Cargando…
Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.)
BACKGROUND: Different from herbaceous plants, the woody plants undergo a long-period vegetative stage to achieve floral transition. They then turn into seasonal plants, flowering annually. In this study, a preliminary model of gene regulations for seasonal pistillate flowering in hickory (Carya cath...
Autores principales: | , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
BioMed Central
2013
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3853572/ https://www.ncbi.nlm.nih.gov/pubmed/24106755 http://dx.doi.org/10.1186/1471-2164-14-691 |
_version_ | 1782294650034323456 |
---|---|
author | Huang, You-Jun Liu, Li-Li Huang, Jian-Qin Wang, Zheng-Jia Chen, Fang-Fang Zhang, Qi-Xiang Zheng, Bing-Song Chen, Ming |
author_facet | Huang, You-Jun Liu, Li-Li Huang, Jian-Qin Wang, Zheng-Jia Chen, Fang-Fang Zhang, Qi-Xiang Zheng, Bing-Song Chen, Ming |
author_sort | Huang, You-Jun |
collection | PubMed |
description | BACKGROUND: Different from herbaceous plants, the woody plants undergo a long-period vegetative stage to achieve floral transition. They then turn into seasonal plants, flowering annually. In this study, a preliminary model of gene regulations for seasonal pistillate flowering in hickory (Carya cathayensis) was proposed. The genome-wide dynamic transcriptome was characterized via the joint-approach of RNA sequencing and microarray analysis. RESULTS: Differential transcript abundance analysis uncovered the dynamic transcript abundance patterns of flowering correlated genes and their major functions based on Gene Ontology (GO) analysis. To explore pistillate flowering mechanism in hickory, a comprehensive flowering gene regulatory network based on Arabidopsis thaliana was constructed by additional literature mining. A total of 114 putative flowering or floral genes including 31 with differential transcript abundance were identified in hickory. The locations, functions and dynamic transcript abundances were analyzed in the gene regulatory networks. A genome-wide co-expression network for the putative flowering or floral genes shows three flowering regulatory modules corresponding to response to light abiotic stimulus, cold stress, and reproductive development process, respectively. Totally 27 potential flowering or floral genes were recruited which are meaningful to understand the hickory specific seasonal flowering mechanism better. CONCLUSIONS: Flowering event of pistillate flower bud in hickory is triggered by several pathways synchronously including the photoperiod, autonomous, vernalization, gibberellin, and sucrose pathway. Totally 27 potential flowering or floral genes were recruited from the genome-wide co-expression network function module analysis. Moreover, the analysis provides a potential FLC-like gene based vernalization pathway and an 'AC’ model for pistillate flower development in hickory. This work provides an available framework for pistillate flower development in hickory, which is significant for insight into regulation of flowering and floral development of woody plants. |
format | Online Article Text |
id | pubmed-3853572 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2013 |
publisher | BioMed Central |
record_format | MEDLINE/PubMed |
spelling | pubmed-38535722013-12-07 Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) Huang, You-Jun Liu, Li-Li Huang, Jian-Qin Wang, Zheng-Jia Chen, Fang-Fang Zhang, Qi-Xiang Zheng, Bing-Song Chen, Ming BMC Genomics Research Article BACKGROUND: Different from herbaceous plants, the woody plants undergo a long-period vegetative stage to achieve floral transition. They then turn into seasonal plants, flowering annually. In this study, a preliminary model of gene regulations for seasonal pistillate flowering in hickory (Carya cathayensis) was proposed. The genome-wide dynamic transcriptome was characterized via the joint-approach of RNA sequencing and microarray analysis. RESULTS: Differential transcript abundance analysis uncovered the dynamic transcript abundance patterns of flowering correlated genes and their major functions based on Gene Ontology (GO) analysis. To explore pistillate flowering mechanism in hickory, a comprehensive flowering gene regulatory network based on Arabidopsis thaliana was constructed by additional literature mining. A total of 114 putative flowering or floral genes including 31 with differential transcript abundance were identified in hickory. The locations, functions and dynamic transcript abundances were analyzed in the gene regulatory networks. A genome-wide co-expression network for the putative flowering or floral genes shows three flowering regulatory modules corresponding to response to light abiotic stimulus, cold stress, and reproductive development process, respectively. Totally 27 potential flowering or floral genes were recruited which are meaningful to understand the hickory specific seasonal flowering mechanism better. CONCLUSIONS: Flowering event of pistillate flower bud in hickory is triggered by several pathways synchronously including the photoperiod, autonomous, vernalization, gibberellin, and sucrose pathway. Totally 27 potential flowering or floral genes were recruited from the genome-wide co-expression network function module analysis. Moreover, the analysis provides a potential FLC-like gene based vernalization pathway and an 'AC’ model for pistillate flower development in hickory. This work provides an available framework for pistillate flower development in hickory, which is significant for insight into regulation of flowering and floral development of woody plants. BioMed Central 2013-10-10 /pmc/articles/PMC3853572/ /pubmed/24106755 http://dx.doi.org/10.1186/1471-2164-14-691 Text en Copyright © 2013 Huang et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Research Article Huang, You-Jun Liu, Li-Li Huang, Jian-Qin Wang, Zheng-Jia Chen, Fang-Fang Zhang, Qi-Xiang Zheng, Bing-Song Chen, Ming Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title | Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title_full | Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title_fullStr | Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title_full_unstemmed | Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title_short | Use of transcriptome sequencing to understand the pistillate flowering in hickory (Carya cathayensis Sarg.) |
title_sort | use of transcriptome sequencing to understand the pistillate flowering in hickory (carya cathayensis sarg.) |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3853572/ https://www.ncbi.nlm.nih.gov/pubmed/24106755 http://dx.doi.org/10.1186/1471-2164-14-691 |
work_keys_str_mv | AT huangyoujun useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT liulili useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT huangjianqin useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT wangzhengjia useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT chenfangfang useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT zhangqixiang useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT zhengbingsong useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg AT chenming useoftranscriptomesequencingtounderstandthepistillatefloweringinhickorycaryacathayensissarg |