Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars
Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex met...
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| Autor*in: |
Yun Sun Lee [verfasserIn] Hyun-Seung Park [verfasserIn] Dong-Kyu Lee [verfasserIn] Murukarthick Jayakodi [verfasserIn] Nam-Hoon Kim [verfasserIn] Sang-Choon Lee [verfasserIn] Atreyee Kundu [verfasserIn] Dong-Yup Lee [verfasserIn] Young Chang Kim [verfasserIn] Jun Gyo In [verfasserIn] Sung Won Kwon [verfasserIn] Tae-Jin Yang [verfasserIn] |
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| Format: |
E-Artikel |
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| Sprache: |
Englisch |
| Erschienen: |
2017 |
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| Schlagwörter: |
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| Übergeordnetes Werk: |
In: Journal of Ginseng Research - Elsevier, 2016, 41(2017), 1, Seite 60-68 |
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| Übergeordnetes Werk: |
volume:41 ; year:2017 ; number:1 ; pages:60-68 |
| Links: |
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| DOI / URN: |
10.1016/j.jgr.2015.12.012 |
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| Katalog-ID: |
DOAJ038868741 |
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| 520 | |a Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. | ||
| 650 | 4 | |a adventitious root | |
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| 700 | 0 | |a Nam-Hoon Kim |e verfasserin |4 aut | |
| 700 | 0 | |a Sang-Choon Lee |e verfasserin |4 aut | |
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10.1016/j.jgr.2015.12.012 doi (DE-627)DOAJ038868741 (DE-599)DOAJ209e6b2f2bd740aa959e9127d427d184 DE-627 ger DE-627 rakwb eng QK1-989 Yun Sun Lee verfasserin aut Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. adventitious root metabolome Panax ginseng primary metabolic pathways transcriptome Botany Hyun-Seung Park verfasserin aut Dong-Kyu Lee verfasserin aut Murukarthick Jayakodi verfasserin aut Nam-Hoon Kim verfasserin aut Sang-Choon Lee verfasserin aut Atreyee Kundu verfasserin aut Dong-Yup Lee verfasserin aut Young Chang Kim verfasserin aut Jun Gyo In verfasserin aut Sung Won Kwon verfasserin aut Tae-Jin Yang verfasserin aut In Journal of Ginseng Research Elsevier, 2016 41(2017), 1, Seite 60-68 (DE-627)1760621897 12268453 nnns volume:41 year:2017 number:1 pages:60-68 https://doi.org/10.1016/j.jgr.2015.12.012 kostenfrei https://doaj.org/article/209e6b2f2bd740aa959e9127d427d184 kostenfrei http://www.sciencedirect.com/science/article/pii/S1226845316000026 kostenfrei https://doaj.org/toc/1226-8453 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 41 2017 1 60-68 |
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10.1016/j.jgr.2015.12.012 doi (DE-627)DOAJ038868741 (DE-599)DOAJ209e6b2f2bd740aa959e9127d427d184 DE-627 ger DE-627 rakwb eng QK1-989 Yun Sun Lee verfasserin aut Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. adventitious root metabolome Panax ginseng primary metabolic pathways transcriptome Botany Hyun-Seung Park verfasserin aut Dong-Kyu Lee verfasserin aut Murukarthick Jayakodi verfasserin aut Nam-Hoon Kim verfasserin aut Sang-Choon Lee verfasserin aut Atreyee Kundu verfasserin aut Dong-Yup Lee verfasserin aut Young Chang Kim verfasserin aut Jun Gyo In verfasserin aut Sung Won Kwon verfasserin aut Tae-Jin Yang verfasserin aut In Journal of Ginseng Research Elsevier, 2016 41(2017), 1, Seite 60-68 (DE-627)1760621897 12268453 nnns volume:41 year:2017 number:1 pages:60-68 https://doi.org/10.1016/j.jgr.2015.12.012 kostenfrei https://doaj.org/article/209e6b2f2bd740aa959e9127d427d184 kostenfrei http://www.sciencedirect.com/science/article/pii/S1226845316000026 kostenfrei https://doaj.org/toc/1226-8453 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 41 2017 1 60-68 |
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10.1016/j.jgr.2015.12.012 doi (DE-627)DOAJ038868741 (DE-599)DOAJ209e6b2f2bd740aa959e9127d427d184 DE-627 ger DE-627 rakwb eng QK1-989 Yun Sun Lee verfasserin aut Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. adventitious root metabolome Panax ginseng primary metabolic pathways transcriptome Botany Hyun-Seung Park verfasserin aut Dong-Kyu Lee verfasserin aut Murukarthick Jayakodi verfasserin aut Nam-Hoon Kim verfasserin aut Sang-Choon Lee verfasserin aut Atreyee Kundu verfasserin aut Dong-Yup Lee verfasserin aut Young Chang Kim verfasserin aut Jun Gyo In verfasserin aut Sung Won Kwon verfasserin aut Tae-Jin Yang verfasserin aut In Journal of Ginseng Research Elsevier, 2016 41(2017), 1, Seite 60-68 (DE-627)1760621897 12268453 nnns volume:41 year:2017 number:1 pages:60-68 https://doi.org/10.1016/j.jgr.2015.12.012 kostenfrei https://doaj.org/article/209e6b2f2bd740aa959e9127d427d184 kostenfrei http://www.sciencedirect.com/science/article/pii/S1226845316000026 kostenfrei https://doaj.org/toc/1226-8453 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 41 2017 1 60-68 |
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10.1016/j.jgr.2015.12.012 doi (DE-627)DOAJ038868741 (DE-599)DOAJ209e6b2f2bd740aa959e9127d427d184 DE-627 ger DE-627 rakwb eng QK1-989 Yun Sun Lee verfasserin aut Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. adventitious root metabolome Panax ginseng primary metabolic pathways transcriptome Botany Hyun-Seung Park verfasserin aut Dong-Kyu Lee verfasserin aut Murukarthick Jayakodi verfasserin aut Nam-Hoon Kim verfasserin aut Sang-Choon Lee verfasserin aut Atreyee Kundu verfasserin aut Dong-Yup Lee verfasserin aut Young Chang Kim verfasserin aut Jun Gyo In verfasserin aut Sung Won Kwon verfasserin aut Tae-Jin Yang verfasserin aut In Journal of Ginseng Research Elsevier, 2016 41(2017), 1, Seite 60-68 (DE-627)1760621897 12268453 nnns volume:41 year:2017 number:1 pages:60-68 https://doi.org/10.1016/j.jgr.2015.12.012 kostenfrei https://doaj.org/article/209e6b2f2bd740aa959e9127d427d184 kostenfrei http://www.sciencedirect.com/science/article/pii/S1226845316000026 kostenfrei https://doaj.org/toc/1226-8453 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 41 2017 1 60-68 |
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10.1016/j.jgr.2015.12.012 doi (DE-627)DOAJ038868741 (DE-599)DOAJ209e6b2f2bd740aa959e9127d427d184 DE-627 ger DE-627 rakwb eng QK1-989 Yun Sun Lee verfasserin aut Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars 2017 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. adventitious root metabolome Panax ginseng primary metabolic pathways transcriptome Botany Hyun-Seung Park verfasserin aut Dong-Kyu Lee verfasserin aut Murukarthick Jayakodi verfasserin aut Nam-Hoon Kim verfasserin aut Sang-Choon Lee verfasserin aut Atreyee Kundu verfasserin aut Dong-Yup Lee verfasserin aut Young Chang Kim verfasserin aut Jun Gyo In verfasserin aut Sung Won Kwon verfasserin aut Tae-Jin Yang verfasserin aut In Journal of Ginseng Research Elsevier, 2016 41(2017), 1, Seite 60-68 (DE-627)1760621897 12268453 nnns volume:41 year:2017 number:1 pages:60-68 https://doi.org/10.1016/j.jgr.2015.12.012 kostenfrei https://doaj.org/article/209e6b2f2bd740aa959e9127d427d184 kostenfrei http://www.sciencedirect.com/science/article/pii/S1226845316000026 kostenfrei https://doaj.org/toc/1226-8453 Journal toc kostenfrei GBV_USEFLAG_A SYSFLAG_A GBV_DOAJ AR 41 2017 1 60-68 |
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However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. 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Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
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Yun Sun Lee Hyun-Seung Park Dong-Kyu Lee Murukarthick Jayakodi Nam-Hoon Kim Sang-Choon Lee Atreyee Kundu Dong-Yup Lee Young Chang Kim Jun Gyo In Sung Won Kwon Tae-Jin Yang |
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comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars |
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Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
| abstract |
Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. |
| abstractGer |
Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. |
| abstract_unstemmed |
Background: Various Panax ginseng cultivars exhibit a range of diversity for morphological and physiological traits. However, there are few studies on diversity of metabolic profiles and genetic background to understand the complex metabolic pathway in ginseng. Methods: To understand the complex metabolic pathway and related genes in ginseng, we tried to conduct integrated analysis of primary metabolite profiles and related gene expression using five ginseng cultivars showing different morphology. We investigated primary metabolite profiles via gas chromatography–mass spectrometry (GC-MS) and analyzed transcriptomes by Illumina sequencing using adventitious roots grown under the same conditions to elucidate the differences in metabolism underlying such genetic diversity. Results: GC-MS analysis revealed that primary metabolite profiling allowed us to classify the five cultivars into three independent groups and the grouping was also explained by eight major primary metabolites as biomarkers. We selected three cultivars (Chunpoong, Cheongsun, and Sunhyang) to represent each group and analyzed their transcriptomes. We inspected 100 unigenes involved in seven primary metabolite biosynthesis pathways and found that 21 unigenes encoding 15 enzymes were differentially expressed among the three cultivars. Integrated analysis of transcriptomes and metabolomes revealed that the ginseng cultivars differ in primary metabolites as well as in the putative genes involved in the complex process of primary metabolic pathways. Conclusion: Our data derived from this integrated analysis provide insights into the underlying complexity of genes and metabolites that co-regulate flux through these pathways in ginseng. |
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