The ripening of papaya is a physiological and metabolic process associated with accumulation of carotenoids,alternation of flesh color and flavor,which depending on genotype and external factors such as light and horm...The ripening of papaya is a physiological and metabolic process associated with accumulation of carotenoids,alternation of flesh color and flavor,which depending on genotype and external factors such as light and hormone.Transcription factors regulating carotenoid biosynthesis have not been analyzed during papaya fruit ripening.RNA-Seq experiments were implemented using different ripening stages of papaya fruit from two papaya varieties.Cis-elements in lycopeneβ-cyclase genes(CpCYC-B and CpLCY-B)were identified,and followed by genome-wide analysis to identify transcription factors binding to these cis-elements,resulting in the identification of CpbHLH1 and CpbHLH2,two bHLH genes.The expressions of CpbHLH1/2 were changed during fruit development,coupled with transcript increase of carotenoid biosynthesis-related genes including CpCYC-B,CpLCY-B,CpPDS2,CpZDS,CpLCY-E,and CpCHY-B.Yeast onehybrid(Y1H)and transient expression assay revealed that CpbHLH1/2 could bind to the promoters of CpCYC-B and CpLCY-B,and regulate their transcriptions.In response to strong light,the results of elevated expression of carotenoid biosynthesis-related genes and the changed expression of CpbHLH1/2 indicated that CpbHLH1/2 were involved in light-mediated mechanisms of regulating critical genes in the carotenoid biosynthesis pathway.Collectively,our findings demonstrated several TF family members participating in the regulation of carotenoid genes and proved that CpbHLH1 and CpbHLH2 individually regulated the transcription of lycopeneβ-cyclase genes(CpCYC-B and CpLCY-B).This study yielded novel findings on regulatory mechanism of carotenoid biosynthesis during papaya fruit ripening.展开更多
Sex types of papaya are controlled by a pair of nascent sex chromosomes,but molecular genetic mechanisms of sex determination and sex differentiation in papaya are still unclear.We performed comparative analysis of tr...Sex types of papaya are controlled by a pair of nascent sex chromosomes,but molecular genetic mechanisms of sex determination and sex differentiation in papaya are still unclear.We performed comparative analysis of transcriptomic profiles of male and female floral buds at the early development stage before the initiation of reproductive organ primordia at which there is no morphological difference between male and female flowers.A total of 1734 differentially expressed genes(DEGs)were identified,of which 923 showed female-biased expression and 811 showed male-biased expression.Functional annotation revealed that genes related to plant hormone biosynthesis and signaling pathways,especially in abscisic acid and auxin pathways,were overrepresented in the DEGs.Transcription factor binding motifs,such as MYB2,GAMYB,and AP2/EREBP,were enriched in the promoters of the hormone-related DEGs,and transcription factors with those motifs also exhibited differential expression between sex types.Among these DEGs,we also identified 11 genes in the non-recombining region of the papaya sex chromosomes and 9 genes involved in stamen and carpel development.Our results suggested that sex differentiation in papaya may be regulated by multiple layers of regulation and coordination and involved transcriptional,epigenetic,and phytohormone regulation.Hormones,especially ABA and auxin,transcription factors,and genes in the non-recombination region of the sex chromosome could be involved in this process.Our findings may facilitate the elucidation of signal transduction and gene interaction in sex differentiation of unisexual flowers in papaya.展开更多
Objective: Coagulation factor VII(FVII) triggers the extrinsic pathway of blood coagulation. In our previous study, we showed that FVII plays an important role in tumorigenesis of hepatocellular carcinoma(HCC). Howeve...Objective: Coagulation factor VII(FVII) triggers the extrinsic pathway of blood coagulation. In our previous study, we showed that FVII plays an important role in tumorigenesis of hepatocellular carcinoma(HCC). However, the role of FVII polymorphism in HCC is still unknown. The present study aimed to investigate the relationship between HCC carcinogenesis and single nucleotide polymorphism of FVII.Methods: Thirty-seven HCC patients and 30 healthy donors were recruited in this study. Four common FVII gene polymorphisms– a decanucleotide insertion at position –323(–323 ins10-bp), a G to T substitution at position –401(–401 G/T), a G to A substitution at position –402(–402 G/A), and a T to C substitution at position –122(–122 T/C) – were analyzed by sequencing or commercialized assays using genomic DNA isolated from blood samples. Clinicopathological parameters between control and HCC subjects were compared according to the specific genotypes.Results: The most common nucleotide variation was –402 G/A. However, no statistically significant difference was observed between healthy controls and HCC subjects for all four polymorphisms in terms of genotype distribution and allele frequencies,indicating that these polymorphisms may not affect HCC tumorigenesis. Furthermore, no association was found between–402 G/A polymorphisms and tumor stage, recurrence, and overall survival.Conclusions: Our results indicate that FVII polymorphisms may not be a key factor that clinically impact tumorigenesis and outcomes of HCC, although further investigations should be conducted to confirm our findings.展开更多
Crassulacean acid metabolism(CAM)photosynthesis is an innovation of carbon concentrating mechanism that is characterized by nocturnal CO2 fixation.Recent progresses in genomics,transcriptomics,proteomics,and metabolom...Crassulacean acid metabolism(CAM)photosynthesis is an innovation of carbon concentrating mechanism that is characterized by nocturnal CO2 fixation.Recent progresses in genomics,transcriptomics,proteomics,and metabolomics of CAM species yielded new knowledge and abundant genomic resources.In this review,we will discuss the pattern of cis-elements in stomata movement-related genes and CAM CO2 fixation genes,and analyze the expression dynamic of CAM related genes in green leaf tissues.We propose that CAM photosynthesis evolved through the re-organization of existing enzymes and associated membrane transporters in central metabolism and stomatal movement-related genes,at least in part by selection of existing circadian clock cis-regulatory elements in their promoter regions.Better understanding of CAM evolution will help us to design crops that can thrive in arid or semiarid regions,which are likely to expand due to global climate change.展开更多
Gastrointestinal(GI)cancers,which predominantly manifest in the stomach,colorectum,liver,esophagus,and pancreas,accounting for approximately 35%of global cancer-related mortality.The advent of liquid biopsy has introd...Gastrointestinal(GI)cancers,which predominantly manifest in the stomach,colorectum,liver,esophagus,and pancreas,accounting for approximately 35%of global cancer-related mortality.The advent of liquid biopsy has introduced a pivotal diagnostic modality for the early identification of premalignant GI lesions and incipient cancers.This non-invasive technique not only facilitates prompt therapeutic intervention,but also serves as a critical adjunct in prognosticating the likelihood of tumor recurrence.The wealth of circulating exosomes present in body fluids is often enriched with proteins,lipids,microRNAs,and other RNAs derived from tumor cells.These specific cargo components are reflective of processes involved in GI tumorigenesis,tumor progression,and response to treatment.As such,they represent a group of promising biomarkers for aiding in the diagnosis of GI cancer.In this review,we delivered an exhaustive overview of the composition of exosomes and the pathways for cargo sorting within these vesicles.We laid out some of the clinical evidence that supported the utilization of exosomes as diagnostic biomarkers for GI cancers and discussed their potential for clinical application.Furthermore,we addressed the challenges encountered when harnessing exosomes as diagnostic and predictive instruments in the realm of GI cancers.展开更多
In flowering plants,the pollen grain generates a pollen tube to deliver two immotile sperm cells to the embryo sac for double fertilization.After landing on the stigma of the pistil,the pollen grain hydrates and germi...In flowering plants,the pollen grain generates a pollen tube to deliver two immotile sperm cells to the embryo sac for double fertilization.After landing on the stigma of the pistil,the pollen grain hydrates and germinates to produce a pollen tube,which penetrates the style and grows into the transmitting tract.The pollen tube then emerges onto the surface of the septum,grows along the funiculus,responds to the attraction signals from the synergid cells of the embryo sac and targets the ovule micropyle.展开更多
Addressing global challenges such as energy sustainability,food security,and environmental conservation requires innovative agricultural solutions.Modern sugarcane(Saccharum hybrid)is a crucial crop that contributes n...Addressing global challenges such as energy sustainability,food security,and environmental conservation requires innovative agricultural solutions.Modern sugarcane(Saccharum hybrid)is a crucial crop that contributes not only to the sugar industry but also to bioenergy systems.Beyond its traditional role,sugarcane supports global food security,environmental sustainability,and economic empowerment of farmers.Over 80%of the worldwide sugarcane production is dedicated to sugar,a dietary staple(OECD-FAO,2024).The remaining 19%aid biofuel production,with sugarcane accounting for 24%of the global ethanol feedstock by 2033.As a C4 plant,sugarcane efficiently captures atmospheric carbon and acts as an important carbon sink.Additionally,sugarcane cultivation can lower local temperatures by nearly 1°C compared to pastures/natural vegetation(Loarie et al.,2011).Economically,sugarcane is a high-value cash crop,generating$43 billion annually in Brazil alone(Voora et al.,2023).展开更多
基金supported by the grant 2015N20002-1 from the Department of Science and Technology of Fujian Province,US National Science Foundation(NSF)Plant Genome Research Program Award DBI-1546890the National Natural Science Foundation of China(Grant No.31701889).
文摘The ripening of papaya is a physiological and metabolic process associated with accumulation of carotenoids,alternation of flesh color and flavor,which depending on genotype and external factors such as light and hormone.Transcription factors regulating carotenoid biosynthesis have not been analyzed during papaya fruit ripening.RNA-Seq experiments were implemented using different ripening stages of papaya fruit from two papaya varieties.Cis-elements in lycopeneβ-cyclase genes(CpCYC-B and CpLCY-B)were identified,and followed by genome-wide analysis to identify transcription factors binding to these cis-elements,resulting in the identification of CpbHLH1 and CpbHLH2,two bHLH genes.The expressions of CpbHLH1/2 were changed during fruit development,coupled with transcript increase of carotenoid biosynthesis-related genes including CpCYC-B,CpLCY-B,CpPDS2,CpZDS,CpLCY-E,and CpCHY-B.Yeast onehybrid(Y1H)and transient expression assay revealed that CpbHLH1/2 could bind to the promoters of CpCYC-B and CpLCY-B,and regulate their transcriptions.In response to strong light,the results of elevated expression of carotenoid biosynthesis-related genes and the changed expression of CpbHLH1/2 indicated that CpbHLH1/2 were involved in light-mediated mechanisms of regulating critical genes in the carotenoid biosynthesis pathway.Collectively,our findings demonstrated several TF family members participating in the regulation of carotenoid genes and proved that CpbHLH1 and CpbHLH2 individually regulated the transcription of lycopeneβ-cyclase genes(CpCYC-B and CpLCY-B).This study yielded novel findings on regulatory mechanism of carotenoid biosynthesis during papaya fruit ripening.
基金This work was supported by the grant 2015N20002-1 from the Department of Science and Technology of Fujian Province to RM,US National Science Foundation(NSF)Plant Genome Research Program Award DBI-1546890 to R.Mthe scholarship 201608350085 from China Scholarship Council to JL.
文摘Sex types of papaya are controlled by a pair of nascent sex chromosomes,but molecular genetic mechanisms of sex determination and sex differentiation in papaya are still unclear.We performed comparative analysis of transcriptomic profiles of male and female floral buds at the early development stage before the initiation of reproductive organ primordia at which there is no morphological difference between male and female flowers.A total of 1734 differentially expressed genes(DEGs)were identified,of which 923 showed female-biased expression and 811 showed male-biased expression.Functional annotation revealed that genes related to plant hormone biosynthesis and signaling pathways,especially in abscisic acid and auxin pathways,were overrepresented in the DEGs.Transcription factor binding motifs,such as MYB2,GAMYB,and AP2/EREBP,were enriched in the promoters of the hormone-related DEGs,and transcription factors with those motifs also exhibited differential expression between sex types.Among these DEGs,we also identified 11 genes in the non-recombining region of the papaya sex chromosomes and 9 genes involved in stamen and carpel development.Our results suggested that sex differentiation in papaya may be regulated by multiple layers of regulation and coordination and involved transcriptional,epigenetic,and phytohormone regulation.Hormones,especially ABA and auxin,transcription factors,and genes in the non-recombination region of the sex chromosome could be involved in this process.Our findings may facilitate the elucidation of signal transduction and gene interaction in sex differentiation of unisexual flowers in papaya.
文摘Objective: Coagulation factor VII(FVII) triggers the extrinsic pathway of blood coagulation. In our previous study, we showed that FVII plays an important role in tumorigenesis of hepatocellular carcinoma(HCC). However, the role of FVII polymorphism in HCC is still unknown. The present study aimed to investigate the relationship between HCC carcinogenesis and single nucleotide polymorphism of FVII.Methods: Thirty-seven HCC patients and 30 healthy donors were recruited in this study. Four common FVII gene polymorphisms– a decanucleotide insertion at position –323(–323 ins10-bp), a G to T substitution at position –401(–401 G/T), a G to A substitution at position –402(–402 G/A), and a T to C substitution at position –122(–122 T/C) – were analyzed by sequencing or commercialized assays using genomic DNA isolated from blood samples. Clinicopathological parameters between control and HCC subjects were compared according to the specific genotypes.Results: The most common nucleotide variation was –402 G/A. However, no statistically significant difference was observed between healthy controls and HCC subjects for all four polymorphisms in terms of genotype distribution and allele frequencies,indicating that these polymorphisms may not affect HCC tumorigenesis. Furthermore, no association was found between–402 G/A polymorphisms and tumor stage, recurrence, and overall survival.Conclusions: Our results indicate that FVII polymorphisms may not be a key factor that clinically impact tumorigenesis and outcomes of HCC, although further investigations should be conducted to confirm our findings.
基金supported by the grant 2016NZ0001-1 from the Department of Science and Technology of Fujian Province,National Natural Science Foundation of China(31701052)Distinguished Young Scholars Fund in Fujian Agriculture and Forestry University(xjq201609)+1 种基金Natural Science Foundation of Fujian Province(KJd18032A)Program for Excellent Youth Talents in Fujian Province University.
文摘Crassulacean acid metabolism(CAM)photosynthesis is an innovation of carbon concentrating mechanism that is characterized by nocturnal CO2 fixation.Recent progresses in genomics,transcriptomics,proteomics,and metabolomics of CAM species yielded new knowledge and abundant genomic resources.In this review,we will discuss the pattern of cis-elements in stomata movement-related genes and CAM CO2 fixation genes,and analyze the expression dynamic of CAM related genes in green leaf tissues.We propose that CAM photosynthesis evolved through the re-organization of existing enzymes and associated membrane transporters in central metabolism and stomatal movement-related genes,at least in part by selection of existing circadian clock cis-regulatory elements in their promoter regions.Better understanding of CAM evolution will help us to design crops that can thrive in arid or semiarid regions,which are likely to expand due to global climate change.
文摘Gastrointestinal(GI)cancers,which predominantly manifest in the stomach,colorectum,liver,esophagus,and pancreas,accounting for approximately 35%of global cancer-related mortality.The advent of liquid biopsy has introduced a pivotal diagnostic modality for the early identification of premalignant GI lesions and incipient cancers.This non-invasive technique not only facilitates prompt therapeutic intervention,but also serves as a critical adjunct in prognosticating the likelihood of tumor recurrence.The wealth of circulating exosomes present in body fluids is often enriched with proteins,lipids,microRNAs,and other RNAs derived from tumor cells.These specific cargo components are reflective of processes involved in GI tumorigenesis,tumor progression,and response to treatment.As such,they represent a group of promising biomarkers for aiding in the diagnosis of GI cancer.In this review,we delivered an exhaustive overview of the composition of exosomes and the pathways for cargo sorting within these vesicles.We laid out some of the clinical evidence that supported the utilization of exosomes as diagnostic biomarkers for GI cancers and discussed their potential for clinical application.Furthermore,we addressed the challenges encountered when harnessing exosomes as diagnostic and predictive instruments in the realm of GI cancers.
文摘In flowering plants,the pollen grain generates a pollen tube to deliver two immotile sperm cells to the embryo sac for double fertilization.After landing on the stigma of the pistil,the pollen grain hydrates and germinates to produce a pollen tube,which penetrates the style and grows into the transmitting tract.The pollen tube then emerges onto the surface of the septum,grows along the funiculus,responds to the attraction signals from the synergid cells of the embryo sac and targets the ovule micropyle.
文摘Addressing global challenges such as energy sustainability,food security,and environmental conservation requires innovative agricultural solutions.Modern sugarcane(Saccharum hybrid)is a crucial crop that contributes not only to the sugar industry but also to bioenergy systems.Beyond its traditional role,sugarcane supports global food security,environmental sustainability,and economic empowerment of farmers.Over 80%of the worldwide sugarcane production is dedicated to sugar,a dietary staple(OECD-FAO,2024).The remaining 19%aid biofuel production,with sugarcane accounting for 24%of the global ethanol feedstock by 2033.As a C4 plant,sugarcane efficiently captures atmospheric carbon and acts as an important carbon sink.Additionally,sugarcane cultivation can lower local temperatures by nearly 1°C compared to pastures/natural vegetation(Loarie et al.,2011).Economically,sugarcane is a high-value cash crop,generating$43 billion annually in Brazil alone(Voora et al.,2023).
