ACI and five healthy people were enrolled in the PhaseⅠstudy.After serum isolation from peripheral blood,exosomes were extracted with exosomes kits,highthroughput detection of m RNA was performed with gene chips,and differentially expressed m RNAs were screened.Gene Ontology(GO)functional analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG)pathway enrichment analysis were performed simultaneously.Furthermore,real-time polymerase chain reaction(q RT-PCR)was used to verify the expression levels of the screened differential m RNAs in the serum exosomes collected in PhaseⅡfrom 32 patients each in the ACI case and normal control groups.Results In the PhaseⅠstudy,there were 248 differentially expressed m RNAs(fold change≥2.0,P<0.05)among five patients in the normal control group and four patients in the case group,of which the expression of 242 was upregulated and that of six was downregulated.The results of GO functional enrichment analysis mainly included behavior regulation,cell connection,and antioxidant activity.The results of KEGG pathway enrichment analysis mainly included ribosomes,proteasomes,oxytocin signaling pathways,and oxidative phosphorylation.After researching and screening based on relevant literature,it was found that among the genes with significant differential expression,H3 F3 B m RNA may be associated with and might play an important role in ACI.The q RT-PCR method was used to detect the H3 F3 B mRNA expression in serum exosomes of 32 patients each in the normal control and case groups in PhaseⅡ;the expression was significantly higher in serum exosomes of the case group than in those of the normal control group(P<0.001).H3 F3 B mRNA expression in serum exosomes of the case group positively correlated with age,the Nation展开更多
To gain insight into the changes in the transcriptome of soybean roots during soybean cyst nematode (SCN) infection, we conducted genome-wide gene expression profiling using serial analysis of gene expression (SAGE) c...To gain insight into the changes in the transcriptome of soybean roots during soybean cyst nematode (SCN) infection, we conducted genome-wide gene expression profiling using serial analysis of gene expression (SAGE) combined with Solexa sequencing. More than 3 million tags were generated from the SCN-infected and uninfected roots, and 366941 and 314591 clean UniTags were obtained from SCN-infected and uninfected samples, respectively. In the SCN-infected sample, 48249 UniTags represented 18114 reference genes. In the uninfected control, 46290 UniTags represented 19323 reference genes. Comparison of tag frequencies identified 1405 genes that were expressed at greater levels in SCN-infected roots than in uninfected roots, and 1191 genes that were expressed at lower levels. Quantitative real-time PCR analyses confirmed the changes in mRNA levels observed in our sequencing analyses. A comparable number of genes were upand down-regulated in response to nematode infection, indicating that down-regulation of some genes might be essential in the plant response to nematodes. Our SAGE results showed significant changes in expression of many unreported genes involved in nematode infection. Approximately 7% of tags mapped to the antisense strand of genes, indicating widespread antisense transcription.展开更多
Previous studies on mammals showed that peroxisome proliferator-activated receptor gamma coactivator-1α(PGC-1α)played a prominent role in regulating muscle fiber type transition and composition.However,the role of P...Previous studies on mammals showed that peroxisome proliferator-activated receptor gamma coactivator-1α(PGC-1α)played a prominent role in regulating muscle fiber type transition and composition.However,the role of PGC-1αin chicken muscle has seldom been explored.To investigate the effect of PGC-1αon chicken skeletal muscles in this study,the PGC-1αgene was overexpressed or silenced in chicken primary myoblasts by using lentivirus,and then the effects of the PGC-1αgene overexpression and knockdown on the mRNA expression profile of genes related to myofiber type specificity were examined during fiber formation.The results showed that overexpression of PGC-1αfrom proliferation to differentiation was accompanied by the up-regulated expression of Pax7,MyoD,and CnAα,which was significantly(P<0.01)increased after one day of transfection(1 I).The enhancement of MyoG,MEF2 c,and MyHC SM expression lagged,which was improved significantly(P<0.01)after four days of transfection(1 I3 D).Overexpression of PGC-1αdecreased(P<0.01)the MyHC FWM expression after four days of transfection(1 I3 D),and it had no significant impact(P>0.05)on the expression of CnB1,NFATc3,and MyHC FRM during myofiber formation.The effective silence(P<0.01)of PGC-1αby lentivirus mediating short hairpin RNA(shRNA)was detected after four days of transfection(1 I3 D)in cultures,and the lack of its function in chicken primary myoblasts significantly(P<0.01)down-regulated the expression of Pax7,MyoD,CnAα,MyoG,MEF2 c,and MyHC SM,significantly(P<0.01)up-regulated the expression of MyHC FWM,and had no significant impact(P>0.05)on the expression of CnB1,NFATc3,and MyHC FRM.These results indicated that the role of PGC-1αin regulating the fiber type specificity of chicken skeletal muscles might be similar to that in mammals,which interplayed with key genes related to myocyte differentiation and calcineurin signaling pathway.展开更多
Background::Rectal cancer(RC)is a malignant tumor that seriously threatens human health.Long non-coding RNAs(lncRNAs)play a vital role in tumor regulation.Nevertheless,their exact expression features and functions rem...Background::Rectal cancer(RC)is a malignant tumor that seriously threatens human health.Long non-coding RNAs(lncRNAs)play a vital role in tumor regulation.Nevertheless,their exact expression features and functions remain obscure,and therefore was the aim of the current study.Methods::We utilized the Affymetrix human GeneChip to screen differentially expressed profiles of lncRNAs and mRNAs from the cancer tissues and matched paracancer tissues of 6 RC patients.Gene Ontology(GO)and pathway enrichment analyses identified crucial functions and pathways of the aberrantly expressed mRNAs.We used quantitative real-time polymerase chain reaction to verify the significant expression differences of 11 candidate lncRNAs between the cancer and paracancer tissues.LncRNA-mRNA coexpression networks were built by calculating the Pearson correlation value to identify significant correlation pairs.Online bioinformatics tools GEPIA2,ONCOMINE,and PROGgeneV2 were used to mine the expression and prognosis of three crucial mRNAs and six verified lncRNAs.Competing endogenous RNA networks were constructed by predicting microRNA response elements and calculating free energy.Results::We found 1658 differentially expressed lncRNAs(778 up-regulated and 880 down-regulated)and 1783 aberrantly expressed mRNAs(909 up-regulated and 874 down-regulated).GO and pathway enrichment analyses revealed the vital functions of the differentially expressed mRNAs,including cell proliferation,cell migration,angiogenesis,and cellular response to zinc ion.The canonical signaling pathways mainly included the interleukin-17,cell cycle,Wnt,and mineral absorption signaling pathways.Six lncRNAs including AC017002.2(P=0.039),cancer susceptibility 19(CASC19)(P=0.021),LINC00152(P=0.013),NONHSAT058834(P=0.007),NONHSAT007692(P=0.045),and ENST00000415991.1(P=0.045)showed significant differences in expression levels between the cancer tissue and paracancer tissue groups.AC017002.2,NONHSAT058834,NONHSAT007692,and ENST00000415991.1 have not yet been reported in RC.The crucia展开更多
In order to detect the molecular mechanism of heterosis in pigs, the mRNA differential display technique was performed to investigate the differences of gene expression in the Longissimus dorsi tissue from Meishan, ...In order to detect the molecular mechanism of heterosis in pigs, the mRNA differential display technique was performed to investigate the differences of gene expression in the Longissimus dorsi tissue from Meishan, Meishan × Large White hybrid and Large White pigs with nine 3'-end anchored primers in combination with ten 5'-end arbitrary primers and nearly 3000 reproducible bands were examined. One novel expressed sequence tag (EST4, GenBank accession number: AY553914) that was differentially expressed in Meishan, Meishan× Large White hybrid and Large White pigs was isolated from the Longissimus dorsi muscle tissue and identified through semi-quantitative RT-PCR. BLAST analysis revealed that the 350 bp long EST (EST4) was not homologous to any of the known porcine genes. Tissue expression profile analyses showed that the EST4 was expressed in most of tissues.LIU Yong-gang, Ph D candidate展开更多
The obvious difference in muscle growth; meat quality traits exists between Chinese indigenous pig; exotic pigs. In order to study the reason of these phenotypic differences; search the potential gene related to growt...The obvious difference in muscle growth; meat quality traits exists between Chinese indigenous pig; exotic pigs. In order to study the reason of these phenotypic differences; search the potential gene related to growth; meat quality traits, silver-stained mRNA differential display technique was used to detect the difference with mRNA of loin-eye muscle tissue from maturity pigs of Lantang in Guangdong Province; Large Yorkshire. One of the newly discovered expressed sequence tag (ESTsp3) was analyzed by using bioinformatic technique. The results showed: (1) nearly 2000 cDNA fragments were detected with 30 primer pairs,; 6 differentially expressed ESTs in the Ioin-eye muscle tissues from the two breeds were isolated; obtained. The differential fragments were cloned; sequenced. The all sequences were recorded in the GenBank. (2) The 786 bp fragment of ESTsp3 was obtained with in silico elongation system, the ORF analysis revealed that it existed as an 83 aa complete open reading frame,; the elongation sequences were verified by RT-PCR. The analysis of in silico expression profile showed that ESTsp3 is expressed in various growth stages; in most tissues; organs, such as soft tissue, skin, skeletal muscle; kidney, but with variant expression quantity.展开更多
基金funding support from the National Natural Science Foundation of China(No.82074251)the Hunan Natural Science Foundation of China(No.2018JJ2413)the Hunan Provincial Health and Health Commission Project(No.c2018032)。
文摘Objective To analyze the differential gene expression profile of serum exosomes in patients with acute cerebral infarction(ACI)and clarify the changes in gene expression related to cerebral infarction injury and the potential serum markers.Methods Four patients with ACI and five healthy people were enrolled in the PhaseⅠstudy.After serum isolation from peripheral blood,exosomes were extracted with exosomes kits,highthroughput detection of m RNA was performed with gene chips,and differentially expressed m RNAs were screened.Gene Ontology(GO)functional analysis and Kyoto Encyclopedia of Genes and Genomes(KEGG)pathway enrichment analysis were performed simultaneously.Furthermore,real-time polymerase chain reaction(q RT-PCR)was used to verify the expression levels of the screened differential m RNAs in the serum exosomes collected in PhaseⅡfrom 32 patients each in the ACI case and normal control groups.Results In the PhaseⅠstudy,there were 248 differentially expressed m RNAs(fold change≥2.0,P<0.05)among five patients in the normal control group and four patients in the case group,of which the expression of 242 was upregulated and that of six was downregulated.The results of GO functional enrichment analysis mainly included behavior regulation,cell connection,and antioxidant activity.The results of KEGG pathway enrichment analysis mainly included ribosomes,proteasomes,oxytocin signaling pathways,and oxidative phosphorylation.After researching and screening based on relevant literature,it was found that among the genes with significant differential expression,H3 F3 B m RNA may be associated with and might play an important role in ACI.The q RT-PCR method was used to detect the H3 F3 B mRNA expression in serum exosomes of 32 patients each in the normal control and case groups in PhaseⅡ;the expression was significantly higher in serum exosomes of the case group than in those of the normal control group(P<0.001).H3 F3 B mRNA expression in serum exosomes of the case group positively correlated with age,the Nation
基金supported by the National Natural Science Foundation of China (30392100)
文摘To gain insight into the changes in the transcriptome of soybean roots during soybean cyst nematode (SCN) infection, we conducted genome-wide gene expression profiling using serial analysis of gene expression (SAGE) combined with Solexa sequencing. More than 3 million tags were generated from the SCN-infected and uninfected roots, and 366941 and 314591 clean UniTags were obtained from SCN-infected and uninfected samples, respectively. In the SCN-infected sample, 48249 UniTags represented 18114 reference genes. In the uninfected control, 46290 UniTags represented 19323 reference genes. Comparison of tag frequencies identified 1405 genes that were expressed at greater levels in SCN-infected roots than in uninfected roots, and 1191 genes that were expressed at lower levels. Quantitative real-time PCR analyses confirmed the changes in mRNA levels observed in our sequencing analyses. A comparable number of genes were upand down-regulated in response to nematode infection, indicating that down-regulation of some genes might be essential in the plant response to nematodes. Our SAGE results showed significant changes in expression of many unreported genes involved in nematode infection. Approximately 7% of tags mapped to the antisense strand of genes, indicating widespread antisense transcription.
基金supported by the National Natural Science Foundation of China(31301967)the Natural Science Foundation of Jiangsu Province,China(BK20161322)+4 种基金the projects of Key Laboratory for Poultry Genetics and Breeding of Jiangsu Province(JQLAB-ZZ-201703)the Major Breeding Programs in Jiangsu Province,China(PZCZ201728)the earmarked fund for China Agriculture Research System(CARS-41)the Independent Scientific Foundation of Public Welfare Scientific Institutes in Jiangsu Province,China(BM2018026)the Open Projects of Key Laboratory of Chicken Genetics and Breeding,Ministry of Agriculture and Rural Affairs of China(CGB-201704)。
文摘Previous studies on mammals showed that peroxisome proliferator-activated receptor gamma coactivator-1α(PGC-1α)played a prominent role in regulating muscle fiber type transition and composition.However,the role of PGC-1αin chicken muscle has seldom been explored.To investigate the effect of PGC-1αon chicken skeletal muscles in this study,the PGC-1αgene was overexpressed or silenced in chicken primary myoblasts by using lentivirus,and then the effects of the PGC-1αgene overexpression and knockdown on the mRNA expression profile of genes related to myofiber type specificity were examined during fiber formation.The results showed that overexpression of PGC-1αfrom proliferation to differentiation was accompanied by the up-regulated expression of Pax7,MyoD,and CnAα,which was significantly(P<0.01)increased after one day of transfection(1 I).The enhancement of MyoG,MEF2 c,and MyHC SM expression lagged,which was improved significantly(P<0.01)after four days of transfection(1 I3 D).Overexpression of PGC-1αdecreased(P<0.01)the MyHC FWM expression after four days of transfection(1 I3 D),and it had no significant impact(P>0.05)on the expression of CnB1,NFATc3,and MyHC FRM during myofiber formation.The effective silence(P<0.01)of PGC-1αby lentivirus mediating short hairpin RNA(shRNA)was detected after four days of transfection(1 I3 D)in cultures,and the lack of its function in chicken primary myoblasts significantly(P<0.01)down-regulated the expression of Pax7,MyoD,CnAα,MyoG,MEF2 c,and MyHC SM,significantly(P<0.01)up-regulated the expression of MyHC FWM,and had no significant impact(P>0.05)on the expression of CnB1,NFATc3,and MyHC FRM.These results indicated that the role of PGC-1αin regulating the fiber type specificity of chicken skeletal muscles might be similar to that in mammals,which interplayed with key genes related to myocyte differentiation and calcineurin signaling pathway.
基金This work was supported by a grant from the Beijing Municipal Health Commission’s Key Clinical Specialty(Oncology)(Project No.2018ZLLCZDZK1).
文摘Background::Rectal cancer(RC)is a malignant tumor that seriously threatens human health.Long non-coding RNAs(lncRNAs)play a vital role in tumor regulation.Nevertheless,their exact expression features and functions remain obscure,and therefore was the aim of the current study.Methods::We utilized the Affymetrix human GeneChip to screen differentially expressed profiles of lncRNAs and mRNAs from the cancer tissues and matched paracancer tissues of 6 RC patients.Gene Ontology(GO)and pathway enrichment analyses identified crucial functions and pathways of the aberrantly expressed mRNAs.We used quantitative real-time polymerase chain reaction to verify the significant expression differences of 11 candidate lncRNAs between the cancer and paracancer tissues.LncRNA-mRNA coexpression networks were built by calculating the Pearson correlation value to identify significant correlation pairs.Online bioinformatics tools GEPIA2,ONCOMINE,and PROGgeneV2 were used to mine the expression and prognosis of three crucial mRNAs and six verified lncRNAs.Competing endogenous RNA networks were constructed by predicting microRNA response elements and calculating free energy.Results::We found 1658 differentially expressed lncRNAs(778 up-regulated and 880 down-regulated)and 1783 aberrantly expressed mRNAs(909 up-regulated and 874 down-regulated).GO and pathway enrichment analyses revealed the vital functions of the differentially expressed mRNAs,including cell proliferation,cell migration,angiogenesis,and cellular response to zinc ion.The canonical signaling pathways mainly included the interleukin-17,cell cycle,Wnt,and mineral absorption signaling pathways.Six lncRNAs including AC017002.2(P=0.039),cancer susceptibility 19(CASC19)(P=0.021),LINC00152(P=0.013),NONHSAT058834(P=0.007),NONHSAT007692(P=0.045),and ENST00000415991.1(P=0.045)showed significant differences in expression levels between the cancer tissue and paracancer tissue groups.AC017002.2,NONHSAT058834,NONHSAT007692,and ENST00000415991.1 have not yet been reported in RC.The crucia
文摘In order to detect the molecular mechanism of heterosis in pigs, the mRNA differential display technique was performed to investigate the differences of gene expression in the Longissimus dorsi tissue from Meishan, Meishan × Large White hybrid and Large White pigs with nine 3'-end anchored primers in combination with ten 5'-end arbitrary primers and nearly 3000 reproducible bands were examined. One novel expressed sequence tag (EST4, GenBank accession number: AY553914) that was differentially expressed in Meishan, Meishan× Large White hybrid and Large White pigs was isolated from the Longissimus dorsi muscle tissue and identified through semi-quantitative RT-PCR. BLAST analysis revealed that the 350 bp long EST (EST4) was not homologous to any of the known porcine genes. Tissue expression profile analyses showed that the EST4 was expressed in most of tissues.LIU Yong-gang, Ph D candidate
基金supported by Key Project of Chinese National Programs for Fundamental Research and Development(973 Programe)(Grant No.2004CB117506)Natural Science Foundation of Guangdong Province(Grant No.010277)Group Program of Natural Science Foundation of Guangdong Province(Grant No.04205804)
文摘The obvious difference in muscle growth; meat quality traits exists between Chinese indigenous pig; exotic pigs. In order to study the reason of these phenotypic differences; search the potential gene related to growth; meat quality traits, silver-stained mRNA differential display technique was used to detect the difference with mRNA of loin-eye muscle tissue from maturity pigs of Lantang in Guangdong Province; Large Yorkshire. One of the newly discovered expressed sequence tag (ESTsp3) was analyzed by using bioinformatic technique. The results showed: (1) nearly 2000 cDNA fragments were detected with 30 primer pairs,; 6 differentially expressed ESTs in the Ioin-eye muscle tissues from the two breeds were isolated; obtained. The differential fragments were cloned; sequenced. The all sequences were recorded in the GenBank. (2) The 786 bp fragment of ESTsp3 was obtained with in silico elongation system, the ORF analysis revealed that it existed as an 83 aa complete open reading frame,; the elongation sequences were verified by RT-PCR. The analysis of in silico expression profile showed that ESTsp3 is expressed in various growth stages; in most tissues; organs, such as soft tissue, skin, skeletal muscle; kidney, but with variant expression quantity.
