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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...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Elsevier
2017
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5223079/ https://www.ncbi.nlm.nih.gov/pubmed/28123323 http://dx.doi.org/10.1016/j.jgr.2015.12.012 |
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author | Lee, Yun Sun Park, Hyun-Seung Lee, Dong-Kyu Jayakodi, Murukarthick Kim, Nam-Hoon Lee, Sang-Choon Kundu, Atreyee Lee, Dong-Yup Kim, Young Chang In, Jun Gyo Kwon, Sung Won Yang, Tae-Jin |
author_facet | Lee, Yun Sun Park, Hyun-Seung Lee, Dong-Kyu Jayakodi, Murukarthick Kim, Nam-Hoon Lee, Sang-Choon Kundu, Atreyee Lee, Dong-Yup Kim, Young Chang In, Jun Gyo Kwon, Sung Won Yang, Tae-Jin |
author_sort | Lee, Yun Sun |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-5223079 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2017 |
publisher | Elsevier |
record_format | MEDLINE/PubMed |
spelling | pubmed-52230792017-01-25 Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars Lee, Yun Sun Park, Hyun-Seung Lee, Dong-Kyu Jayakodi, Murukarthick Kim, Nam-Hoon Lee, Sang-Choon Kundu, Atreyee Lee, Dong-Yup Kim, Young Chang In, Jun Gyo Kwon, Sung Won Yang, Tae-Jin J Ginseng Res Research Article 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. Elsevier 2017-01 2016-01-09 /pmc/articles/PMC5223079/ /pubmed/28123323 http://dx.doi.org/10.1016/j.jgr.2015.12.012 Text en Copyright © 2016, The Korean Society of Ginseng, Published by Elsevier. http://creativecommons.org/licenses/by-nc-nd/4.0/ This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/). |
spellingShingle | Research Article Lee, Yun Sun Park, Hyun-Seung Lee, Dong-Kyu Jayakodi, Murukarthick Kim, Nam-Hoon Lee, Sang-Choon Kundu, Atreyee Lee, Dong-Yup Kim, Young Chang In, Jun Gyo Kwon, Sung Won Yang, Tae-Jin Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title | Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title_full | Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title_fullStr | Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title_full_unstemmed | Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title_short | Comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five Panax ginseng cultivars |
title_sort | comparative analysis of the transcriptomes and primary metabolite profiles of adventitious roots of five panax ginseng cultivars |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5223079/ https://www.ncbi.nlm.nih.gov/pubmed/28123323 http://dx.doi.org/10.1016/j.jgr.2015.12.012 |
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