Transcriptome divergence between introduced and native populations of Canada thistle, Cirsium arvense
Version of Record online: 16 APR 2013
© 2013 The Authors. New Phytologist © 2013 New Phytologist Trust
Volume 199, Issue 2, pages 595–608, July 2013
How to Cite
Guggisberg, A., Lai, Z., Huang, J. and Rieseberg, L. H. (2013), Transcriptome divergence between introduced and native populations of Canada thistle, Cirsium arvense. New Phytologist, 199: 595–608. doi: 10.1111/nph.12258
- Issue online: 19 JUN 2013
- Version of Record online: 16 APR 2013
- Manuscript Accepted: 6 MAR 2013
- Manuscript Received: 15 NOV 2012
- Swiss National Science Foundation
- 2007. Modulation of plant defenses by ethylene. Journal of Plant Growth Regulation 26: 160–177. , , , .
- 2000. Benefits and costs of induced plant defense for Lepidium virginicum (Brassicaceae). Ecology 81: 1804–1813. .
- 2000. Invasiveness, invasibility and the role of environmental stress in the spread of non-native plants. Perspectives in Plant Ecology, Evolution and Systematics 3: 52–66. , , .
- 1990. Basic local alignment search tool. Journal of Molecular Biology 215: 403–410. , , , , .
- 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Research 25: 3389–3402. , , , , , , .
- 2012. Auxin and ABA act as central regulators of developmental networks associated with paradormancy in Canada thistle (Cirsium arvense). Functional and Integrative Genomics 12: 515–531. , , , , , , , , , .
- 1998. Jasmonate-induced responses are costly but benefit plants under attack in native populations. Proceedings of the National Academy of Sciences, USA 95: 8113–8118. .
- 2012. The more the better? The role of polyploidy in facilitating plant invasions. Annals of Botany 109: 19–45. , , , , , , .
- 2008. Leaf trichome responses to herbivory in willows: induction, relaxation and costs. New Phytologist 179: 176–184. , , .
- 2010. Genetic and phenotypic differences between thistle populations in response to habitat and weed management practices. Biological Journal of the Linnean Society 99: 797–807. , , , , .
- 2003. Allometry and development in herbaceous plants: functional responses of meristem allocation to light and nutrient availability. American Journal of Botany 90: 404–412. , .
- 2005. Phenotypic and genetic differentiation between native and introduced plant populations. Oecologia 144: 1–11. , , , , , .
- 2004. GO:TermFinder - open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics 20: 3710–3715. , , , , , , .
- 2012. Global change, global trade, and the next wave of plant invasions. Frontiers of Ecology and Environment 10: 20–28. , , , , , , , , , et al.
- 2003. The ABSCISIC ACID INSENSITIVE 3 (ABI3) gene is modulated by farnesylation and is involved in auxin signaling and lateral root development in Arabidopsis. The Plant Journal 34: 67–75. , , , .
- 2007. Evidence of climatic niche shift during biological invasion. Ecology Letters 10: 701–709. , , , , , .
- the AmiGO Hub, the Web Presence Working Group. 2009. AmiGO: online access to ontology and annotation data. Bioinformatics 25: 288–289. , , , , , ,
- 2005. Potential model weeds to study genomics, ecology, and physiology in the 21st century. Weed Science 53: 929–937. , , , .
- 2011. The cytosolic/nuclear HSC70 and HSP90 molecular chaperones are important for stomatal closure and modulate abscisic acid-dependent physiological responses in Arabidopsis. Plant Physiology 156: 1481–1492. , , , , , , , , .
- 2005. Stress-induced co-expression of alternative respiratory chain components in Arabidopsis thaliana. Plant Molecular Biology 58: 193–212. , , , , , , , .
- 2009. Common garden comparisons of native and introduced plant populations: latitudinal clines can obscure evolutionary inferences. Evolutionary Applications 2: 187–199. , , .
- 2004. Is invasion success explained by the enemy release hypothesis? Ecology Letters 7: 721–733. , , , .
- 2006. Biogeographical comparison of the arthropod herbivore communities associated with Lepidium draba in its native, expanded and introduced ranges. Journal of Biogeography 33: 2107–2119. , , , , .
- 2003. Statistical tests for differential expression in cDNA microarray experiments. Genome Biology 4: 210. , .
- 2005. Improved statistical tests for differential gene expression by shrinking variance components estimates. Biostatistics 6: 59–75. , , .
- 2011. Do invasive species show higher phenotypic plasticity than native species and, if so, is it adaptive? A meta-analysis. Ecology Letters 14: 419–431. , , .
- 2008. Founding events in species invasions: genetic variation, adaptive evolution, and the role of multiple introductions. Molecular Ecology 17: 431–449. , .
- 2004. Assessing the economic, environmental, and societal losses from invasive plants on rangeland and wildlands. Weed Technology 18: 1411–1416. , , , , , , , , , .
- 2000. Hybridization as a stimulus for the evolution of invasiveness in plants? Proceedings of the National Academy of Sciences, USA 97: 7043–7050. , .
- 2008. Successful range-expanding plants experience less above-ground and below-ground enemy impact. Nature 456: 946–948. , , , , , , , , .
- 2007. The FERONIA receptor-like kinase mediates male-female interactions during polen tube reception. Science 317: 656–660. , , , , , , .
- 2002. The war on weeds in the Prairie west: an environmental history. Calgary, Canada: University of Calgary Press. .
- 2011. Nuclear and chloroplast microsatellites show multiple introductions in the worldwide invasion history of common ragweed, Ambrosia artemisiifolia. PLoS ONE 6: e17658. , , , .
- 2009. Different flowering phenology of alien invasive species in Spain: evidence for the use of an empty temporal niche? Plant Biology 11: 803–811. , , , .
- 1993. Isolation and characterization of a gene involved in ethylene biosynthesis from Arabidopsis thaliana. Gene 134: 217–221. , , , .
- 1977. Evidence for the existence of three primary strategies in plants and its relevance to ecological and evolutionary theory. The American Naturalist 11: 1169–1194. .
- 2012. Invasion history of North American Canada thistle, Cirsium arvense. Journal of Biogeography 39: 1919–1931. , , , , , , .
- 2010. Three related receptor-like kinases are required for optimal cell elongation in Arabidopsis thaliana. Proceedings of the National Academy of Sciences, USA 106: 7648–7653. , , , , , .
- 1972. Regenerative capacity of root fragments of Cirsium arvense (L.) Scop. Weed Research 12: 128–136. .
- 1918. Canada thistle and methods of eradication. Farmer's Bulletin of the United States Department of Agriculture. 1002 .
- 2010. Is there a risk to living large? Large size correlates with reduced growth when stressed for knapweed populations. Biological Invasions 12: 3591–3598. , , , .
- 2007. A receptor-like kinase mediates the response of Arabidopsis cells to the inhibition of cellulose synthesis. Current Biology 17: 922–931. , , , , , , , , .
- 1992. The dilemma of plants: to grow or defend. The Quarterly Review of Biology 67: 283–334. , .
- 2013. The molecular basis of invasiveness: differences in gene expression of native and introduced common ragweed (Ambrosia artemisifolia) in stressful and benign environments. Molecular Ecology. doi:10.1111/mec.12179. , , , , .
- 2011. Genetic differentiation in life-history traits of introduced and native common ragweed (Ambrosia artemisiifolia) populations. Journal of Evolutionary Biology 24: 2731–2749. , .
- 1968. The nature, ecology, and control of Canada thistle. Technical Bulletin of the United States Department of Agriculture, 1386. .
- 1972. Environment and herbicide effects on Canada thistle ecotypes. Weed Science 20: 163–167. , .
- 2003a. Summaries of Affymetrix GeneChip probe level data. Nucleic Acids Research 31: e15. , , , , , .
- 2003b. Exploration, normalization, and summaries of high density oligonucleotide array probe level data. Biostatistics 4: 249–264. , , , , , , .
- 2008. Genetics and evolution of weedy Helianthus annuus populations: adaptation of an agricultural weed. Molecular Ecology 17: 384–394. , .
- 2002. Exotic plant invasions and the enemy release hypothesis. Trends in Ecology and Evolution 17: 164–170. , .
- 2010. Conserved molecular components for pollen tube reception and fungal invasion. Science 330: 968–971. , , , , , , .
- 2012. Reduced drought tolerance during domestication and the evolution of weediness results from tolerance-growth trade-offs. Evolution 66: 3803–3814. , , , .
- 2006. Microarray analysis reveals differential gene expression in hybrid sunflower species. Molecular Ecology 15: 1213–1227. , , , .
- 2012. Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression. American Journal of Botany 99: 209–218. , , , , , , , , , et al.
- 2008. Natural variation in gene expression between wild and weedy populations of Helianthus annuus. Genetics 179: 1881–1890. , , , .
- 2007. Increased genetic variation and evolutionary potential drive the success of an invasive grass. Proceedings of the National Academy of Sciences, USA 104: 3883–3888. , .
- 2011. Coexpression-based clustering of Arabidopsis root genes predicts functional modules in early phosphate deficiency signaling. Plant Physiology 155: 1383–1402. , , , , , .
- 1976. Sexual dimorphism in Cirsium arvense (L.) Scop. Annals of Botany 40: 115–123. , .
- 2008. Evidence for multiple introductions of Centaurea stoebe micranthos (spotted knapweed, Asteraceae) to North America. Molecular Ecology 17: 4197–4208. , , .
- 2011. Increased growth in sunflower correlates with reduced defences and altered gene expression in response to biotic and abiotic stress. Molecular Ecology 20: 4683–4694. , , , , .
- 1975. The biology of Canadian weeds. 13. Cirsium arvense (L.) Scop. Canadian Journal of Plant Science 55: 1033–1048. .
- 2003. Role of SGT1 in the regulation of plant R gene signalling. Microbes and Infection 5: 969–976. , .
- 2007. Interaction between SGT1 and cytosolic/nuclear HSC70 chaperones regulates Arabidopsis immune responses. The Plant Cell 19: 4061–4076. , , , , , , , , , .
- 2011. Invasive plants do not display greater phenotypic plasticity than their native or non-invasive counterparts: a meta-analysis. Oikos 120: 1393–1401. , .
- 2011. Ploidy influences rarity and invasiveness in plants. Journal of Ecology 99: 1108–1115. , , .
- 2007. Updated world map of the Köppen-Geiger climate classification. Hydrology and Earth System Sciences 11: 1633–1644. , , .
- 1998. Role of farnesyltransferase in ABA regulation of guard cell anion channels and plant water loss. Science 282: 287–290. , , , , .
- 2008. Adapative evolution in invasive species. Trends in Ecology and Evolution 13: 288–294. , , , , .
- 2012. A global assessment of invasive plant impacts on resident species, communities and ecosystems: the interaction of impact measures, invading species' traits and environment. Global Change Biology 18: 1725–1737. , , , , , , .
- R Development Core Team. 2010. R: a language and environment for statistical computing. Vienna, Austria: R Foundation for Statistical Computing.
- 2006. Jack of all trades, master of some? On the role of phenotypic plasticity in plant invasions. Ecology Letters 9: 981–993. , , , , .
- 2012. Naturalization of introduced plants: ecological drivers of biogeographical patterns. New Phytologist 196: 383–396. , .
- 1994. Pine invasions in the Southern Hemisphere: determinants of spread and invadability. Journal of Biogeography 21: 511–527. , , .
- 2000 Primer3 on the WWW for general users and for biologist programmers. In: Krawetz S, Misener SA, eds. Methods in molecular biology, vol. 132: bioinformatics methods and protocols. Totowa, NJ, USA: Humana Press, 365–386. , .
- 2011. Costs of constitutive and herbivore-induced chemical defences in pine trees emerge only under low nutrient availability. Journal of Ecology 99: 818–827. , , .
- 2008. Phylogeography of native ploidy levels and invasive tetraploids of Solidago gigantea. Molecular Ecology 17: 5245–5256. , , , .
- 1993. A European weed survey in 10 major crop systems to identify targets for biological control. Weed Research 33: 449–458. , , .
- 1847. Extirpation of Canada thistles. Transactions of the New-York State Agricultural Society 6: 405–428. .
- 2009. Evolution of weediness and invasiveness: charting the course for weed genomics. Weed Science 57: 451–462. , , , , , , , , .
- 2002. A direct approach to false discovery rates. Journal of the Royal Statistical Society: Series B 64: 479–498. .
- 2012. A resurrection study reveals rapid adaptive evolution within populations of an invasive species. Evolutionary Applications 6: 266–278. , , , , .
- 2005. Ragweed (Ambrosia) progression and its health risks: will Switzerland resist this invasion? Swiss Medical Weekly 135: 538–548. , , , , .
- 2010. Biological Flora of the British Isles: Cirsium arvense (L.) Scop. Journal of Ecology 98: 938–983. .
- 2010. Natural allelic variation underlying a major fitness trade-off in Arabidopsis thaliana. Nature 465: 632–638. , , , , , , , , , et al.
- 2001. Missing values estimation methods for DNA microarrays. Bioinformatics 17: 520–525. , , , , , , , .
- 1977. The pollination of introduced species, with special reference to British Isles and the genus Impatiens. In: Richards AJ, ed. The pollination of flowers by insects. New York, NY, USA: Academic Press, 117–123. .
- 2012. Ethylene in vegetative development: a tale with a riddle. New Phytologist 194: 895–909. , , , .
- 2003. Ethylene and auxin control the Arabidopsis response to decreased light intensity. Plant Physiology 133: 517–527. , , , , , .
- 2008. Rapid evolution in introduced species, ‘invasive traits’ and recipient communities: challenges for predicting invasive potential. Diversity and Distributions 13: 569–580. , .
- 1996. Biological invasions. London, UK: Chapman & Hall. .
- 2003. MAANOVA: a software package for the analysis of spotted cDNA microarray experiments. In: Parmigiani G, Garrett ES, Irizarry RA, Zeger SL, eds. The analysis of gene expression data: methods and software. New York, NY, USA: Springer Verlag. , , , .
- 2011. Distinct responses of the mitochondrial respiratory chain to long- and short-term high-light environment in Arabidopsis thaliana. Plant, Cell & Environment 34: 618–628. , , , , , , .
- 2010. Functional genomics analysis of horseweed (Conyza canadensis) with special reference to the evolution of non-target-site glyphosate resistance. Weed Science 58: 109–117. , , , , , , , , , et al.