Objectives:This investigation aimed to elucidate the inhibitory impact of apatinib on the multidrug resistance of liver cancer both in vivo and in vitro.Methods:To establish a Hep3B/5-Fu resistant cell line,5-Fu conce...Objectives:This investigation aimed to elucidate the inhibitory impact of apatinib on the multidrug resistance of liver cancer both in vivo and in vitro.Methods:To establish a Hep3B/5-Fu resistant cell line,5-Fu concentrations were gradually increased in the culture media.Hep3B/5-Fu cells drug resistance and its alleviation by apatinib were confirmed via flow cytometry and Cell Counting Kit 8(CCK8)test.Further,Nuclear factor kappa B(NF-κB)siRNA was transfected into Hep3B/5-Fu cells to assess alterations in the expression of multidrug resistance(MDR)-related genes and proteins.Nude mice were injected with Hep3B/5-Fu cells to establish subcutaneous xenograft tumors and then categorized into 8 treatment groups.The treatments included oxaliplatin,5-Fu,and apatinib.In the tumor tissues,the expression of MDRrelated genes was elucidated via qRT-PCR,immunohistochemistry,and Western blot analyses.Results:The apatinibtreated mice indicated slower tumor growth with smaller size compared to the control group.Both the in vivo and in vitro investigations revealed that the apatinib-treated groups had reduced expression of MDR genes GST-pi,LRP,MDR1,and p-p65.Conclusions:Apatinib effectively suppresses MDR in human hepatic cancer cells by modulating the expression of genes related to MDR,potentially by suppressing the NF-κB signaling pathway.展开更多
Agropyron cristatum(2n=4x=28,PPPP),which harbours many high-yield and disease-resistance genes,is a promising donor for wheat improvement.Narrow genetic diversity and the trade-off between grain weight and grain numbe...Agropyron cristatum(2n=4x=28,PPPP),which harbours many high-yield and disease-resistance genes,is a promising donor for wheat improvement.Narrow genetic diversity and the trade-off between grain weight and grain number have become bottlenecks for increasing grain yield in wheat.In this study,a novel translocation line,WAT650l,was derived from the chromosome 6P addition line 4844–12,which can simultaneously increase both grain number per spike(GNS)and thousand-grain weight(TGW).Cytological analysis and molecular marker analysis revealed that WAT650l was a 5BL.5BS-6PL(bin 12–17)translocation line.Assessment of agronomic traits and analysis of the BC4F2 and BC5F2 populations suggested that the 6PL terminal chromosome segment in WAT650l resulted in increased grain number per spike(average increased by 14.07 grains),thousand-grain weight(average increased by 4.31 g),flag leaf length,plant height,spikelet number per spike and kernel number per spikelet during the two growing seasons of 2020–2021 and 2021–2022.Additionally,the increased GNS locus and high-TGW locus of WAT650l were mapped to the bins 16–17 and 12–13,respectively,on chromosome 6PL by genetic population analysis of three translocation lines.In summary,we provide a valuable germplasm resource for broadening the genetic base of wheat and overcoming the negative relationship between GNS and TGW in wheat breeding.展开更多
Wide hybridization is a strategy for broadening the genetic basis of wheat. Because an efficient method for inducing wheat–alien chromosome translocations will allow producing useful germplasm, it is desirable to dis...Wide hybridization is a strategy for broadening the genetic basis of wheat. Because an efficient method for inducing wheat–alien chromosome translocations will allow producing useful germplasm, it is desirable to discover new genes that induce chromosomal variation. In this study, chromosome 5P from A.cristatum was shown to induce many types of chromosomal structural variation in a common wheat background, including nonhomoeologous chromosome translocations, as revealed by genomic in situ hybridization, fluorescence in situ hybridization, and DNA marker analysis. Aberrant meiosis was associated with chromosomal structural variation, and aberrant meiotic behavior was observed in wheat–A.cristatum 5P monosomic and disomic addition lines, suggesting that the effect of chromosome 5P was independent of the number of chromosome 5P copies. Chromosome 5P disturbed homologous chromosome pairing at pachytene stage in a common wheat background, resulting in a high frequency of univalent formation and reduced crossing over. Thirteen genes involved in DNA repair or chromatin remodeling, including RAD52-like and MSH6 genes, were differentially expressed(upregulated) in wheat–A. cristatum 5P addition lines according to transcriptome analysis, implicating chromosome 5P in the process of meiotic double-strand break repair. These findings provide a new, efficient tool for inducing wheat–alien chromosome translocations and producing new germplasm.展开更多
As an important wild relative of wheat, Agropyron cristatum has been successfully used for wheat improvement. Currently, a few useful agronomic traits of A. cristatum, such as high grain number per spike and resistanc...As an important wild relative of wheat, Agropyron cristatum has been successfully used for wheat improvement. Currently, a few useful agronomic traits of A. cristatum, such as high grain number per spike and resistance to diseases, have been transferred into common wheat.However, the effective detection of small A. cristatum segmental introgressions in common wheat is still difficult. The objective of this study was to identify A. cristatum-specific single nucleotide polymorphisms(SNPs) for the detection of small alien segments in wheat. The transcriptome sequences of A. cristatum were aligned against wheat coding DNA sequences(CDS) for SNP calling. As a result, we discovered a total of 167,613 putative SNPs specific to the P genome of A. cristatum compared with the common wheat genomes. Among 230 selected SNPs with functional annotations related to inflorescence development and stress resistance,68 were validated as P genome-specific SNPs in multiple wheat backgrounds using Kompetitive Allele Specific PCR(KASP) assays. Among them, 55 SNPs were assigned to six homoeologous groups of the P genome using wheat-A. cristatum addition lines, and 6 P-specific SNP markers were further physically mapped on different segments of chromosome 6 P in 6 P translocation lines. The P genome-specific SNPs were also validated by Sanger sequencing and used to detect the P chromatin in wheat-A. cristatum cryptic introgression lines. Two SNP markers(Unigene20217-182 and Unigene20307-1420) were detected in two wheat-A. cristatum introgression lines that showed enhanced grain number per spike and high resistance to powdery mildew. Together, the developed P genome-specific SNP markers will accelerate the detection of large numbers of wheat-A. cristatum derivatives and will be helpful for marker-assisted transfer of desirable traits from A. cristatum into adapted wheat cultivars in wheat breeding programs.展开更多
Understanding and modulating the interaction between various reactive molecules and oxygen carriers are the key issue to achieve process intensification of chemical looping technology.C1 chemical molecules play an imp...Understanding and modulating the interaction between various reactive molecules and oxygen carriers are the key issue to achieve process intensification of chemical looping technology.C1 chemical molecules play an important role in many reactions involved with chemical looping processes.However,up to now,there is still a lack of systematic and in-depth understanding of the adsorption mechanism of C1 molecules on the surface of oxygen carriers(OCs).In this work,the intrinsic interaction between a series of C1 molecules composed of CH4,CO,CO2,CH3OH,HCHO and HCOOH and surface of Ni O OCs in the chemical looping process have been studied using density functional theory calculations.Various adsorption configurations of C1 molecules and also different adsorption sites of Ni O have been considered.The structural features of stable configuration of C1 molecules on the surface of NiO OCs have been obtained.Further,the interacted sites,types and strengths of C1 molecules on the surface of NiO have been directly pictured by the independent gradient model methods.Also,the nature of the interaction between C1 molecule and Ni O surface has been investigated with the aid of energy decomposition analysis from a quantitative view.展开更多
This paper introduces the system of game-theoretic interactions,which connects both the explanation of knowledge encoded in a deep neural networks(DNN)and the explanation of the representation power of a DNN.In this s...This paper introduces the system of game-theoretic interactions,which connects both the explanation of knowledge encoded in a deep neural networks(DNN)and the explanation of the representation power of a DNN.In this system,we define two gametheoretic interaction indexes,namely the multi-order interaction and the multivariate interaction.More crucially,we use these interaction indexes to explain feature representations encoded in a DNN from the following four aspects:(1)Quantifying knowledge concepts encoded by a DNN;(2)Exploring how a DNN encodes visual concepts,and extracting prototypical concepts encoded in the DNN;(3)Learning optimal baseline values for the Shapley value,and providing a unified perspective to compare fourteen different attribution methods;(4)Theoretically explaining the representation bottleneck of DNNs.Furthermore,we prove the relationship between the interaction encoded in a DNN and the representation power of a DNN(e.g.,generalization power,adversarial transferability,and adversarial robustness).In this way,game-theoretic interactions successfully bridge the gap between“the explanation of knowledge concepts encoded in a DNN”and"the explanation of the representation capacity of a DNN"as a unified explanation.展开更多
This paper investigates the robust formation control for missiles with obstacle avoidance.A sliding mode surface that is asymptotically stable is firstly presented by the collision avoidance potential function and hyp...This paper investigates the robust formation control for missiles with obstacle avoidance.A sliding mode surface that is asymptotically stable is firstly presented by the collision avoidance potential function and hyperbolic tangent function.Based on the sliding mode surface,a robust formation controller with obstacle avoidance is designed for missiles.To improve the convergence rate,a finite-time controller which can deal with the formation control for missiles is given using an improved sliding mode surface.Finally,the effectiveness of the designed controllers for missiles is demonstrated by the Lyapunov theory and simulation results.展开更多
This study was designed to generate the full-length transcriptome of Coilia nasus using single-molecule long read isoform sequencing(SMRT-seq)technology.RNAs of brains,ovaries,and testes of C.nasus conditioned in both...This study was designed to generate the full-length transcriptome of Coilia nasus using single-molecule long read isoform sequencing(SMRT-seq)technology.RNAs of brains,ovaries,and testes of C.nasus conditioned in both seawater and freshwater except for gut which was only from the fish conditioned in freshwater,were isolated.All the RNAs were pooled together equally for SMRT sequencing.One SMRT cell produced 64.18 Gb clean data,including 765,184 circular consensus(CCS)reads and 616,126 full-length non-chimeric(FLNC)reads.Finally,93,793 non-redundant transcripts were obtained after clustered and polished.Structural analysis of the 93,793 non-redundant transcripts predicted 8242 alternative splicing events,a total of 229,825 SSR and 72,037 complete CDS.A total of 8437 lncRNA were identified.84,617 transcripts were annotated in NR,Swissprot,GO,COG,KOG,eggnog,Pfam and KEGG database totally.This is the first full-length transcriptome of Coilia nasus,including transcripts appeared in the case of seawater,which will facilitate exploration of genetic data and life story of Coilia nasus.展开更多
The ribosome-binding site(RBS)in the 5′untranslated region is recognized by 16S rRNA to start translation and is an essential element of the gene expression system.RBSs have been widely applied in regulating gene exp...The ribosome-binding site(RBS)in the 5′untranslated region is recognized by 16S rRNA to start translation and is an essential element of the gene expression system.RBSs have been widely applied in regulating gene expression in various scenarios,including Gram-negative or Gram-positive bacteria.Here,we first rationally designed and constructed an RBS mutant library containing 66 RBSs.The strength of these RBSs in E.coli and C.glutamicum was characterized individually.The RBS strength spanned about 200 and 15 times in the two species,respectively.The strength of RBSs in C.glutamicum was generally lower than that of in E.coli.A total of 18 RBSs showed similar strength(within twofold differences)between the species in our study,and the correlation analysis of the strength of RBSs between E.coli and C.glutamicum(R^(2)=0.7483)revealed that these RBSs can be used across species.The sequence analysis revealed that the RBS region with two Ts stated was beneficial for RBS to function cross-species.The RBS characterized here can be used to precisely regulate gene expression in both hosts,and the characteristics of cross-species RBSs provide basic information for RBS rational design.展开更多
基金supported by grants from the National Natural Science Foundation of China(No.82272986 to SY)the Natural Science Foundation of Guangdong Province,China(No.2023A1515010230 to SY)+1 种基金the Science and Technology Foundation of Shenzhen(No.JCYJ20220531094805012 to SY)the Scientific Research Project of Shenzhen Pingshan District Health System(202060 to SY).
文摘Objectives:This investigation aimed to elucidate the inhibitory impact of apatinib on the multidrug resistance of liver cancer both in vivo and in vitro.Methods:To establish a Hep3B/5-Fu resistant cell line,5-Fu concentrations were gradually increased in the culture media.Hep3B/5-Fu cells drug resistance and its alleviation by apatinib were confirmed via flow cytometry and Cell Counting Kit 8(CCK8)test.Further,Nuclear factor kappa B(NF-κB)siRNA was transfected into Hep3B/5-Fu cells to assess alterations in the expression of multidrug resistance(MDR)-related genes and proteins.Nude mice were injected with Hep3B/5-Fu cells to establish subcutaneous xenograft tumors and then categorized into 8 treatment groups.The treatments included oxaliplatin,5-Fu,and apatinib.In the tumor tissues,the expression of MDRrelated genes was elucidated via qRT-PCR,immunohistochemistry,and Western blot analyses.Results:The apatinibtreated mice indicated slower tumor growth with smaller size compared to the control group.Both the in vivo and in vitro investigations revealed that the apatinib-treated groups had reduced expression of MDR genes GST-pi,LRP,MDR1,and p-p65.Conclusions:Apatinib effectively suppresses MDR in human hepatic cancer cells by modulating the expression of genes related to MDR,potentially by suppressing the NF-κB signaling pathway.
基金financially supported by the National Natural Science Foundation of China(32171961)the Agricultural Science and Technology Innovation Program of CAAS(CAASASTIP-2021-ICS)。
文摘Agropyron cristatum(2n=4x=28,PPPP),which harbours many high-yield and disease-resistance genes,is a promising donor for wheat improvement.Narrow genetic diversity and the trade-off between grain weight and grain number have become bottlenecks for increasing grain yield in wheat.In this study,a novel translocation line,WAT650l,was derived from the chromosome 6P addition line 4844–12,which can simultaneously increase both grain number per spike(GNS)and thousand-grain weight(TGW).Cytological analysis and molecular marker analysis revealed that WAT650l was a 5BL.5BS-6PL(bin 12–17)translocation line.Assessment of agronomic traits and analysis of the BC4F2 and BC5F2 populations suggested that the 6PL terminal chromosome segment in WAT650l resulted in increased grain number per spike(average increased by 14.07 grains),thousand-grain weight(average increased by 4.31 g),flag leaf length,plant height,spikelet number per spike and kernel number per spikelet during the two growing seasons of 2020–2021 and 2021–2022.Additionally,the increased GNS locus and high-TGW locus of WAT650l were mapped to the bins 16–17 and 12–13,respectively,on chromosome 6PL by genetic population analysis of three translocation lines.In summary,we provide a valuable germplasm resource for broadening the genetic base of wheat and overcoming the negative relationship between GNS and TGW in wheat breeding.
基金financially supported by the National Key Research and Development Program of China (2021YFD1200605)the National Natural Science Foundation of China (32171961)。
文摘Wide hybridization is a strategy for broadening the genetic basis of wheat. Because an efficient method for inducing wheat–alien chromosome translocations will allow producing useful germplasm, it is desirable to discover new genes that induce chromosomal variation. In this study, chromosome 5P from A.cristatum was shown to induce many types of chromosomal structural variation in a common wheat background, including nonhomoeologous chromosome translocations, as revealed by genomic in situ hybridization, fluorescence in situ hybridization, and DNA marker analysis. Aberrant meiosis was associated with chromosomal structural variation, and aberrant meiotic behavior was observed in wheat–A.cristatum 5P monosomic and disomic addition lines, suggesting that the effect of chromosome 5P was independent of the number of chromosome 5P copies. Chromosome 5P disturbed homologous chromosome pairing at pachytene stage in a common wheat background, resulting in a high frequency of univalent formation and reduced crossing over. Thirteen genes involved in DNA repair or chromatin remodeling, including RAD52-like and MSH6 genes, were differentially expressed(upregulated) in wheat–A. cristatum 5P addition lines according to transcriptome analysis, implicating chromosome 5P in the process of meiotic double-strand break repair. These findings provide a new, efficient tool for inducing wheat–alien chromosome translocations and producing new germplasm.
基金supported by the China Agriculture Research System(CARS-03)the National Key Research and Development Program of China(2016YFD0102000)
文摘As an important wild relative of wheat, Agropyron cristatum has been successfully used for wheat improvement. Currently, a few useful agronomic traits of A. cristatum, such as high grain number per spike and resistance to diseases, have been transferred into common wheat.However, the effective detection of small A. cristatum segmental introgressions in common wheat is still difficult. The objective of this study was to identify A. cristatum-specific single nucleotide polymorphisms(SNPs) for the detection of small alien segments in wheat. The transcriptome sequences of A. cristatum were aligned against wheat coding DNA sequences(CDS) for SNP calling. As a result, we discovered a total of 167,613 putative SNPs specific to the P genome of A. cristatum compared with the common wheat genomes. Among 230 selected SNPs with functional annotations related to inflorescence development and stress resistance,68 were validated as P genome-specific SNPs in multiple wheat backgrounds using Kompetitive Allele Specific PCR(KASP) assays. Among them, 55 SNPs were assigned to six homoeologous groups of the P genome using wheat-A. cristatum addition lines, and 6 P-specific SNP markers were further physically mapped on different segments of chromosome 6 P in 6 P translocation lines. The P genome-specific SNPs were also validated by Sanger sequencing and used to detect the P chromatin in wheat-A. cristatum cryptic introgression lines. Two SNP markers(Unigene20217-182 and Unigene20307-1420) were detected in two wheat-A. cristatum introgression lines that showed enhanced grain number per spike and high resistance to powdery mildew. Together, the developed P genome-specific SNP markers will accelerate the detection of large numbers of wheat-A. cristatum derivatives and will be helpful for marker-assisted transfer of desirable traits from A. cristatum into adapted wheat cultivars in wheat breeding programs.
基金supported by Natural Science Founda tion of Ningxia(No.2020AAC03018)financial supports from Key R&D Projects of Ningxia(No.2018BCE01002)National Academic Subjects Construction Project of Ningxia(Chemical Engineering and Technology,NXYLXK2017A04)。
文摘Understanding and modulating the interaction between various reactive molecules and oxygen carriers are the key issue to achieve process intensification of chemical looping technology.C1 chemical molecules play an important role in many reactions involved with chemical looping processes.However,up to now,there is still a lack of systematic and in-depth understanding of the adsorption mechanism of C1 molecules on the surface of oxygen carriers(OCs).In this work,the intrinsic interaction between a series of C1 molecules composed of CH4,CO,CO2,CH3OH,HCHO and HCOOH and surface of Ni O OCs in the chemical looping process have been studied using density functional theory calculations.Various adsorption configurations of C1 molecules and also different adsorption sites of Ni O have been considered.The structural features of stable configuration of C1 molecules on the surface of NiO OCs have been obtained.Further,the interacted sites,types and strengths of C1 molecules on the surface of NiO have been directly pictured by the independent gradient model methods.Also,the nature of the interaction between C1 molecule and Ni O surface has been investigated with the aid of energy decomposition analysis from a quantitative view.
基金supported by National Science and Technology Major Project(No.2021ZD0111602)the National Nature Science Foundation of China(Nos.62276165 and U19B2043)Shanghai Natural Science Foundation,China(Nos.21JC1403800 and 21ZR1434600).
文摘This paper introduces the system of game-theoretic interactions,which connects both the explanation of knowledge encoded in a deep neural networks(DNN)and the explanation of the representation power of a DNN.In this system,we define two gametheoretic interaction indexes,namely the multi-order interaction and the multivariate interaction.More crucially,we use these interaction indexes to explain feature representations encoded in a DNN from the following four aspects:(1)Quantifying knowledge concepts encoded by a DNN;(2)Exploring how a DNN encodes visual concepts,and extracting prototypical concepts encoded in the DNN;(3)Learning optimal baseline values for the Shapley value,and providing a unified perspective to compare fourteen different attribution methods;(4)Theoretically explaining the representation bottleneck of DNNs.Furthermore,we prove the relationship between the interaction encoded in a DNN and the representation power of a DNN(e.g.,generalization power,adversarial transferability,and adversarial robustness).In this way,game-theoretic interactions successfully bridge the gap between“the explanation of knowledge concepts encoded in a DNN”and"the explanation of the representation capacity of a DNN"as a unified explanation.
基金supported by the National Natural Science Foundation of China(No.61803307,62111530051)Aeronautical Science Foundation of China(No.201901053004)+2 种基金Natural Science Basic Research Plan in Shaanxi Province of China(No.2020JQ-209)China Postdoctoral Science Foundation(No.2020M683565)the Fundamental Research Funds for the Central Universities(No.3102020ZDHKY05).
文摘This paper investigates the robust formation control for missiles with obstacle avoidance.A sliding mode surface that is asymptotically stable is firstly presented by the collision avoidance potential function and hyperbolic tangent function.Based on the sliding mode surface,a robust formation controller with obstacle avoidance is designed for missiles.To improve the convergence rate,a finite-time controller which can deal with the formation control for missiles is given using an improved sliding mode surface.Finally,the effectiveness of the designed controllers for missiles is demonstrated by the Lyapunov theory and simulation results.
基金This work was supported by the Project of Centre for Research on Environmental Ecology and Fish Nutrition(CREEFN)of the Ministry of Agriculture and Rural Affairs,Shanghai Ocean University(A1-3201-19-300204)the Project of Science and Technology Commission Shanghai Municipality(17391900300).
文摘This study was designed to generate the full-length transcriptome of Coilia nasus using single-molecule long read isoform sequencing(SMRT-seq)technology.RNAs of brains,ovaries,and testes of C.nasus conditioned in both seawater and freshwater except for gut which was only from the fish conditioned in freshwater,were isolated.All the RNAs were pooled together equally for SMRT sequencing.One SMRT cell produced 64.18 Gb clean data,including 765,184 circular consensus(CCS)reads and 616,126 full-length non-chimeric(FLNC)reads.Finally,93,793 non-redundant transcripts were obtained after clustered and polished.Structural analysis of the 93,793 non-redundant transcripts predicted 8242 alternative splicing events,a total of 229,825 SSR and 72,037 complete CDS.A total of 8437 lncRNA were identified.84,617 transcripts were annotated in NR,Swissprot,GO,COG,KOG,eggnog,Pfam and KEGG database totally.This is the first full-length transcriptome of Coilia nasus,including transcripts appeared in the case of seawater,which will facilitate exploration of genetic data and life story of Coilia nasus.
基金This work was financially supported by the National Key Research and Development Program of China(2018YFA0900300)the National Natural science foundation of China(32171421).
文摘The ribosome-binding site(RBS)in the 5′untranslated region is recognized by 16S rRNA to start translation and is an essential element of the gene expression system.RBSs have been widely applied in regulating gene expression in various scenarios,including Gram-negative or Gram-positive bacteria.Here,we first rationally designed and constructed an RBS mutant library containing 66 RBSs.The strength of these RBSs in E.coli and C.glutamicum was characterized individually.The RBS strength spanned about 200 and 15 times in the two species,respectively.The strength of RBSs in C.glutamicum was generally lower than that of in E.coli.A total of 18 RBSs showed similar strength(within twofold differences)between the species in our study,and the correlation analysis of the strength of RBSs between E.coli and C.glutamicum(R^(2)=0.7483)revealed that these RBSs can be used across species.The sequence analysis revealed that the RBS region with two Ts stated was beneficial for RBS to function cross-species.The RBS characterized here can be used to precisely regulate gene expression in both hosts,and the characteristics of cross-species RBSs provide basic information for RBS rational design.
