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Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants
BACKGROUND: Taraxacum kok-saghyz R. (Tks) is a promising alternative species to Hevea brasiliensis for production of high quality natural rubber (NR). A comparative transcriptome analysis of plants with differential production of NR will contribute to elucidate which genes are involved in the synthe...
Autores principales: | , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2018
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6280347/ https://www.ncbi.nlm.nih.gov/pubmed/30514210 http://dx.doi.org/10.1186/s12864-018-5287-4 |
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author | Panara, Francesco Lopez, Loredana Daddiego, Loretta Fantini, Elio Facella, Paolo Perrotta, Gaetano |
author_facet | Panara, Francesco Lopez, Loredana Daddiego, Loretta Fantini, Elio Facella, Paolo Perrotta, Gaetano |
author_sort | Panara, Francesco |
collection | PubMed |
description | BACKGROUND: Taraxacum kok-saghyz R. (Tks) is a promising alternative species to Hevea brasiliensis for production of high quality natural rubber (NR). A comparative transcriptome analysis of plants with differential production of NR will contribute to elucidate which genes are involved in the synthesis, regulation and accumulation of this natural polymer and could help to develop Tks into a rubber crop. RESULTS: We measured rubber content in the latex of 90 individual Tks plants from 9 accessions, observing a high degree of variability. We carried out de novo root transcriptome sequencing, assembly, annotation and comparison of gene expression of plants with the lower (LR plants) and the higher rubber content (HR plants). The transcriptome analysis also included one plant that did not expel latex, in principle depleted of latex transcripts. Moreover, the transcription of some genes well known to play a major role in rubber biosynthesis, was probed by qRT-PCR. Our analysis showed a high modulation of genes involved in the synthesis of NR between LR and HR plants, and evidenced that genes involved in sesquiterpenoids, monoterpenoids and phenylpropanoid biosynthesis are upregulated in LR plants. CONCLUSIONS: Our results show that a higher amount of rubber in the latex in HR plants is positively correlated with high expression levels of a number of genes directly involved in rubber synthesis showing that NR production is highly controlled at transcriptional level. On the other hand, lower amounts of rubber in LR plants is related with higher expression of genes involved in the synthesis of other secondary metabolites that, we hypothesize, may compete towards NR biosynthesis. This dataset represents a fundamental genomic resource for the study of Tks and the comprehension of the synthesis of NR and other biochemically and pharmacologically relevant compounds in the Taraxacum genus. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-5287-4) contains supplementary material, which is available to authorized users. |
format | Online Article Text |
id | pubmed-6280347 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-62803472018-12-10 Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants Panara, Francesco Lopez, Loredana Daddiego, Loretta Fantini, Elio Facella, Paolo Perrotta, Gaetano BMC Genomics Research Article BACKGROUND: Taraxacum kok-saghyz R. (Tks) is a promising alternative species to Hevea brasiliensis for production of high quality natural rubber (NR). A comparative transcriptome analysis of plants with differential production of NR will contribute to elucidate which genes are involved in the synthesis, regulation and accumulation of this natural polymer and could help to develop Tks into a rubber crop. RESULTS: We measured rubber content in the latex of 90 individual Tks plants from 9 accessions, observing a high degree of variability. We carried out de novo root transcriptome sequencing, assembly, annotation and comparison of gene expression of plants with the lower (LR plants) and the higher rubber content (HR plants). The transcriptome analysis also included one plant that did not expel latex, in principle depleted of latex transcripts. Moreover, the transcription of some genes well known to play a major role in rubber biosynthesis, was probed by qRT-PCR. Our analysis showed a high modulation of genes involved in the synthesis of NR between LR and HR plants, and evidenced that genes involved in sesquiterpenoids, monoterpenoids and phenylpropanoid biosynthesis are upregulated in LR plants. CONCLUSIONS: Our results show that a higher amount of rubber in the latex in HR plants is positively correlated with high expression levels of a number of genes directly involved in rubber synthesis showing that NR production is highly controlled at transcriptional level. On the other hand, lower amounts of rubber in LR plants is related with higher expression of genes involved in the synthesis of other secondary metabolites that, we hypothesize, may compete towards NR biosynthesis. This dataset represents a fundamental genomic resource for the study of Tks and the comprehension of the synthesis of NR and other biochemically and pharmacologically relevant compounds in the Taraxacum genus. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s12864-018-5287-4) contains supplementary material, which is available to authorized users. BioMed Central 2018-12-04 /pmc/articles/PMC6280347/ /pubmed/30514210 http://dx.doi.org/10.1186/s12864-018-5287-4 Text en © The Author(s). 2018 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated. |
spellingShingle | Research Article Panara, Francesco Lopez, Loredana Daddiego, Loretta Fantini, Elio Facella, Paolo Perrotta, Gaetano Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title | Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title_full | Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title_fullStr | Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title_full_unstemmed | Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title_short | Comparative transcriptomics between high and low rubber producing Taraxacum kok-saghyz R. plants |
title_sort | comparative transcriptomics between high and low rubber producing taraxacum kok-saghyz r. plants |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6280347/ https://www.ncbi.nlm.nih.gov/pubmed/30514210 http://dx.doi.org/10.1186/s12864-018-5287-4 |
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