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Sci Rep. 2017 Jul 7;7(1):4910. doi: 10.1038/s41598-017-05377-y.

Whole transcriptome sequencing of Pseudomonas syringae pv. actinidiae-infected kiwifruit plants reveals species-specific interaction between long non-coding RNA and coding genes.

Wang Z1,2,3, Liu Y4,5, Li L6, Li D6, Zhang Q6, Guo Y1,2,3, Wang S1,2,3, Zhong C6, Huang H7,8,9.

Author information

1
Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, Guangdong, 510650, China.
2
Guangdong Provincial Key Laboratory of Applied Botany, Guangzhou, Guangdong, 510650, China.
3
University of Chinese Academy of Sciences, Beijing, 100049, China.
4
Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, Guangdong, 510650, China. liuyifei@scbg.ac.cn.
5
Guangdong Provincial Key Laboratory of Applied Botany, Guangzhou, Guangdong, 510650, China. liuyifei@scbg.ac.cn.
6
Key Laboratory of Plant Germplasm Enhancement and Specially Agriculture, Wuhan Botanical Garden, the Chinese Academy of Sciences, Wuhan, Hubei, 430074, China.
7
Key Laboratory of Plant Resources Conservation and Sustainable Utilization, South China Botanical Garden, the Chinese Academy of Sciences, Guangzhou, Guangdong, 510650, China. huanghw@scbg.ac.cn.
8
Guangdong Provincial Key Laboratory of Applied Botany, Guangzhou, Guangdong, 510650, China. huanghw@scbg.ac.cn.
9
Key Laboratory of Plant Germplasm Enhancement and Specially Agriculture, Wuhan Botanical Garden, the Chinese Academy of Sciences, Wuhan, Hubei, 430074, China. huanghw@scbg.ac.cn.

Abstract

An outbreak of kiwifruit bacterial canker disease caused by Pseudomonas syringae pv. actinidiae (Psa) beginning in 2008 caused disaster to the kiwifruit industry. However the mechanisms of interaction between kiwifruit and Psa are unknown. Long noncoding RNAs (lncRNAs) are known to regulate many biological processes, but comprehensive repertoires of kiwifruit lncRNAs and their effects on the interaction between kiwifruit and Psa are unknown. Here, based on in-depth transcriptomic analysis of four kiwifruit materials at three stages of infection with Psa, we identified 14,845 transcripts from 12,280 loci as putative lncRNAs. Hierarchical clustering analysis of differentially-expressed transcripts reveals that both protein-coding and lncRNA transcripts are expressed species-specifically. Comparing differentially-expressed transcripts from different species, variations in pattern-triggered immunity (PTI) were the main causes of species-specific responses to infection by Psa. Using weighted gene co-expression network analysis, we identified species-specific expressed key lncRNAs which were closely related to plant immune response and signal transduction. Our results illustrate that different kiwifruit species employ multiple different plant immunity layers to fight against Psa infection, which causes distinct responses. We also discovered that lncRNAs might affect kiwifruit responses to Psa infection, indicating that both protein-coding regions and noncoding regions can affect kiwifruit response to Psa infection.

PMID:
28687784
PMCID:
PMC5501815
DOI:
10.1038/s41598-017-05377-y
[Indexed for MEDLINE]
Free PMC Article

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