The WRKY proteins constitute a large family of transcription factors in plants containing highly conserved WRKYGQK sequences and zinc-finger-like motifs. To comprehensively study WRKY III genes in cotton, we analyzed ...The WRKY proteins constitute a large family of transcription factors in plants containing highly conserved WRKYGQK sequences and zinc-finger-like motifs. To comprehensively study WRKY III genes in cotton, we analyzed the genome sequences of Gossypium hirsutum, G. raimondii and G. arboreum. According to the three genome sequences, 18 group III Gh WRKY genes were identified in G. hirsutum, 12 both in G. raimondii and G. arboreum. Phylogenetic and motif analysis showed that proteins with high similarities could be clustered together and had the same motif components. The ratios of non-synonymous(Ka) to synonymous(Ks) of the Gh WRKY to Gr WRKY or Ga WRKY were lower than 1, which indicated that group III WRKY genes in Gossypium species are under purifying selection. Expression analysis revealed that group III Gh WRKY genes expressed during fiber development and leaf senescence, and most of them could be induced by salicylic acid(SA), jasmonic acid(JA), ethylene, abscisic acid(ABA), mannitol, and Na Cl both in roots and cotyledons. Our study gives a briefly introduction on cotton group III WRKY genes and implicates their potential function in cotton fiber development, leaf senescence and abiotic stresses.展开更多
For red-flowered cultivars of tree peony(Paeonia suffruticosa),anthocyanin content is a critical factor determining the different petal pigmentations.Glutathione S-transferases(GSTs)are ubiquitous and multifunctional ...For red-flowered cultivars of tree peony(Paeonia suffruticosa),anthocyanin content is a critical factor determining the different petal pigmentations.Glutathione S-transferases(GSTs)are ubiquitous and multifunctional conjugating proteins that may be responsible for the transport of anthocyanin pigments from the cytoplasm to vacuole.The underlying function of the GST family in tree peony,however,remains unclear.In this study,we systematically isolated and identified a total of 54 putative full-length Ps GST genes through a combination of bioinformatics approaches from transcriptome databases.Intraspecific phylogenetic analyses revealed extensive differentiation in their coding sequences and divided them into 10 of the 14 known classes of plant GSTs.The phylogenetic relationships,evolutionary characteristics,protein domain,and motif organization were clearly conserved among the different phylogenetic subclasses.The results of the RNA-seq and quantitative real-time polymerase chain reaction experiments exhibited extensive variation in gene expression profiles among different developmental stages and varieties.Furthermore,the phylogenetic relationships,expression profiles,protein interactions,weighted gene co-expression network analysis,and correlation analysis results suggested that PsGSTF3(Unigene 0064200)is a candidate participant in anthocyanin transport and the promotion of pigment accumulation,exhibiting a strong positive correlation with anthocyanin content among different tissues(r=0.908**)and an increasing rate of anthocyanin content during the flower developmental process(r=0.961*).These results furthered our understanding of the transport and accumulation functions of the GST family as well as the enhancement of tree peony breeding through molecular biology techniques.展开更多
Catalase is an important antioxidant protein that can protect organisms against various forms of oxidative damage by eliminating hydrogen peroxide. In this study, the catalase c DNA of Paphia textile(Pt CAT) was clone...Catalase is an important antioxidant protein that can protect organisms against various forms of oxidative damage by eliminating hydrogen peroxide. In this study, the catalase c DNA of Paphia textile(Pt CAT) was cloned using RTPCR and rapid amplification of c DNA ends(RACE). Pt CAT is 1 921 bp long and consists of a 5′-UTR of 50 bp, a 3′-UTR of 349 bp, and an ORF of 1 542 bp that encodes 513 amino acids with a molecular weight of 58.4 k D and an estimated isoelectric point of 8.2. Sequence alignment indicated that Pt CAT contained a highly conserved catalytic signature motif(^(61)FNRERIPERVVHAKGAG^(77)), a proximal heme-ligand signature sequence(^(352)RLFSYSDP^(359)), and three catalytic amino acid residues(H^(72), N^(145), and Y^(356)). Pt CAT also contains two putative N-glycosylation sites(^(34)NKT^(36) and ^(437)NFT^(439)) and a peroxisome-targeting signal(^(511)AQL^(513)). Furthermore, Pt CAT shares 53%–88% identity and 29%–89% similarity with other catalase amino acid sequences. Pt CAT m RNA was present in all tested organs, including the heart, digestive gland, adductor muscle, gonad, gill, and mantle, but its expression was highest in the digestive gland. High-temperature-induced stress produced two expression patterns of Pt CAT m RNA: first, an initial up-regulation followed by a down-regulation in the heart, digestive gland, and gonad and, second, consistent down-regulation in all other organs. These results demonstrate that Pt CAT is a typical member of the catalase family and might be involved in the responses to harmful environmental factors.展开更多
Genes containing GTP_EFTU domain mainly express elongation factors(EF),Small GTPases,and GTP-binding proteins,which are closely related to protein synthesis,extension and ATP synthesis.In this study,we identified 39 g...Genes containing GTP_EFTU domain mainly express elongation factors(EF),Small GTPases,and GTP-binding proteins,which are closely related to protein synthesis,extension and ATP synthesis.In this study,we identified 39 genes containing GTP_EFTU domains from peppers.The evolutionary trees constructed from capsicum,Arabidopsis,rice,and tomato are mainly divided into 7 subfamilies.Using PacBio(Pacific Biosciences)sequencing and assembly data,we extracted these 39 gene sequences,fromwhich 25 genes had alternative splicing.Particularly,the Capana08g000545 had 16 alternative splicing processes.Accordingly,we performed promoter sequence analysis,subcellular location prediction,the expression analysis of different tissues and periods,and also the GO(Gene ontology)analysis of co-expressed genes.Lastly we did the qRTPCR analysis in 5 stages of pepper fruit development.These analyses revealed important structural and functional information for the identified 39 genes that contain GTP_EFTU domains,providing important references for further follow-up experiments to verify the genes function on plants or their unique roles in peppers.展开更多
The sucrose non-fermenting-1 related protein kinase(SnRK), whose expression is induced by kinds of hyperosmotic stresses, plays a key role in improving stress resistance of plants. In order to investigate the molecula...The sucrose non-fermenting-1 related protein kinase(SnRK), whose expression is induced by kinds of hyperosmotic stresses, plays a key role in improving stress resistance of plants. In order to investigate the molecular mechanism of low nitrogen resistance in cucumber, the full-length cDNA of SnRK gene was cloned in this study. The result showed that SnRK gene was 1 548 bp in length, encoded 515 amino acids, and had more than 80% homology with other crops. The protein encoded by this gene was an unstable and hydrophilic protein with no transmembrane structure and no signal peptide. Under nitrogen-free conditions and low nitrogen conditions, the expression pattern analysis of SnRK gene showed that this gene was up-regulated and its expression increased and was significantly higher than the normal level as the nitrogen concentration decreased. In addition, the expression of SnRK gene was also inhibited in the high nitrogen level and was significantly lower than the normal level. The result of this study would help us understand the molecular mechanism of low nitrogen resistance in cucumber.展开更多
Alternative ribonucleic acid(RNA)splicing can lead to the assembly of different protein isoforms with distinctive functions.The outcome of alternative splicing(AS)can result in a complete loss of function or the acqui...Alternative ribonucleic acid(RNA)splicing can lead to the assembly of different protein isoforms with distinctive functions.The outcome of alternative splicing(AS)can result in a complete loss of function or the acquisition of new functions.There is a gap in knowledge of abnormal RNA splice variants promoting cancer stem cells(CSCs),and their prospective contribution in cancer progression.AS directly regulates the self-renewal features of stem cells(SCs)and stem-like cancer cells.Notably,octamer-binding transcription factor 4A spliced variant of octamerbinding transcription factor 4 contributes to maintaining stemness properties in both SCs and CSCs.The epithelial to mesenchymal transition pathway regulates the AS events in CSCs to maintain stemness.The alternative spliced variants of CSCs markers,including cluster of differentiation 44,aldehyde dehydrogenase,and doublecortin-like kinase,α6β1 integrin,have pivotal roles in increasing selfrenewal properties and maintaining the pluripotency of CSCs.Various splicing analysis tools are considered in this study.LeafCutter software can be considered as the best tool for differential splicing analysis and identification of the type of splicing events.Additionally,LeafCutter can be used for efficient mapping splicing quantitative trait loci.Altogether,the accumulating evidence re-enforces the fact that gene and protein expression need to be investigated in parallel with alternative splice variants.展开更多
The F-box protein-encoding gene family plays an essential role in plant stress resistance.In present study,126 non-redundant F-box genes were identified in barley(Hordeum vulgare L.,Hv).The corresponding proteins cont...The F-box protein-encoding gene family plays an essential role in plant stress resistance.In present study,126 non-redundant F-box genes were identified in barley(Hordeum vulgare L.,Hv).The corresponding proteins contained 165–887 amino acid residues and all were amphiphilic,except 5 proteins.Phylogenetic analysis of F-box protein sequences in barley and stress-related F-box protein sequences in wheat and Arabidopsis thaliana(At)was used to classify barley F-box genes are divided into 9 subfamilies(A–I).A structure-based sequence alignment demonstrated that F-box proteins were highly conserved with a total of 10 conserved motifs.In total,124 F-box genes were unevenly distributed on 7 chromosomes;another 2 genes have not been anchored yet.The gene structure analysis revealed high variability in the number of exons and introns in F-box genes.Comprehensive analysis of expression profiles and phylogenetic tree analysis,a total of 12 F-box genes that may be related to stress tolerance in barley were screened.Of the 12 detected F-box genes,8 and 10 were upregulated after drought and salt stress treatments,respectively,using quantitative real-time polymerase chain reaction(qRT-PCR).This study is the first systematic analysis conducted on the F-box gene family in barley,which is of great importance for clarifying this family’s bioinformatic characteristics and elucidating its function in barley stress resistance.These results will serve as a theoretical reference for subsequent research on molecular regulation mechanisms,genetic breeding,and improvement.展开更多
4-(Methylnitrosamino)-1-(3-pyridyl)-1-butanone(NNK) is a potent and prevalent nitrosamine procarcinogen found in cigarette smoke. The aim of this work is to study alterations in peroxiredoxin(Prx) expression induced b...4-(Methylnitrosamino)-1-(3-pyridyl)-1-butanone(NNK) is a potent and prevalent nitrosamine procarcinogen found in cigarette smoke. The aim of this work is to study alterations in peroxiredoxin(Prx) expression induced by NNK during carcinogenesis. Characterization of Prx genes from hamster was performed using bioinformatics. V79 cells were induced with different concentrations of NNK(0.1-0.4 mg/mL), and the expression levels of six Prx genes(Prx1-Prx6) were measured by qRT-PCR 24 h following NNK treatment. Prx gene expression was induced by NNK stress, and the highest transcription levels were induced by over 20.42-fold relative to that of the control. NNK induced alterations in Prx expression over the course of lung cancer, which means Prxs may play important roles in ROS detoxification under NNK stress and their functions are complementary.展开更多
The full-length Mlo gene was obtained by reverse transcription polymerase chain reaction(RT-PCR)and RACE.The result of sequence analysis indicated that Mlo gene from Pericallis hybrida B.Nord.contained about 1 296 bp ...The full-length Mlo gene was obtained by reverse transcription polymerase chain reaction(RT-PCR)and RACE.The result of sequence analysis indicated that Mlo gene from Pericallis hybrida B.Nord.contained about 1 296 bp open reading frame and encoded 431 amino acids.According to the comparison of the exogenous gene sequences by BLAST analysis and phylogenetic analysis,Mlo gene shared over 85%nucleotide homology and 98%amino acid homology.Finally,through semi-quantitative-PCR and fluorescence quantitative analysis,we found that Mlo gene showed the highest expression levels in leaves and the lowest in roots after inoculated with powdery mildew pathogen for different days.展开更多
The zinc finger proteins belong to the largest family of transcription factors.But there is little research of Cys2/His2 type zinc finger proteins in cotton,and there is no submission of correlating
Background:Calmodulin(CaM)is one of the most important Ca^(2+)signaling receptors because it regulates diverse physiological and biochemical reactions in plants.CaM functions by interacting with CaM-binding proteins(C...Background:Calmodulin(CaM)is one of the most important Ca^(2+)signaling receptors because it regulates diverse physiological and biochemical reactions in plants.CaM functions by interacting with CaM-binding proteins(CaMBPs)to modulate Ca^(2+)signaling.IQ domain(IQD)proteins are plant-specific CaMBPs that bind to CaM by their specific CaM binding sites.Results:In this study,we identified 102 GhIQD genes in the Gossypium hirsutum L.genome.The GhIQD gene family was classified into four clusters(Ⅰ,Ⅱ,Ⅲ,andⅣ),and we then mapped the GhIQD genes to the G.hirsutum L.chromosomes.Moreover,we found that 100 of the 102 GhIQD genes resulted from segmental duplication events,indicating that segmental duplication is the main force driving GhIQD gene expansion.Gene expression pattern analysis showed that a total of 89 GhIQD genes expressed in the elongation stage and second cell wall biosynthesis stage of the fiber cells,suggesting that GhIQD genes may contribute to fiber cell development in cotton.In addition,we found that 20 selected GhIQD genes were highly expressed in various tissues.Exogenous application of MeJA significantly enhanced the expression levels of GhIQD genes.Conclusions:Our study shows that GhIQD genes are involved in fiber cell development in cotton and are also widely induced by MeJA.Thw results provide bases to systematically characterize the evolution and biological functions of GhIQD genes,as well as clues to breed better cotton varieties in the future.展开更多
Taxol(Paclitaxel),an important anticancer drug,is derived at very low yields from Taxus(yew)species that grow very slowly.In the present study,thirteen genes that encode enzymes involved in Taxol biosynthesis in Taxus...Taxol(Paclitaxel),an important anticancer drug,is derived at very low yields from Taxus(yew)species that grow very slowly.In the present study,thirteen genes that encode enzymes involved in Taxol biosynthesis in Taxus spp.were analyzed with bioinformatics methods,and their expression levels in different tissues and after cold and hormone treatments were also analyzed.The results indicated that many cis-elements related to abiotic stresses and hormones were found in the promoter sequences of the 8 genes involved in Taxol biosynthesis.Moreover,the 13 enzymes encoded by the target genes were located in different organelles and had many phosphorylation sites in the response proteins.The 13 genes were expressed highly either in roots or in stems,with lower transcripts in needles,and they were highly expressed after treatment with cold,gibberellin,methyl jasmonate or coronatine,consistent with predictions based on the bioinformatics analysis.These results suggest that the factors such as hormones and abiotic stresses stimulate taxane biosynthesis in yews,providing an important way to sustainably generate taxanes from yew trees or their cell cultures to improve Taxol yields.展开更多
Objective: To identify module genes that are closely related to clinical features of hepatocellular carcinoma (HCC) by weighted gene co‑expression network analysis, and to provide a reference for early clinical diagno...Objective: To identify module genes that are closely related to clinical features of hepatocellular carcinoma (HCC) by weighted gene co‑expression network analysis, and to provide a reference for early clinical diagnosis and treatment. Methods: GSE84598 chip data were downloaded from the GEO database, and module genes closely related to the clinical features of HCC were extracted by comprehensive weighted gene co‑expression network analysis. Hub genes were identified through protein interaction network analysis by the maximum clique centrality (MCC) algorithm;Finally, the expression of hub genes was validated by TCGA database and the Kaplan Meier plotter online database was used to evaluate the prognostic relationship between hub genes and HCC patients. Results: By comparing the gene expression data between HCC tissue samples and normal liver tissue samples, a total of 6 262 differentially expressed genes were obtained, of which 2 207 were upregulated and 4 055 were downregulated. Weighted gene co‑expression network analysis was applied to identify 120 genes of key modules. By intersecting with the differentially expressed genes, 115 candidate hub genes were obtained. The results of enrichment analysis showed that the candidate hub genes were closely related to cell mitosis, p53 signaling pathway and so on. Further application of the MCC algorithm to the protein interaction network of 115 candidate hub genes identified five hub genes, namely NUF2, RRM2, UBE2C, CDC20 and MAD2L1. Validation of hub genes by TCGA database revealed that all five hub genes were significantly upregulated in HCC tissues compared to normal liver tissues;Moreover, survival analysis revealed that high expression of hub genes was closely associated with poor prognosis in HCC patients. Conclusions: This study identifies five hub genes by combining multiple databases, which may provide directions for the clinical diagnosis and treatment of HCC.展开更多
A hexokinase gene named MdHXK1(MDP0000309677) was cloned from ‘Gala' apple(Malus × domestica Borkh.). Sequence analysis showed that the MdHXK1 gene was 1 497 bp long and encoded 499 amino acids. The predicte...A hexokinase gene named MdHXK1(MDP0000309677) was cloned from ‘Gala' apple(Malus × domestica Borkh.). Sequence analysis showed that the MdHXK1 gene was 1 497 bp long and encoded 499 amino acids. The predicted molecular mass of this protein was 54.05 kD, and the pI was 5.76. A phylogenetic tree indicated apple MdHXK1 exhibited the highest sequence similarity to Pyrus bretschneideri PbHXK1. Analysis of the functional domain showed that the MdHXK1 protein included two conserved kinase domains. The prediction of subcellular localization suggested that the MdHXK1 protein was mainly localized in the cytoplasm. There was an indication that MdHXK1 existed as one copy in the apple genome by Southern blotting. Silico analysis suggested that the promoter sequence contained several typical cis-acting elements, including defense, sugar signaling and phytohormone responsive elements. Quantitative real-time PCR analysis demonstrated that the MdHXK1 gene was mainly expressed in stem and flower tissues. During the development of apple fruits, the expression of the MdHXK1 gene initially increased and then decreased. The changes on Glc phosphorylation relative activity and glucose concentration showed the same trend. In addition, the expression of this gene was induced by salt stress, low temperature, and abscisic acid(ABA). Finally, we obtained and purified the fused MdHXK1 protein by recombinant prokaryotic expression. Studies have demonstrated that MdHXK1 may participate in sugar metabolism in apple fruits. Enzyme encoded by MdHXK1 is a key factor in the mediation of sugar accumulation. Recently,researchers on hexokinase at home and abroad mainly focused on model plants, such as Arabidopsis, tobacco and rice, but orchard fruit like apple were underresearched. Our research established the foundation for the further study of the functions of MdHXK1.展开更多
Understanding how human cardiomyocytes mature is crucial to realizing stem cell-based heart regeneration, modeling adult heart diseases, and facilitating drug discovery. However, it is not feasible to analyze human sa...Understanding how human cardiomyocytes mature is crucial to realizing stem cell-based heart regeneration, modeling adult heart diseases, and facilitating drug discovery. However, it is not feasible to analyze human samples for maturation due to inaccessibility to samples while cardiomyocytes mature during fetal development and childhood, as well as dif?culty in avoiding variations among individuals. Using model animals such as mice can be a useful strategy; nonetheless, it is not well-understood whether and to what degree gene expression pro?les during maturation are shared between humans and mice. Therefore, we performed a comparative gene expression analysis of mice and human samples. First, we examined two distinct mice microarray platforms for shared gene expression pro?les, aiming to increase reliability of the analysis. We identi?ed a set of genes displaying progressive changes during maturation based on principal component analysis. Second, we demonstrated that the genes identi?ed had a differential expression pattern between adult and earlier stages(e.g., fetus) common in mice and humans. Our ?ndings provide a foundation for further genetic studies of cardiomyocyte maturation.展开更多
A bHLH transcription factor that is induced by low temperature was found in apple(Malus×domestica Borkh.). To understand the sequence characteristics of the gene, bioinformatics analysis was performed. Furthermor...A bHLH transcription factor that is induced by low temperature was found in apple(Malus×domestica Borkh.). To understand the sequence characteristics of the gene, bioinformatics analysis was performed. Furthermore, gene expression patterns of the laminated apple seeds and lateral flower buds were analyzed during the period of dormancy release with semi-quantitative RT-PCR. Based on secondary structure predictions, the results showed that the MdCIbHLH1 protein structure mainly included α-helix and random coil, while β-sheet and extended strand content was less. Semi-quantitative RT-PCR analysis showed that the expression patterns of MdCIbHLH1 were similar in laminated apple seeds and lateral flower buds during the period of dormancy release. Before dormancy release, expression levels of MdCIbHLH1 were high and gradually decreased during the period of dormancy release. These results indicated that MdCIbHLH1 might play an important role during dormancy release in apple seeds and apple buds.展开更多
Objective: To clone and investigate two dehydrodolichyl diphosphate synthase genes of Tripterygium wilfordii by bioinformatics and tissue expression analysis. Materials and Methods: According to the T. wifordii transc...Objective: To clone and investigate two dehydrodolichyl diphosphate synthase genes of Tripterygium wilfordii by bioinformatics and tissue expression analysis. Materials and Methods: According to the T. wifordii transcriptome database, specific primers were designed to clone the TwDHDDS1 and TwDHDDS2 genes via PCR. Based on the cloned sequences, protein structure prediction, multiple sequence alignment and phylogenetic tree construction were performed. The expression levels of the genes in different tissues of T. wilfordii were measured by real?time quantitative PCR. Results: The TwDHDDS1 gene encompassed a 873 bp open reading frame(ORF) and encoded a protein of 290 amino acids. The calculated molecular weight of the translated protein was about 33.46 kDa, and the theoretical isoelectric point(pI) was 8.67. The TwDHDDS2 encompassed a 768 bp ORF, encoding a protein of 255 amino acids with a calculated molecular weight of about 21.19 kDa, and a theoretical isoelectric point(pI) of 7.72. Plant tissue expression analysis indicated that TwD HDDS1 and TwDHDDS2 both have relatively ubiquitous expression in all sampled organ tissues, but showed the highest transcription levels in the stems. Conclusions: The results of this study provide a basis for further functional studies of TwDHDDS1 and TwDHDDS2. Most importantly, these genes are promising genetic targets for the regulation of the biosynthetic pathways of important bioactive terpenoids such as triptolide.展开更多
Background:NAC,as a unique transcription factor to plants,plays important roles in multiple biological functions,such as regulation of plant growth and development,hormone levels,and responses to various kinds of stre...Background:NAC,as a unique transcription factor to plants,plays important roles in multiple biological functions,such as regulation of plant growth and development,hormone levels,and responses to various kinds of stresses.However,there is a lack of research of NAC genes in Chinese herbs.Objective:The study aimed to evaluate the potential functions of NAC genes in Scutellaria baicalensis by bioinformatics and expression analysis,and provide evidence of the molecular regulation mechanism involved in flavonoid biosynthesis in S.baicalensis.Methods:The genes of NAC transcription factors in S.baicalensis were obtained from cDNA library and their functions were explored using bioinformatic methods.The NAC genes were screened from the cDNA library of S.baicalensis using BLAST comparison software.Then,the open reading frame(ORF) finder online tool was used to predict the full-length ORFs of NAC genes and their protein characteristics were explored by bioinformatic methods.The expression of NAC genes was then detected by quantitative polymerase chain reaction in different parts of S.baicalensis and different leaves treated by gibberellin GA3 treatment.Results:Six genes of NAC transcription factors were cloned,two of which had complete ORFs.NAC genes cloned in this study were mainly expressed in the flowers of S.baicalensis.The expression levels of NAC2,NAC3,NAC4,NAC5,NAC6 were increased firstly and then decreased gradually after 100 μM GA3 treatment.Meanwhile,some NACs and PAL2 in S.baicalensis showed strong correlation.Conclusion:This study suggested that NACs cloned in this study were mainly regulated the flavonoid biosynthesis in the flowers of S.baicalensis;NAC6 in S.baicalensis might be involved in the regulation of PAL2 transcription and affected the accumulation of flavonoids in the root of S.baicalensis.Our results provided a basis for further understanding the molecular regulation mechanism of flavonoid biosynthesis in S.baicalensis.展开更多
Nicotinamide treatment of plants and plant cell cultures has been shown to promote defense and decrease levels of DNA methylation.In the present study,we used RNA-seq technology to study overall changes in gene expres...Nicotinamide treatment of plants and plant cell cultures has been shown to promote defense and decrease levels of DNA methylation.In the present study,we used RNA-seq technology to study overall changes in gene expression induced in roots of 3-month-old spruce(Picea abies)seedlings grown from nicotinamide-treated seeds to examine the molecular mechanisms underlying the defense promotion.Approximately 350 genes were identified as differentially expressed in roots after the seed treatment.Stress response genes,including transcription factors MYB77 and LHY and two chitinase enzymes,were generally upregulated,whereas genes thought to be involved in epigenetic regulation such as DDM1,known to promote DNA methylation,were present at high frequency among the downregulated genes.Across all samples,the expression of downregulated epigenetic-related genes was highly correlated with the nicotinamide treatment,indicating a common regulation.Our results support an earlier hypothesis regarding a potential role of nicotinamide as a defense-signal mediator.展开更多
Objectives:The bacteriostatic effects of a citral nanoemulsion against Shewanella putrefaciens CN-32(SHP CN-32)were investigated using in vitro culture and gene expression analysis,forbuilding a potential application ...Objectives:The bacteriostatic effects of a citral nanoemulsion against Shewanella putrefaciens CN-32(SHP CN-32)were investigated using in vitro culture and gene expression analysis,forbuilding a potential application in spoilage microorganism control and aquatic products quality maintenance.Materials and Methods:SHP CN-32 was treated by prepared citral nanoemulsion when the minimal inhibitory concentration(MIC)was verified.The growth curve,membrane integrity,scanning electron microscope(SEM)observation,biofilm formation and quorum sensing(QS)signaling molecule Al-2 content were evaluated in different MIC treatment groups(0 to 1.00 MIC).The gene expression status of SHP CN-32 in O and 0.50 MIC groups were compared using transcriptome sequencing and quantitative polymerase chain reaction(PCR).Results:The in vitro culture revealed that the citral nanoemulsion could inhibit the growth of SHP CN-32 with MIC of approximately 200μg/mL.Images of membrane integrity.SEM and biofilm formation suggested significant biological structure damage in bacteria after treatment.Meanwhile,the Qs signaling molecule Al-2 content showed a decline with increasing treatment concentration.Transcriptome sequencing and quantitative PCR revealed that the majority genes related diversified functional metabolic pathways of SHP CN-32 were downregulated at varying degree.Conclusion:A significant bacteriostasis of citral nanoemulsion against SHP CN-32 was verified via the results of growth inhibition,structural destruction,signal molecular decrease and gene expression downregulation of strains.These synergies significantly affect the characteristic expression of SHP CN-32,revealing the application potential as bacteriostat,QS inhibitor and preservative in aquatic products.展开更多
基金the National High-Tech R&D Program of China(2013AA102601)for the financial support provided to this project
文摘The WRKY proteins constitute a large family of transcription factors in plants containing highly conserved WRKYGQK sequences and zinc-finger-like motifs. To comprehensively study WRKY III genes in cotton, we analyzed the genome sequences of Gossypium hirsutum, G. raimondii and G. arboreum. According to the three genome sequences, 18 group III Gh WRKY genes were identified in G. hirsutum, 12 both in G. raimondii and G. arboreum. Phylogenetic and motif analysis showed that proteins with high similarities could be clustered together and had the same motif components. The ratios of non-synonymous(Ka) to synonymous(Ks) of the Gh WRKY to Gr WRKY or Ga WRKY were lower than 1, which indicated that group III WRKY genes in Gossypium species are under purifying selection. Expression analysis revealed that group III Gh WRKY genes expressed during fiber development and leaf senescence, and most of them could be induced by salicylic acid(SA), jasmonic acid(JA), ethylene, abscisic acid(ABA), mannitol, and Na Cl both in roots and cotyledons. Our study gives a briefly introduction on cotton group III WRKY genes and implicates their potential function in cotton fiber development, leaf senescence and abiotic stresses.
基金supported by grants from the National Key Research and Development Program (Grant No.2018YFD1000405)。
文摘For red-flowered cultivars of tree peony(Paeonia suffruticosa),anthocyanin content is a critical factor determining the different petal pigmentations.Glutathione S-transferases(GSTs)are ubiquitous and multifunctional conjugating proteins that may be responsible for the transport of anthocyanin pigments from the cytoplasm to vacuole.The underlying function of the GST family in tree peony,however,remains unclear.In this study,we systematically isolated and identified a total of 54 putative full-length Ps GST genes through a combination of bioinformatics approaches from transcriptome databases.Intraspecific phylogenetic analyses revealed extensive differentiation in their coding sequences and divided them into 10 of the 14 known classes of plant GSTs.The phylogenetic relationships,evolutionary characteristics,protein domain,and motif organization were clearly conserved among the different phylogenetic subclasses.The results of the RNA-seq and quantitative real-time polymerase chain reaction experiments exhibited extensive variation in gene expression profiles among different developmental stages and varieties.Furthermore,the phylogenetic relationships,expression profiles,protein interactions,weighted gene co-expression network analysis,and correlation analysis results suggested that PsGSTF3(Unigene 0064200)is a candidate participant in anthocyanin transport and the promotion of pigment accumulation,exhibiting a strong positive correlation with anthocyanin content among different tissues(r=0.908**)and an increasing rate of anthocyanin content during the flower developmental process(r=0.961*).These results furthered our understanding of the transport and accumulation functions of the GST family as well as the enhancement of tree peony breeding through molecular biology techniques.
基金The National Natural Science Foundation of China under contract No.31172397the New Century Excellent Talents of Fujian Province University under contract No.JA14167the Open Research Fund Program of Fujian Provincial Key Laboratory of Marine Fishery Resources and Eco-environment under contract No.Z814041
文摘Catalase is an important antioxidant protein that can protect organisms against various forms of oxidative damage by eliminating hydrogen peroxide. In this study, the catalase c DNA of Paphia textile(Pt CAT) was cloned using RTPCR and rapid amplification of c DNA ends(RACE). Pt CAT is 1 921 bp long and consists of a 5′-UTR of 50 bp, a 3′-UTR of 349 bp, and an ORF of 1 542 bp that encodes 513 amino acids with a molecular weight of 58.4 k D and an estimated isoelectric point of 8.2. Sequence alignment indicated that Pt CAT contained a highly conserved catalytic signature motif(^(61)FNRERIPERVVHAKGAG^(77)), a proximal heme-ligand signature sequence(^(352)RLFSYSDP^(359)), and three catalytic amino acid residues(H^(72), N^(145), and Y^(356)). Pt CAT also contains two putative N-glycosylation sites(^(34)NKT^(36) and ^(437)NFT^(439)) and a peroxisome-targeting signal(^(511)AQL^(513)). Furthermore, Pt CAT shares 53%–88% identity and 29%–89% similarity with other catalase amino acid sequences. Pt CAT m RNA was present in all tested organs, including the heart, digestive gland, adductor muscle, gonad, gill, and mantle, but its expression was highest in the digestive gland. High-temperature-induced stress produced two expression patterns of Pt CAT m RNA: first, an initial up-regulation followed by a down-regulation in the heart, digestive gland, and gonad and, second, consistent down-regulation in all other organs. These results demonstrate that Pt CAT is a typical member of the catalase family and might be involved in the responses to harmful environmental factors.
基金supported by The General Program of National Natural Science Foundation of China(Grant No.C150202)The National Key Research and Development Programof China(Grant No.2019YFD1000300)The Hunan province Key Research and Development Program of China(Grant No.2019NK2191)。
文摘Genes containing GTP_EFTU domain mainly express elongation factors(EF),Small GTPases,and GTP-binding proteins,which are closely related to protein synthesis,extension and ATP synthesis.In this study,we identified 39 genes containing GTP_EFTU domains from peppers.The evolutionary trees constructed from capsicum,Arabidopsis,rice,and tomato are mainly divided into 7 subfamilies.Using PacBio(Pacific Biosciences)sequencing and assembly data,we extracted these 39 gene sequences,fromwhich 25 genes had alternative splicing.Particularly,the Capana08g000545 had 16 alternative splicing processes.Accordingly,we performed promoter sequence analysis,subcellular location prediction,the expression analysis of different tissues and periods,and also the GO(Gene ontology)analysis of co-expressed genes.Lastly we did the qRTPCR analysis in 5 stages of pepper fruit development.These analyses revealed important structural and functional information for the identified 39 genes that contain GTP_EFTU domains,providing important references for further follow-up experiments to verify the genes function on plants or their unique roles in peppers.
基金Supported by the National Natural Science Foundation of China(31101545)the Planning Subject of Twelfth Five-year-plan in National Science and Technology for Rural Development in China(2012AA100105)
文摘The sucrose non-fermenting-1 related protein kinase(SnRK), whose expression is induced by kinds of hyperosmotic stresses, plays a key role in improving stress resistance of plants. In order to investigate the molecular mechanism of low nitrogen resistance in cucumber, the full-length cDNA of SnRK gene was cloned in this study. The result showed that SnRK gene was 1 548 bp in length, encoded 515 amino acids, and had more than 80% homology with other crops. The protein encoded by this gene was an unstable and hydrophilic protein with no transmembrane structure and no signal peptide. Under nitrogen-free conditions and low nitrogen conditions, the expression pattern analysis of SnRK gene showed that this gene was up-regulated and its expression increased and was significantly higher than the normal level as the nitrogen concentration decreased. In addition, the expression of SnRK gene was also inhibited in the high nitrogen level and was significantly lower than the normal level. The result of this study would help us understand the molecular mechanism of low nitrogen resistance in cucumber.
文摘Alternative ribonucleic acid(RNA)splicing can lead to the assembly of different protein isoforms with distinctive functions.The outcome of alternative splicing(AS)can result in a complete loss of function or the acquisition of new functions.There is a gap in knowledge of abnormal RNA splice variants promoting cancer stem cells(CSCs),and their prospective contribution in cancer progression.AS directly regulates the self-renewal features of stem cells(SCs)and stem-like cancer cells.Notably,octamer-binding transcription factor 4A spliced variant of octamerbinding transcription factor 4 contributes to maintaining stemness properties in both SCs and CSCs.The epithelial to mesenchymal transition pathway regulates the AS events in CSCs to maintain stemness.The alternative spliced variants of CSCs markers,including cluster of differentiation 44,aldehyde dehydrogenase,and doublecortin-like kinase,α6β1 integrin,have pivotal roles in increasing selfrenewal properties and maintaining the pluripotency of CSCs.Various splicing analysis tools are considered in this study.LeafCutter software can be considered as the best tool for differential splicing analysis and identification of the type of splicing events.Additionally,LeafCutter can be used for efficient mapping splicing quantitative trait loci.Altogether,the accumulating evidence re-enforces the fact that gene and protein expression need to be investigated in parallel with alternative splice variants.
基金This work was supported by the National Undergraduate Training Programs for Innovation and Entrepreneurship(No.201910346054)for L.Z.
文摘The F-box protein-encoding gene family plays an essential role in plant stress resistance.In present study,126 non-redundant F-box genes were identified in barley(Hordeum vulgare L.,Hv).The corresponding proteins contained 165–887 amino acid residues and all were amphiphilic,except 5 proteins.Phylogenetic analysis of F-box protein sequences in barley and stress-related F-box protein sequences in wheat and Arabidopsis thaliana(At)was used to classify barley F-box genes are divided into 9 subfamilies(A–I).A structure-based sequence alignment demonstrated that F-box proteins were highly conserved with a total of 10 conserved motifs.In total,124 F-box genes were unevenly distributed on 7 chromosomes;another 2 genes have not been anchored yet.The gene structure analysis revealed high variability in the number of exons and introns in F-box genes.Comprehensive analysis of expression profiles and phylogenetic tree analysis,a total of 12 F-box genes that may be related to stress tolerance in barley were screened.Of the 12 detected F-box genes,8 and 10 were upregulated after drought and salt stress treatments,respectively,using quantitative real-time polymerase chain reaction(qRT-PCR).This study is the first systematic analysis conducted on the F-box gene family in barley,which is of great importance for clarifying this family’s bioinformatic characteristics and elucidating its function in barley stress resistance.These results will serve as a theoretical reference for subsequent research on molecular regulation mechanisms,genetic breeding,and improvement.
基金supported by Doctor Foundation of Zhengzhou University of Light IndustryScientific and technological research projects in Zhengzhou City(141PPTGG399)Scientific and technological research projects in Henan province
文摘4-(Methylnitrosamino)-1-(3-pyridyl)-1-butanone(NNK) is a potent and prevalent nitrosamine procarcinogen found in cigarette smoke. The aim of this work is to study alterations in peroxiredoxin(Prx) expression induced by NNK during carcinogenesis. Characterization of Prx genes from hamster was performed using bioinformatics. V79 cells were induced with different concentrations of NNK(0.1-0.4 mg/mL), and the expression levels of six Prx genes(Prx1-Prx6) were measured by qRT-PCR 24 h following NNK treatment. Prx gene expression was induced by NNK stress, and the highest transcription levels were induced by over 20.42-fold relative to that of the control. NNK induced alterations in Prx expression over the course of lung cancer, which means Prxs may play important roles in ROS detoxification under NNK stress and their functions are complementary.
基金Supported by Postdoctoral Scientifi c Research Foundation of Heilongjiang Province(LBH-Q10144)the Natural Science Foundation of Heilongjiang Province(C201112)Northeast Agricultural University Doctoral Research Fund(200830)
文摘The full-length Mlo gene was obtained by reverse transcription polymerase chain reaction(RT-PCR)and RACE.The result of sequence analysis indicated that Mlo gene from Pericallis hybrida B.Nord.contained about 1 296 bp open reading frame and encoded 431 amino acids.According to the comparison of the exogenous gene sequences by BLAST analysis and phylogenetic analysis,Mlo gene shared over 85%nucleotide homology and 98%amino acid homology.Finally,through semi-quantitative-PCR and fluorescence quantitative analysis,we found that Mlo gene showed the highest expression levels in leaves and the lowest in roots after inoculated with powdery mildew pathogen for different days.
文摘The zinc finger proteins belong to the largest family of transcription factors.But there is little research of Cys2/His2 type zinc finger proteins in cotton,and there is no submission of correlating
基金the State Key Laboratory of Cotton Biology Open Fund(grant numbers CB2019A03 and CB2018A07)comprehensive Scientific research fund project of Xianyang Normal University(XSYK20002)+2 种基金the Innovation and Entrepreneurship Training Program for College Students in Shaanxi Province(S202010722071)the National Natural Science Foundation of China(grant number 31872175)Key Research and Development Program of Shaanxi Province(grant number 2019NY-103).
文摘Background:Calmodulin(CaM)is one of the most important Ca^(2+)signaling receptors because it regulates diverse physiological and biochemical reactions in plants.CaM functions by interacting with CaM-binding proteins(CaMBPs)to modulate Ca^(2+)signaling.IQ domain(IQD)proteins are plant-specific CaMBPs that bind to CaM by their specific CaM binding sites.Results:In this study,we identified 102 GhIQD genes in the Gossypium hirsutum L.genome.The GhIQD gene family was classified into four clusters(Ⅰ,Ⅱ,Ⅲ,andⅣ),and we then mapped the GhIQD genes to the G.hirsutum L.chromosomes.Moreover,we found that 100 of the 102 GhIQD genes resulted from segmental duplication events,indicating that segmental duplication is the main force driving GhIQD gene expansion.Gene expression pattern analysis showed that a total of 89 GhIQD genes expressed in the elongation stage and second cell wall biosynthesis stage of the fiber cells,suggesting that GhIQD genes may contribute to fiber cell development in cotton.In addition,we found that 20 selected GhIQD genes were highly expressed in various tissues.Exogenous application of MeJA significantly enhanced the expression levels of GhIQD genes.Conclusions:Our study shows that GhIQD genes are involved in fiber cell development in cotton and are also widely induced by MeJA.Thw results provide bases to systematically characterize the evolution and biological functions of GhIQD genes,as well as clues to breed better cotton varieties in the future.
基金This work was supported by National Natural Science Foundation of China(31570675)a Grant from the National Key Research and Development Program of China(2017YFD060070605)a Grant for National non-profit Research Institutions of Chinese Academy of Forestry(CAFYBB2018SY009).
文摘Taxol(Paclitaxel),an important anticancer drug,is derived at very low yields from Taxus(yew)species that grow very slowly.In the present study,thirteen genes that encode enzymes involved in Taxol biosynthesis in Taxus spp.were analyzed with bioinformatics methods,and their expression levels in different tissues and after cold and hormone treatments were also analyzed.The results indicated that many cis-elements related to abiotic stresses and hormones were found in the promoter sequences of the 8 genes involved in Taxol biosynthesis.Moreover,the 13 enzymes encoded by the target genes were located in different organelles and had many phosphorylation sites in the response proteins.The 13 genes were expressed highly either in roots or in stems,with lower transcripts in needles,and they were highly expressed after treatment with cold,gibberellin,methyl jasmonate or coronatine,consistent with predictions based on the bioinformatics analysis.These results suggest that the factors such as hormones and abiotic stresses stimulate taxane biosynthesis in yews,providing an important way to sustainably generate taxanes from yew trees or their cell cultures to improve Taxol yields.
基金National Natural Science Foundation of China (No.81760851)Guangxi University Youth Promotion Program (No.2019KY0348)。
文摘Objective: To identify module genes that are closely related to clinical features of hepatocellular carcinoma (HCC) by weighted gene co‑expression network analysis, and to provide a reference for early clinical diagnosis and treatment. Methods: GSE84598 chip data were downloaded from the GEO database, and module genes closely related to the clinical features of HCC were extracted by comprehensive weighted gene co‑expression network analysis. Hub genes were identified through protein interaction network analysis by the maximum clique centrality (MCC) algorithm;Finally, the expression of hub genes was validated by TCGA database and the Kaplan Meier plotter online database was used to evaluate the prognostic relationship between hub genes and HCC patients. Results: By comparing the gene expression data between HCC tissue samples and normal liver tissue samples, a total of 6 262 differentially expressed genes were obtained, of which 2 207 were upregulated and 4 055 were downregulated. Weighted gene co‑expression network analysis was applied to identify 120 genes of key modules. By intersecting with the differentially expressed genes, 115 candidate hub genes were obtained. The results of enrichment analysis showed that the candidate hub genes were closely related to cell mitosis, p53 signaling pathway and so on. Further application of the MCC algorithm to the protein interaction network of 115 candidate hub genes identified five hub genes, namely NUF2, RRM2, UBE2C, CDC20 and MAD2L1. Validation of hub genes by TCGA database revealed that all five hub genes were significantly upregulated in HCC tissues compared to normal liver tissues;Moreover, survival analysis revealed that high expression of hub genes was closely associated with poor prognosis in HCC patients. Conclusions: This study identifies five hub genes by combining multiple databases, which may provide directions for the clinical diagnosis and treatment of HCC.
基金supported by the National Science Foundation for Distinguished Young Scholars of China(Grant No.31325024)Innovation Team Project of Shandong Modern Agricultural Industry Technology System(SDAIT-03-022-03)
文摘A hexokinase gene named MdHXK1(MDP0000309677) was cloned from ‘Gala' apple(Malus × domestica Borkh.). Sequence analysis showed that the MdHXK1 gene was 1 497 bp long and encoded 499 amino acids. The predicted molecular mass of this protein was 54.05 kD, and the pI was 5.76. A phylogenetic tree indicated apple MdHXK1 exhibited the highest sequence similarity to Pyrus bretschneideri PbHXK1. Analysis of the functional domain showed that the MdHXK1 protein included two conserved kinase domains. The prediction of subcellular localization suggested that the MdHXK1 protein was mainly localized in the cytoplasm. There was an indication that MdHXK1 existed as one copy in the apple genome by Southern blotting. Silico analysis suggested that the promoter sequence contained several typical cis-acting elements, including defense, sugar signaling and phytohormone responsive elements. Quantitative real-time PCR analysis demonstrated that the MdHXK1 gene was mainly expressed in stem and flower tissues. During the development of apple fruits, the expression of the MdHXK1 gene initially increased and then decreased. The changes on Glc phosphorylation relative activity and glucose concentration showed the same trend. In addition, the expression of this gene was induced by salt stress, low temperature, and abscisic acid(ABA). Finally, we obtained and purified the fused MdHXK1 protein by recombinant prokaryotic expression. Studies have demonstrated that MdHXK1 may participate in sugar metabolism in apple fruits. Enzyme encoded by MdHXK1 is a key factor in the mediation of sugar accumulation. Recently,researchers on hexokinase at home and abroad mainly focused on model plants, such as Arabidopsis, tobacco and rice, but orchard fruit like apple were underresearched. Our research established the foundation for the further study of the functions of MdHXK1.
基金supported by Maryland Stem Cell Research Fund, USA (Grant No. 2015-MSCRFF-1765)supported by the grants from the Ministry of Education, Science (grant No. KAKENHI 26120528) and Chuo University joint research grant
文摘Understanding how human cardiomyocytes mature is crucial to realizing stem cell-based heart regeneration, modeling adult heart diseases, and facilitating drug discovery. However, it is not feasible to analyze human samples for maturation due to inaccessibility to samples while cardiomyocytes mature during fetal development and childhood, as well as dif?culty in avoiding variations among individuals. Using model animals such as mice can be a useful strategy; nonetheless, it is not well-understood whether and to what degree gene expression pro?les during maturation are shared between humans and mice. Therefore, we performed a comparative gene expression analysis of mice and human samples. First, we examined two distinct mice microarray platforms for shared gene expression pro?les, aiming to increase reliability of the analysis. We identi?ed a set of genes displaying progressive changes during maturation based on principal component analysis. Second, we demonstrated that the genes identi?ed had a differential expression pattern between adult and earlier stages(e.g., fetus) common in mice and humans. Our ?ndings provide a foundation for further genetic studies of cardiomyocyte maturation.
基金supported by National Natural Science Foundation of China (31171946)Program for Changjiang Scholars and lnnovative Research Team in University (IRT1155)
文摘A bHLH transcription factor that is induced by low temperature was found in apple(Malus×domestica Borkh.). To understand the sequence characteristics of the gene, bioinformatics analysis was performed. Furthermore, gene expression patterns of the laminated apple seeds and lateral flower buds were analyzed during the period of dormancy release with semi-quantitative RT-PCR. Based on secondary structure predictions, the results showed that the MdCIbHLH1 protein structure mainly included α-helix and random coil, while β-sheet and extended strand content was less. Semi-quantitative RT-PCR analysis showed that the expression patterns of MdCIbHLH1 were similar in laminated apple seeds and lateral flower buds during the period of dormancy release. Before dormancy release, expression levels of MdCIbHLH1 were high and gradually decreased during the period of dormancy release. These results indicated that MdCIbHLH1 might play an important role during dormancy release in apple seeds and apple buds.
文摘Objective: To clone and investigate two dehydrodolichyl diphosphate synthase genes of Tripterygium wilfordii by bioinformatics and tissue expression analysis. Materials and Methods: According to the T. wifordii transcriptome database, specific primers were designed to clone the TwDHDDS1 and TwDHDDS2 genes via PCR. Based on the cloned sequences, protein structure prediction, multiple sequence alignment and phylogenetic tree construction were performed. The expression levels of the genes in different tissues of T. wilfordii were measured by real?time quantitative PCR. Results: The TwDHDDS1 gene encompassed a 873 bp open reading frame(ORF) and encoded a protein of 290 amino acids. The calculated molecular weight of the translated protein was about 33.46 kDa, and the theoretical isoelectric point(pI) was 8.67. The TwDHDDS2 encompassed a 768 bp ORF, encoding a protein of 255 amino acids with a calculated molecular weight of about 21.19 kDa, and a theoretical isoelectric point(pI) of 7.72. Plant tissue expression analysis indicated that TwD HDDS1 and TwDHDDS2 both have relatively ubiquitous expression in all sampled organ tissues, but showed the highest transcription levels in the stems. Conclusions: The results of this study provide a basis for further functional studies of TwDHDDS1 and TwDHDDS2. Most importantly, these genes are promising genetic targets for the regulation of the biosynthetic pathways of important bioactive terpenoids such as triptolide.
基金supported by the National Natural Science Foundation of China(81373959,81325023)the Fundamental Research Funds for the Central public welfare research institutes(ZZ10-008)
文摘Background:NAC,as a unique transcription factor to plants,plays important roles in multiple biological functions,such as regulation of plant growth and development,hormone levels,and responses to various kinds of stresses.However,there is a lack of research of NAC genes in Chinese herbs.Objective:The study aimed to evaluate the potential functions of NAC genes in Scutellaria baicalensis by bioinformatics and expression analysis,and provide evidence of the molecular regulation mechanism involved in flavonoid biosynthesis in S.baicalensis.Methods:The genes of NAC transcription factors in S.baicalensis were obtained from cDNA library and their functions were explored using bioinformatic methods.The NAC genes were screened from the cDNA library of S.baicalensis using BLAST comparison software.Then,the open reading frame(ORF) finder online tool was used to predict the full-length ORFs of NAC genes and their protein characteristics were explored by bioinformatic methods.The expression of NAC genes was then detected by quantitative polymerase chain reaction in different parts of S.baicalensis and different leaves treated by gibberellin GA3 treatment.Results:Six genes of NAC transcription factors were cloned,two of which had complete ORFs.NAC genes cloned in this study were mainly expressed in the flowers of S.baicalensis.The expression levels of NAC2,NAC3,NAC4,NAC5,NAC6 were increased firstly and then decreased gradually after 100 μM GA3 treatment.Meanwhile,some NACs and PAL2 in S.baicalensis showed strong correlation.Conclusion:This study suggested that NACs cloned in this study were mainly regulated the flavonoid biosynthesis in the flowers of S.baicalensis;NAC6 in S.baicalensis might be involved in the regulation of PAL2 transcription and affected the accumulation of flavonoids in the root of S.baicalensis.Our results provided a basis for further understanding the molecular regulation mechanism of flavonoid biosynthesis in S.baicalensis.
基金supported by AForsk(https://aforsk.com)[15-416]Stiftelsen Tornspiran(http://stiftelsentornspiran.se)+2 种基金Anna och Nils Hakanssons Stiftelse(http://www.annaochnilshakanssonsstiftelse.se)Helge Ax:son Johnsons stiftelse(http://haxsonj.se/www/)[770721-0204]Magnus Bergvalls Stiftelse(http://www.magnbergvallsstiftelse.nu)[2014-00501]。
文摘Nicotinamide treatment of plants and plant cell cultures has been shown to promote defense and decrease levels of DNA methylation.In the present study,we used RNA-seq technology to study overall changes in gene expression induced in roots of 3-month-old spruce(Picea abies)seedlings grown from nicotinamide-treated seeds to examine the molecular mechanisms underlying the defense promotion.Approximately 350 genes were identified as differentially expressed in roots after the seed treatment.Stress response genes,including transcription factors MYB77 and LHY and two chitinase enzymes,were generally upregulated,whereas genes thought to be involved in epigenetic regulation such as DDM1,known to promote DNA methylation,were present at high frequency among the downregulated genes.Across all samples,the expression of downregulated epigenetic-related genes was highly correlated with the nicotinamide treatment,indicating a common regulation.Our results support an earlier hypothesis regarding a potential role of nicotinamide as a defense-signal mediator.
基金supported by the Hainan Provincial Natural Science Foundation of China (321CXTD1012)the National Natural Science Foundation of China (NSFC31871868)the Scientific Research Foundation of Hainan Tropical Ocean University (RHDRC202117),China.
文摘Objectives:The bacteriostatic effects of a citral nanoemulsion against Shewanella putrefaciens CN-32(SHP CN-32)were investigated using in vitro culture and gene expression analysis,forbuilding a potential application in spoilage microorganism control and aquatic products quality maintenance.Materials and Methods:SHP CN-32 was treated by prepared citral nanoemulsion when the minimal inhibitory concentration(MIC)was verified.The growth curve,membrane integrity,scanning electron microscope(SEM)observation,biofilm formation and quorum sensing(QS)signaling molecule Al-2 content were evaluated in different MIC treatment groups(0 to 1.00 MIC).The gene expression status of SHP CN-32 in O and 0.50 MIC groups were compared using transcriptome sequencing and quantitative polymerase chain reaction(PCR).Results:The in vitro culture revealed that the citral nanoemulsion could inhibit the growth of SHP CN-32 with MIC of approximately 200μg/mL.Images of membrane integrity.SEM and biofilm formation suggested significant biological structure damage in bacteria after treatment.Meanwhile,the Qs signaling molecule Al-2 content showed a decline with increasing treatment concentration.Transcriptome sequencing and quantitative PCR revealed that the majority genes related diversified functional metabolic pathways of SHP CN-32 were downregulated at varying degree.Conclusion:A significant bacteriostasis of citral nanoemulsion against SHP CN-32 was verified via the results of growth inhibition,structural destruction,signal molecular decrease and gene expression downregulation of strains.These synergies significantly affect the characteristic expression of SHP CN-32,revealing the application potential as bacteriostat,QS inhibitor and preservative in aquatic products.
