Cargando…

De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis

BACKGROUND: The investigation of molecular mechanisms involved in polysaccharides and saponin metabolism is critical for genetic engineering of Polygonatum cyrtonema Hua to raise major active ingredient content. Up to now, the transcript sequences are available for different tissues of P. cyrtonema,...

Descripción completa

Detalles Bibliográficos
Autores principales: Li, Dandan, Wang, Qing, Chen, Songshu, Liu, Hongchang, Pan, Keqin, Li, Jinling, Luo, Chunli, Wang, Hualei
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8915509/
https://www.ncbi.nlm.nih.gov/pubmed/35272619
http://dx.doi.org/10.1186/s12864-022-08421-y
_version_ 1784668041281273856
author Li, Dandan
Wang, Qing
Chen, Songshu
Liu, Hongchang
Pan, Keqin
Li, Jinling
Luo, Chunli
Wang, Hualei
author_facet Li, Dandan
Wang, Qing
Chen, Songshu
Liu, Hongchang
Pan, Keqin
Li, Jinling
Luo, Chunli
Wang, Hualei
author_sort Li, Dandan
collection PubMed
description BACKGROUND: The investigation of molecular mechanisms involved in polysaccharides and saponin metabolism is critical for genetic engineering of Polygonatum cyrtonema Hua to raise major active ingredient content. Up to now, the transcript sequences are available for different tissues of P. cyrtonema, a wide range scanning about temporal transcript at different ages’ rhizomes was still absent in P. cyrtonema. RESULTS: Transcriptome sequencing for rhizomes at different ages was performed. Sixty-two thousand six hundred thirty-five unigenes were generated by assembling transcripts from all samples. A total of 89 unigenes encoding key enzymes involved in polysaccharide biosynthesis and 56 unigenes encoding key enzymes involved in saponin biosynthesis. The content of total polysaccharide and total saponin was positively correlated with the expression patterns of mannose-6-phosphate isomerase (MPI), GDP-L-fucose synthase (TSTA3), UDP-apiose/xylose synthase (AXS), UDP-glucose 6-dehydrogenase (UGDH), Hydroxymethylglutaryl CoA synthase (HMGS), Mevalonate kinase (MVK), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase (ispG), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), Farnesyl diphosphate synthase (FPPS). Finally, a number of key genes were selected and quantitative real-time PCR were performed to validate the transcriptome analysis results. CONCLUSIONS: These results create the link between polysaccharides and saponin biosynthesis and gene expression, provide insight for underlying key active substances, and reveal novel candidate genes including TFs that are worth further exploration for their functions and values. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08421-y.
format Online
Article
Text
id pubmed-8915509
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-89155092022-03-18 De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis Li, Dandan Wang, Qing Chen, Songshu Liu, Hongchang Pan, Keqin Li, Jinling Luo, Chunli Wang, Hualei BMC Genomics Research BACKGROUND: The investigation of molecular mechanisms involved in polysaccharides and saponin metabolism is critical for genetic engineering of Polygonatum cyrtonema Hua to raise major active ingredient content. Up to now, the transcript sequences are available for different tissues of P. cyrtonema, a wide range scanning about temporal transcript at different ages’ rhizomes was still absent in P. cyrtonema. RESULTS: Transcriptome sequencing for rhizomes at different ages was performed. Sixty-two thousand six hundred thirty-five unigenes were generated by assembling transcripts from all samples. A total of 89 unigenes encoding key enzymes involved in polysaccharide biosynthesis and 56 unigenes encoding key enzymes involved in saponin biosynthesis. The content of total polysaccharide and total saponin was positively correlated with the expression patterns of mannose-6-phosphate isomerase (MPI), GDP-L-fucose synthase (TSTA3), UDP-apiose/xylose synthase (AXS), UDP-glucose 6-dehydrogenase (UGDH), Hydroxymethylglutaryl CoA synthase (HMGS), Mevalonate kinase (MVK), 2-C-methyl-D-erythritol 2,4-cyclodiphosphate synthase (ispF), (E)-4-hydroxy-3-methylbut-2-enyl-diphosphate synthase (ispG), 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (ispH), Farnesyl diphosphate synthase (FPPS). Finally, a number of key genes were selected and quantitative real-time PCR were performed to validate the transcriptome analysis results. CONCLUSIONS: These results create the link between polysaccharides and saponin biosynthesis and gene expression, provide insight for underlying key active substances, and reveal novel candidate genes including TFs that are worth further exploration for their functions and values. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1186/s12864-022-08421-y. BioMed Central 2022-03-10 /pmc/articles/PMC8915509/ /pubmed/35272619 http://dx.doi.org/10.1186/s12864-022-08421-y Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) . The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/ (https://creativecommons.org/publicdomain/zero/1.0/) ) applies to the data made available in this article, unless otherwise stated in a credit line to the data.
spellingShingle Research
Li, Dandan
Wang, Qing
Chen, Songshu
Liu, Hongchang
Pan, Keqin
Li, Jinling
Luo, Chunli
Wang, Hualei
De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title_full De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title_fullStr De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title_full_unstemmed De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title_short De novo assembly and analysis of Polygonatum cyrtonema Hua and identification of genes involved in polysaccharide and saponin biosynthesis
title_sort de novo assembly and analysis of polygonatum cyrtonema hua and identification of genes involved in polysaccharide and saponin biosynthesis
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8915509/
https://www.ncbi.nlm.nih.gov/pubmed/35272619
http://dx.doi.org/10.1186/s12864-022-08421-y
work_keys_str_mv AT lidandan denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT wangqing denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT chensongshu denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT liuhongchang denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT pankeqin denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT lijinling denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT luochunli denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis
AT wanghualei denovoassemblyandanalysisofpolygonatumcyrtonemahuaandidentificationofgenesinvolvedinpolysaccharideandsaponinbiosynthesis