Transcriptomics-based analysis using RNA-Seq of the coconut (Cocos nucifera) leaf in response to yellow decline phytoplasma infection

Nejat, Naghmeh, Cahill, David M., Vadamalai, Ganesan, Ziemann, Mark, Rookes, James and Naderali, Neda 2015, Transcriptomics-based analysis using RNA-Seq of the coconut (Cocos nucifera) leaf in response to yellow decline phytoplasma infection, Molecular genetics and genomics, vol. 290, no. 5, pp. 1899-1910, doi: 10.1007/s00438-015-1046-2.

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Title Transcriptomics-based analysis using RNA-Seq of the coconut (Cocos nucifera) leaf in response to yellow decline phytoplasma infection
Author(s) Nejat, Naghmeh
Cahill, David M.ORCID iD for Cahill, David M. orcid.org/0000-0002-2556-0528
Vadamalai, Ganesan
Ziemann, Mark
Rookes, JamesORCID iD for Rookes, James orcid.org/0000-0003-1479-2339
Naderali, Neda
Journal name Molecular genetics and genomics
Volume number 290
Issue number 5
Start page 1899
End page 1910
Total pages 12
Publisher Springer
Place of publication New York , N. Y.
Publication date 2015-10
ISSN 1617-4615
1617-4623
Keyword(s) Coconut palm
De novo transcriptomics
Innate immunity
Malayan Red Dwarf ecotype
RNA-Seq
Yellow decline phytoplasma
Cocos
Genes, Plant
Immunity, Innate
Phytoplasma
Plant Leaves
Sequence Analysis, RNA
Transcriptome
Summary Invasive phytoplasmas wreak havoc on coconut palms worldwide, leading to high loss of income, food insecurity and extreme poverty of farmers in producing countries. Phytoplasmas as strictly biotrophic insect-transmitted bacterial pathogens instigate distinct changes in developmental processes and defence responses of the infected plants and manipulate plants to their own advantage; however, little is known about the cellular and molecular mechanisms underlying host–phytoplasma interactions. Further, phytoplasma-mediated transcriptional alterations in coconut palm genes have not yet been identified. This study evaluated the whole transcriptome profiles of naturally infected leaves of Cocos nucifera ecotype Malayan Red Dwarf in response to yellow decline phytoplasma from group 16SrXIV, using RNA-Seq technique. Transcriptomics-based analysis reported here identified genes involved in coconut innate immunity. The number of down-regulated genes in response to phytoplasma infection exceeded the number of genes up-regulated. Of the 39,873 differentially expressed unigenes, 21,860 unigenes were suppressed and 18,013 were induced following infection. Comparative analysis revealed that genes associated with defence signalling against biotic stimuli were significantly overexpressed in phytoplasma-infected leaves versus healthy coconut leaves. Genes involving cell rescue and defence, cellular transport, oxidative stress, hormone stimulus and metabolism, photosynthesis reduction, transcription and biosynthesis of secondary metabolites were differentially represented. Our transcriptome analysis unveiled a core set of genes associated with defence of coconut in response to phytoplasma attack, although several novel defence response candidate genes with unknown function have also been identified. This study constitutes valuable sequence resource for uncovering the resistance genes and/or susceptibility genes which can be used as genetic tools in disease resistance breeding.
Language eng
DOI 10.1007/s00438-015-1046-2
Field of Research 060102 Bioinformatics
060704 Plant Pathology
060109 Proteomics and Intermolecular Interactions (excl Medical Proteomics)
Socio Economic Objective 970106 Expanding Knowledge in the Biological Sciences
HERDC Research category C1 Refereed article in a scholarly journal
Copyright notice ©2015, Springer
Persistent URL http://hdl.handle.net/10536/DRO/DU:30073823

Document type: Journal Article
Collection: School of Life and Environmental Sciences
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