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BMC Genomics. 2016 Nov 17;17(1):935.

Analysis of transcriptome in hickory (Carya cathayensis), and uncover the dynamics in the hormonal signaling pathway during graft process.

Qiu L1, Jiang B1, Fang J1,2, Shen Y1,2, Fang Z1,2, Rm SK1,2, Yi K3, Shen C4, Yan D5,6, Zheng B7,8.

Author information

1
Nurturing Station for the State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China.
2
Center for Cultivation of Subtropical Forest Resources (CCSFR), Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China.
3
Key Laboratory of Plant Nutrition and Fertilizer, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
4
College of Life and Environmental Sciences, Hangzhou Normal University, Hangzhou, 310036, China.
5
Nurturing Station for the State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China. liangsie2000@163.com.
6
Center for Cultivation of Subtropical Forest Resources (CCSFR), Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China. liangsie2000@163.com.
7
Nurturing Station for the State Key Laboratory of Subtropical Silviculture, Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China. bszheng@zafu.edu.cn.
8
Center for Cultivation of Subtropical Forest Resources (CCSFR), Zhejiang A & F University, Linan, Hangzhou, 311300, People's Republic of China. bszheng@zafu.edu.cn.

Abstract

BACKGROUND:

Hickory (Carya cathayensis), a woody plant with high nutritional and economic value, is widely planted in China. Due to its long juvenile phase, grafting is a useful technique for large-scale cultivation of hickory. To reveal the molecular mechanism during the graft process, we sequenced the transcriptomes of graft union in hickory.

RESULTS:

In our study, six RNA-seq libraries yielded a total of 83,676,860 clean short reads comprising 4.19 Gb of sequence data. A large number of differentially expressed genes (DEGs) at three time points during the graft process were identified. In detail, 777 DEGs in the 7 d vs 0 d (day after grafting) comparison were classified into 11 enriched Gene Ontology (GO) categories, and 262 DEGs in the 14 d vs 0 d comparison were classified into 15 enriched GO categories. Furthermore, an overview of the PPI network was constructed by these DEGs. In addition, 20 genes related to the auxin-and cytokinin-signaling pathways were identified, and some were validated by qRT-PCR analysis.

CONCLUSIONS:

Our comprehensive analysis provides basic information on the candidate genes and hormone signaling pathways involved in the graft process in hickory and other woody plants.

KEYWORDS:

Auxin; Cytokinin; Graft; Hickory; Transcriptome

PMID:
27855649
PMCID:
PMC5114764
DOI:
10.1186/s12864-016-3182-4
[Indexed for MEDLINE]
Free PMC Article

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