Massively parallel sequencing and analysis of expressed sequence tags in a successful invasive plant

Prentis, Peter J., Woolfit, Megan, Thomas-Hall, Skye R., Ortiz-Barrientos, Daniel, Pavasovic, Ana, Lowe, Andrew J. and Schenk, Peer M. (2010) Massively parallel sequencing and analysis of expressed sequence tags in a successful invasive plant. Annals of Botany, 106 6: 1009-1017. doi:10.1093/aob/mcq201


Author Prentis, Peter J.
Woolfit, Megan
Thomas-Hall, Skye R.
Ortiz-Barrientos, Daniel
Pavasovic, Ana
Lowe, Andrew J.
Schenk, Peer M.
Title Massively parallel sequencing and analysis of expressed sequence tags in a successful invasive plant
Journal name Annals of Botany   Check publisher's open access policy
ISSN 0305-7364
0003-4754
1095-8290
Publication date 2010-12
Sub-type Article (original research)
DOI 10.1093/aob/mcq201
Volume 106
Issue 6
Start page 1009
End page 1017
Total pages 9
Editor John R. Barnett
J. S. Heslop-Harrison
Place of publication London, U.K.
Publisher Oxford University Press
Collection year 2011
Language eng
Formatted abstract
Background: Invasive species pose a significant threat to global economies, agriculture and biodiversity. Despite progress towards understanding the ecological factors associated with plant invasions, limited genomic resources have made it difficult to elucidate the evolutionary and genetic factors responsible for invasiveness. This study presents the first expressed sequence tag (EST) collection for Senecio madagascariensis, a globally invasive plant species.
Methods:  We used pyrosequencing of one normalized and two subtractive libraries, derived from one native and one invasive population, to generate an EST collection. ESTs were assembled into contigs, annotated by BLAST comparison with the NCBI non-redundant protein database and assigned gene ontology (GO) terms from the Plant GO Slim ontologies.
Key Results:
  Assembly of the 221 746 sequence reads resulted in 12 442 contigs. Over 50 (6183) of 12 442 contigs showed significant homology to proteins in the NCBI database, representing approx. 4800 independent transcripts. The molecular transducer GO term was significantly over-represented in the native (South African) subtractive library compared with the invasive (Australian) library. Based on NCBI BLAST hits and literature searches, 40 of the molecular transducer genes identified in the South African subtractive library are likely to be involved in response to biotic stimuli, such as fungal, bacterial and viral pathogens.
Conclusions:
This EST collection is the first representation of the S. madagascariensis transcriptome and provides an important resource for the discovery of candidate genes associated with plant invasiveness. The over-representation of molecular transducer genes associated with defence responses in the native subtractive library provides preliminary support for aspects of the enemy release and evolution of increased competitive ability hypotheses in this successful invasive. This study highlights the contribution of next-generation sequencing to better understanding the molecular mechanisms underlying ecological hypotheses that are important in successful plant invasions.
© The Author 2010. Published by Oxford University Press on behalf of the Annals of Botany Company. All rights reserved.
Keyword ESTs
Genomics
Invasive species
Maternal effects
Rapid adaptation
Selection
Senecio madagascariensis
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2011 Collection
School of Biological Sciences Publications
 
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Created: Wed, 22 Dec 2010, 11:41:41 EST by Gail Walter on behalf of School of Biological Sciences