Cargando…
De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis
Arisaema heterophyllum Blume (AhBl) is one of the valued medicinal plants. However, its genetic information is limited, which impedes further studies of this valuable resource. To investigate the genes involved in the isoflavonoid biosynthesis, we deeply performed transcriptome sequencing for AhBl....
Autores principales: | , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2018
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6281570/ https://www.ncbi.nlm.nih.gov/pubmed/30518768 http://dx.doi.org/10.1038/s41598-018-35664-1 |
_version_ | 1783378838702522368 |
---|---|
author | Wang, Chenkai Zhu, Jinhang Liu, Miaomiao Yang, Qingshan Wu, Jiawen Li, Zegeng |
author_facet | Wang, Chenkai Zhu, Jinhang Liu, Miaomiao Yang, Qingshan Wu, Jiawen Li, Zegeng |
author_sort | Wang, Chenkai |
collection | PubMed |
description | Arisaema heterophyllum Blume (AhBl) is one of the valued medicinal plants. However, its genetic information is limited, which impedes further studies of this valuable resource. To investigate the genes involved in the isoflavonoid biosynthesis, we deeply performed transcriptome sequencing for AhBl. An average of 10.98 Gb clean reads were obtained based on root, tuber and leaf tissues, and 109,937 unigenes were yielded after de novo assembly. In total, 72,287 of those unigenes were annotated in at least one public database. The numbers of expressed unigenes in each tissue were 35,686, 43,363 and 47,783, respectively. The overall expression levels of transcripts in leaf were higher than those in root and tuber. Differentially expressed genes analysis indicated that a total of 12,448 shared unigenes were detected in all three tissues, 10,215 of which were higher expressed in tuber than that in root and leaf. Besides, 87 candidate unigenes that encode for enzymes involved in biosynthesis of isoflavonoid were identified and analyzed, and some key enzyme genes were experimentally validated by quantitative Real-Time PCR (qRT-PCR). This study provides a unique dataset for the systematic analysis of AhBl functional genes and expression characteristics, and facilitates the future study of the pharmacological mechanism of AhBl. |
format | Online Article Text |
id | pubmed-6281570 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2018 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-62815702018-12-07 De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis Wang, Chenkai Zhu, Jinhang Liu, Miaomiao Yang, Qingshan Wu, Jiawen Li, Zegeng Sci Rep Article Arisaema heterophyllum Blume (AhBl) is one of the valued medicinal plants. However, its genetic information is limited, which impedes further studies of this valuable resource. To investigate the genes involved in the isoflavonoid biosynthesis, we deeply performed transcriptome sequencing for AhBl. An average of 10.98 Gb clean reads were obtained based on root, tuber and leaf tissues, and 109,937 unigenes were yielded after de novo assembly. In total, 72,287 of those unigenes were annotated in at least one public database. The numbers of expressed unigenes in each tissue were 35,686, 43,363 and 47,783, respectively. The overall expression levels of transcripts in leaf were higher than those in root and tuber. Differentially expressed genes analysis indicated that a total of 12,448 shared unigenes were detected in all three tissues, 10,215 of which were higher expressed in tuber than that in root and leaf. Besides, 87 candidate unigenes that encode for enzymes involved in biosynthesis of isoflavonoid were identified and analyzed, and some key enzyme genes were experimentally validated by quantitative Real-Time PCR (qRT-PCR). This study provides a unique dataset for the systematic analysis of AhBl functional genes and expression characteristics, and facilitates the future study of the pharmacological mechanism of AhBl. Nature Publishing Group UK 2018-12-05 /pmc/articles/PMC6281570/ /pubmed/30518768 http://dx.doi.org/10.1038/s41598-018-35664-1 Text en © The Author(s) 2018 Open Access This 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 license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license 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 license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Wang, Chenkai Zhu, Jinhang Liu, Miaomiao Yang, Qingshan Wu, Jiawen Li, Zegeng De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title | De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title_full | De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title_fullStr | De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title_full_unstemmed | De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title_short | De novo sequencing and transcriptome assembly of Arisaema heterophyllum Blume and identification of genes involved in isoflavonoid biosynthesis |
title_sort | de novo sequencing and transcriptome assembly of arisaema heterophyllum blume and identification of genes involved in isoflavonoid biosynthesis |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6281570/ https://www.ncbi.nlm.nih.gov/pubmed/30518768 http://dx.doi.org/10.1038/s41598-018-35664-1 |
work_keys_str_mv | AT wangchenkai denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis AT zhujinhang denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis AT liumiaomiao denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis AT yangqingshan denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis AT wujiawen denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis AT lizegeng denovosequencingandtranscriptomeassemblyofarisaemaheterophyllumblumeandidentificationofgenesinvolvedinisoflavonoidbiosynthesis |