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Mami Yamazaki - One of the best experts on this subject based on the ideXlab platform.
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high throughput sequencing and de novo assembly of red and green forms of the Perilla frutescens var crispa transcriptome
PLOS ONE, 2015Co-Authors: Atsushi Fukushima, Michimi Nakamura, Hideyuki Suzuki, Kazuki Saito, Mami YamazakiAbstract:Perilla frutescens var. crispa (Labiatae) has two chemo-varietal forms, i.e. red and green forms of Perilla, that differ in the production of anthocyanins. To facilitate molecular biological and biochemical studies in Perilla-specialized metabolism we used Illumina RNA-sequencing technology in our comprehensive comparison of the transcriptome map of the leaves of red and green forms of Perilla. Sequencing generated over 1.2 billion short reads with an average length of 101 nt. De novo transcriptome assembly yielded 47,788 and 47,840 unigenes in the red and green forms of Perilla plants, respectively. Comparison of the assembled unigenes and existing Perilla cDNA sequences showed highly reliable alignment. All unigenes were annotated with gene ontology (GO) and Enzyme Commission numbers and entered into the Kyoto Encyclopedia of Genes and Genomes. We identified 68 differentially expressed genes (DEGs) in red and green forms of Perilla. GO enrichment analysis of the DEGs showed that genes involved in the anthocyanin metabolic process were enriched. Differential expression analysis revealed that the transcript level of anthocyanin biosynthetic unigenes encoding flavonoid 3’-hydroxylase, dihydroflavonol 4-reductase, and anthocyanidin synthase was significantly higher in red Perilla, while the transcript level of unigenes encoding limonene synthase was significantly higher in green Perilla. Our data serve as a basis for future research on Perilla bio-engineering and provide a shortcut for the characterization of new functional genes in P. frutescens.
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differential gene expression profiles of red and green forms of Perilla frutescens leading to comprehensive identification of anthocyanin biosynthetic genes
FEBS Journal, 2008Co-Authors: Mami Yamazaki, Masahisa Shibata, Yasutaka Nishiyama, Karin Springob, Masahiko Kitayama, Norimoto Shimada, Toshio Aoki, Shinichi Ayabe, Kazuki SaitoAbstract:Differential screening by PCR-select subtraction was carried out for cDNAs from leaves of red and green Perilla, two chemovarietal forms of Perilla frutescens regarding anthocyanin accumulation. One hundred and twenty cDNA fragments were selected as the clones preferentially expressed in anthocyanin-accumulating red Perilla over the nonaccumulating green Perilla. About half of them were the cDNAs encoding the proteins related presumably to phenylpropanoid-derived metabolism. The cDNAs encoding glutathione S-transferase (GST), PfGST1, and chalcone isomerase (CHI), PfCHI1, were further characterized. The expression of PfGST1 in an Arabidopsis thaliana tt19 mutant lacking the GST-like gene involved in vacuole transport of anthocyanin rescued the lesion of anthocyanin accumulation in tt19, indicating a function of PfGST1 in vacuole sequestration of anthocyanin in Perilla. The recombinant PfCHI1 could stereospecifically convert naringenin chalcone to (2S)-naringenin. PfGST1 and PfCHI1 were preferentially expressed in the leaves of red Perilla, agreeing with the accumulation of anthocyanin and expression of other previously identified genes for anthocyanin biosynthesis. These results suggest that the genes of the whole anthocyanin biosynthetic pathway are regulated in a coordinated manner in Perilla.
Kazuki Saito - One of the best experts on this subject based on the ideXlab platform.
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RESEARCH ARTICLE High-Throughput Sequencing and De Novo Assembly of Red and Green Forms of the Perilla frutescens var. crispa Transcriptome
2016Co-Authors: Atsushi Fukushima, Michimi Nakamura, Hideyuki Suzuki, Kazuki SaitoAbstract:Perilla frutescens var. crispa (Labiatae) has two chemo-varietal forms, i.e. red and green forms of Perilla, that differ in the production of anthocyanins. To facilitate molecular biologi-cal and biochemical studies in Perilla-specialized metabolism we used Illumina RNA-sequencing technology in our comprehensive comparison of the transcriptome map of the leaves of red and green forms of Perilla. Sequencing generated over 1.2 billion short reads with an average length of 101 nt. De novo transcriptome assembly yielded 47,788 and 47,840 unigenes in the red and green forms of Perilla plants, respectively. Comparison of the assembled unigenes and existing Perilla cDNA sequences showed highly reliable align-ment. All unigenes were annotated with gene ontology (GO) and Enzyme Commission numbers and entered into the Kyoto Encyclopedia of Genes and Genomes. We identified 68 differentially expressed genes (DEGs) in red and green forms of Perilla. GO enrichment analysis of the DEGs showed that genes involved in the anthocyanin metabolic process were enriched. Differential expression analysis revealed that the transcript level of anthocy-anin biosynthetic unigenes encoding flavonoid 3’-hydroxylase, dihydroflavonol 4-reductase, and anthocyanidin synthase was significantly higher in red Perilla, while the transcript level of unigenes encoding limonene synthase was significantly higher in green Perilla. Our data serve as a basis for future research on Perilla bio-engineering and provide a shortcut for the characterization of new functional genes in P. frutescens
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high throughput sequencing and de novo assembly of red and green forms of the Perilla frutescens var crispa transcriptome
PLOS ONE, 2015Co-Authors: Atsushi Fukushima, Michimi Nakamura, Hideyuki Suzuki, Kazuki Saito, Mami YamazakiAbstract:Perilla frutescens var. crispa (Labiatae) has two chemo-varietal forms, i.e. red and green forms of Perilla, that differ in the production of anthocyanins. To facilitate molecular biological and biochemical studies in Perilla-specialized metabolism we used Illumina RNA-sequencing technology in our comprehensive comparison of the transcriptome map of the leaves of red and green forms of Perilla. Sequencing generated over 1.2 billion short reads with an average length of 101 nt. De novo transcriptome assembly yielded 47,788 and 47,840 unigenes in the red and green forms of Perilla plants, respectively. Comparison of the assembled unigenes and existing Perilla cDNA sequences showed highly reliable alignment. All unigenes were annotated with gene ontology (GO) and Enzyme Commission numbers and entered into the Kyoto Encyclopedia of Genes and Genomes. We identified 68 differentially expressed genes (DEGs) in red and green forms of Perilla. GO enrichment analysis of the DEGs showed that genes involved in the anthocyanin metabolic process were enriched. Differential expression analysis revealed that the transcript level of anthocyanin biosynthetic unigenes encoding flavonoid 3’-hydroxylase, dihydroflavonol 4-reductase, and anthocyanidin synthase was significantly higher in red Perilla, while the transcript level of unigenes encoding limonene synthase was significantly higher in green Perilla. Our data serve as a basis for future research on Perilla bio-engineering and provide a shortcut for the characterization of new functional genes in P. frutescens.
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differential gene expression profiles of red and green forms of Perilla frutescens leading to comprehensive identification of anthocyanin biosynthetic genes
FEBS Journal, 2008Co-Authors: Mami Yamazaki, Masahisa Shibata, Yasutaka Nishiyama, Karin Springob, Masahiko Kitayama, Norimoto Shimada, Toshio Aoki, Shinichi Ayabe, Kazuki SaitoAbstract:Differential screening by PCR-select subtraction was carried out for cDNAs from leaves of red and green Perilla, two chemovarietal forms of Perilla frutescens regarding anthocyanin accumulation. One hundred and twenty cDNA fragments were selected as the clones preferentially expressed in anthocyanin-accumulating red Perilla over the nonaccumulating green Perilla. About half of them were the cDNAs encoding the proteins related presumably to phenylpropanoid-derived metabolism. The cDNAs encoding glutathione S-transferase (GST), PfGST1, and chalcone isomerase (CHI), PfCHI1, were further characterized. The expression of PfGST1 in an Arabidopsis thaliana tt19 mutant lacking the GST-like gene involved in vacuole transport of anthocyanin rescued the lesion of anthocyanin accumulation in tt19, indicating a function of PfGST1 in vacuole sequestration of anthocyanin in Perilla. The recombinant PfCHI1 could stereospecifically convert naringenin chalcone to (2S)-naringenin. PfGST1 and PfCHI1 were preferentially expressed in the leaves of red Perilla, agreeing with the accumulation of anthocyanin and expression of other previously identified genes for anthocyanin biosynthesis. These results suggest that the genes of the whole anthocyanin biosynthetic pathway are regulated in a coordinated manner in Perilla.
Xuming Deng - One of the best experts on this subject based on the ideXlab platform.
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Subinhibitory Concentrations of Perilla Oil Affect the Expression of Secreted Virulence Factor Genes in Staphylococcus aureus
2013Co-Authors: Jiazhang Qiu, Xiaoran Zhang, Mingjing Luo, Jing Dong, Jianfeng Wang, Xiaoliang Wang, Haihua Feng, Wenzhi Ren, Xuming DengAbstract:Background: The pathogenicity of staphylococcus aureus is dependent largely upon its ability to secrete a number of virulence factors, therefore, anti-virulence strategy to combat S. aureus-mediated infections is now gaining great interest. It is widely recognized that some plant essential oils could affect the production of staphylococcal exotoxins when used at subinhibitory concentrations. Perilla [Perilla frutescens (L.) Britton], a natural medicine found in eastern Asia, is primarily used as both a medicinal and culinary herb. Its essential oil (Perilla oil) has been previously demonstrated to be active against S. aureus. However, there are no data on the influence of Perilla oil on the production of S. aureus exotoxins. Methodology/Principal Findings: A broth microdilution method was used to determine the minimum inhibitory concentrations (MICs) of Perilla oil against S. aureus strains. Hemolysis, tumour necrosis factor (TNF) release, Western blot, and real-time RT-PCR assays were performed to evaluate the effects of subinhibitory concentrations of Perilla oil on exotoxins production in S. aureus. The data presented here show that Perilla oil dose-dependently decreased the production of a-toxin, enterotoxins A and B (the major staphylococcal enterotoxins), and toxic shock syndrome toxin 1 (TSST-1) in both methicillin-sensitive S. aureus (MSSA) and methicillin-resistant S. aureus (MRSA). Conclusions/Significance: The production of a-toxin, SEA, SEB, and TSST-1 in S. aureus was decreased by Perilla oil. These data suggest that Perilla oil may be useful for the treatment of S. aureus infections when used in combination with b-lacta
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subinhibitory concentrations of Perilla oil affect the expression of secreted virulence factor genes in staphylococcus aureus
PLOS ONE, 2011Co-Authors: Jiazhang Qiu, Xiaoran Zhang, Mingjing Luo, Jing Dong, Jianfeng Wang, Bingfeng Leng, Xiaoliang Wang, Haihua Feng, Wenzhi Ren, Xuming DengAbstract:Background The pathogenicity of staphylococcus aureus is dependent largely upon its ability to secrete a number of virulence factors, therefore, anti-virulence strategy to combat S. aureus-mediated infections is now gaining great interest. It is widely recognized that some plant essential oils could affect the production of staphylococcal exotoxins when used at subinhibitory concentrations. Perilla [Perilla frutescens (L.) Britton], a natural medicine found in eastern Asia, is primarily used as both a medicinal and culinary herb. Its essential oil (Perilla oil) has been previously demonstrated to be active against S. aureus. However, there are no data on the influence of Perilla oil on the production of S. aureus exotoxins. Methodology/Principal Findings A broth microdilution method was used to determine the minimum inhibitory concentrations (MICs) of Perilla oil against S. aureus strains. Hemolysis, tumour necrosis factor (TNF) release, Western blot, and real-time RT-PCR assays were performed to evaluate the effects of subinhibitory concentrations of Perilla oil on exotoxins production in S. aureus. The data presented here show that Perilla oil dose-dependently decreased the production of α-toxin, enterotoxins A and B (the major staphylococcal enterotoxins), and toxic shock syndrome toxin 1 (TSST-1) in both methicillin-sensitive S. aureus (MSSA) and methicillin-resistant S. aureus (MRSA). Conclusions/Significance The production of α-toxin, SEA, SEB, and TSST-1 in S. aureus was decreased by Perilla oil. These data suggest that Perilla oil may be useful for the treatment of S. aureus infections when used in combination with β-lactam antibiotics, which can increase exotoxins production by S. aureus at subinhibitory concentrations. Furthermore, Perilla oil could be rationally applied in food systems as a novel food preservative both to inhibit the growth of S. aureus and to repress the production of exotoxins, particularly staphylococcal enterotoxins.
Juan Liu - One of the best experts on this subject based on the ideXlab platform.
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comparison of hs spme with hydrodistillation and sfe for the analysis of the volatile compounds of zisu and baisu two varietal species of Perilla frutescens of chinese origin
Food Chemistry, 2011Co-Authors: Baokang Huang, Yanlin Lei, Youhong Tang, Jiachen Zhang, Luping Qin, Juan LiuAbstract:Abstract Content and composition of the volatiles of Baisu and Zisu, two varieties of Perilla frutescens , obtained by SFE, HS-SPME, and hydrodistillation, were compared. A total of 64 compounds were identified by GC/MS. Perillaldehyde (21.9–58.1%) and Perilla ketone (54.5–83.5%) were the main volatile components of Zisu and Baisu, respectively. They might be partly responsible for the aroma and taste of Perilla . The abundance of Perilla ketone indicates that it is not safe to use Baisu as vegetable, and Baisu should not be used as substitute for Zisu. SFE extracted oil with high yield, and extracted some high molecular-weight compounds that did not contribute to the aroma. The HS-SPME was simple and sensitive for the analysis of volatile compounds of fresh Perilla . The results showed that the drying process influenced the volatile components of Perilla .
Yanlin Lei - One of the best experts on this subject based on the ideXlab platform.
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comparison of hs spme with hydrodistillation and sfe for the analysis of the volatile compounds of zisu and baisu two varietal species of Perilla frutescens of chinese origin
Food Chemistry, 2011Co-Authors: Baokang Huang, Yanlin Lei, Youhong Tang, Jiachen Zhang, Luping Qin, Juan LiuAbstract:Abstract Content and composition of the volatiles of Baisu and Zisu, two varieties of Perilla frutescens , obtained by SFE, HS-SPME, and hydrodistillation, were compared. A total of 64 compounds were identified by GC/MS. Perillaldehyde (21.9–58.1%) and Perilla ketone (54.5–83.5%) were the main volatile components of Zisu and Baisu, respectively. They might be partly responsible for the aroma and taste of Perilla . The abundance of Perilla ketone indicates that it is not safe to use Baisu as vegetable, and Baisu should not be used as substitute for Zisu. SFE extracted oil with high yield, and extracted some high molecular-weight compounds that did not contribute to the aroma. The HS-SPME was simple and sensitive for the analysis of volatile compounds of fresh Perilla . The results showed that the drying process influenced the volatile components of Perilla .