Research Areas
Plant evolutionary ecology
I study the processes of plant adaptation. I aim to address fundamental questions in plant evolutionary ecology using an integrative approach that includes techniques and theories from comparative genomics, quantitative genetics, molecular biology, chemical ecology and experimental evolution.
CV
Education
- Ph.D. ETH Zurich
- Master
- Bachelor, China Agricultural University, Beijing, China
Position
Publications
Selection
- . . ‘Wild tobacco genomes reveal the evolution of nicotine biosynthesis.’ Proceedings of the National Academy of Sciences of the United States of America (PNAS) 114, No. 23: 6133–6138. doi: 10.1073/pnas.1700073114.
- . . ‘Tissue-specific emission of (E)-alpha-bergamotene helps resolve the dilemma when pollinators are also herbivores.’ Current biology 27, No. 9: 1336–1341. doi: 10.1016/j.cub.2017.03.017.
- . . ‘Nicotiana attenuata Data Hub (NaDH): an integrative platform for exploring genomic, transcriptomic and metabolomic data in wild tobacco.’ BMC Genomics 18, No. 1: 79. doi: 10.1186/s12864-016-3465-9.
- . . ‘Molecular mechanisms of adaptation and speciation: why do we need an integrative approach?’ Molecular Ecology 26, No. 1: 277–290. doi: 10.1111/mec.13678.
- . . ‘Evidence of an evolutionary hourglass pattern in herbivory-induced transcriptomic responses.’ New Phytologist 215, No. 3: 1264–1273. doi: 10.1111/nph.14644.
- . . ‘Evolution of herbivore-induced early defense signaling was shaped by genome-wide duplications in Nicotiana.’ eLife 5. doi: 10.7554/eLife.19531.
- . . ‘Insect herbivory elicits genome-wide alternative splicing responses in Nicotiana attenuata.’ The Plant journal 84, No. 1: 228–43. doi: 10.1111/tpj.12997.
- . . ‘The genetic basis of pollinator adaptation in a sexually deceptive orchid.’ PLoS Genetics 8, No. 8: e1002889. doi: 10.1371/journal.pgen.1002889.
- . . ‘Stearoyl-acyl carrier protein desaturases are associated with floral isolation in sexually deceptive orchids.’ Proceedings of the National Academy of Sciences of the United States of America (PNAS) 108, No. 14: 5696–701. doi: 10.1073/pnas.1013313108.
- . . ‘Floral isolation is the main reproductive barrier among closely related sexually deceptive orchids.’ Evolution 65, No. 9: 2606–20. doi: 10.1111/j.1558-5646.2011.01323.x.
Complete List
- . . ‘Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era.’ The Plant cell koab189. doi: 10.1093/plcell/koab189.
- . . ‘Controlled hydroxylations of diterpenoids allow for plant chemical defense without autotoxicity.’ Science 371, No. 6526: 255–260.
- . . ‘Transcriptomic profiling reveals shared signalling networks between flower development and herbivory-induced responses in tomato .’ Frontiers in Plant Science 12: 722810. doi: 10.3389/fpls.2021.722810.
- . . ‘An improved high-quality genome assembly and annotation of Tibetan hulless barley.’ Scientific data 7, No. 1: 139. doi: 10.1038/s41597-020-0480-0.
- . . ‘Genotyping-by-Sequencing for Species Delimitation in Lemna Section Uninerves Hegelm. (Lemnaceae).’ In The Duckweed Genomes, edited by , 115–123. Cham. doi: 10.1007/978-3-030-11045-1_11.
- . . ‘Allelic differences of clustered terpene synthases contribute to correlated intra-specific variation of floral and herbivory-induced volatiles in a wild tobacco.’ New Phytologist na, No. na. doi: 10.1111/nph.16739.
- . . ‘Evolution of a novel and adaptive floral scent in wild tobacco.’ Molecular Biology and Evolution 2019. doi: 10.1093/molbev/msz292. [online first]
- . . ‘Evolution of Alternative Splicing in Eudicots .’ Frontiers in Plant Science 10: 707. doi: 10.3389/fpls.2019.00707.
- . . ‘Efficient genetic transformation and CRISPR/Cas9-mediated genome editing in Lemna aequinoctialis.’ Plant Biotechnology Journal , No. ja. doi: 10.1111/pbi.13128.
- . . ‘Low genetic variation is associated with low mutation rate in the giant duckweed.’ Nature Communications 10, No. 1: 1243. doi: 10.1038/s41467-019-09235-5.
- . . ‘Wild tobacco genomes reveal the evolution of nicotine biosynthesis.’ Proceedings of the National Academy of Sciences of the United States of America (PNAS) 114, No. 23: 6133–6138. doi: 10.1073/pnas.1700073114.
- . . ‘Tissue-specific emission of (E)-alpha-bergamotene helps resolve the dilemma when pollinators are also herbivores.’ Current biology 27, No. 9: 1336–1341. doi: 10.1016/j.cub.2017.03.017.
- . . ‘Species-specific regulation of herbivory-induced defoliation tolerance is associated with jasmonate inducibility.’ Ecology and Evolution 7, No. 11: 3703–3712. doi: 10.1002/ece3.2953.
- . . ‘O-Acyl sugars protect a wild tobacco from both native fungal pathogens and a specialist herbivore.’ Plant Physiology 174, No. 1: 370–386. doi: 10.1104/pp.16.01904.
- . . ‘Nicotiana attenuata Data Hub (NaDH): an integrative platform for exploring genomic, transcriptomic and metabolomic data in wild tobacco.’ BMC Genomics 18, No. 1: 79. doi: 10.1186/s12864-016-3465-9.
- . . ‘NaMYB8 regulates distinct, optimally distributed herbivore defense traits.’ Journal of Integrative Plant Biology 59, No. 12: 844–850. doi: 10.1111/jipb.12593.
- . . ‘Molecular mechanisms of adaptation and speciation: why do we need an integrative approach?’ Molecular Ecology 26, No. 1: 277–290. doi: 10.1111/mec.13678.
- . . ‘Introduction: integrative molecular ecology is rapidly advancing the study of adaptation and speciation.’ Molecular Ecology 26, No. 1: 1–6. doi: 10.1111/mec.13947.
- . . ‘Evidence of an evolutionary hourglass pattern in herbivory-induced transcriptomic responses.’ New Phytologist 215, No. 3: 1264–1273. doi: 10.1111/nph.14644.
- . . ‘Catechol, a major component of smoke, influences primary root growth and root hair elongation through reactive oxygen species-mediated redox signaling.’ New Phytologist 213, No. 4: 1755–1770. doi: 10.1111/nph.14317.
- . . ‘Evolution of herbivore-induced early defense signaling was shaped by genome-wide duplications in Nicotiana.’ eLife 5. doi: 10.7554/eLife.19531.
- . . ‘Auxin is rapidly induced by herbivore attack and regulates a subset of systemic, jasmonate-dependent defenses.’ Plant Physiology 172, No. 1: 521–32. doi: 10.1104/pp.16.00940.
- . . ‘Virus-induced gene silencing using tobacco rattle virus as a tool to study the interaction between Nicotiana attenuata and Rhizophagus irregularis.’ PloS one 10, No. 8: e0136234. doi: 10.1371/journal.pone.0136234.
- . . ‘The rapidly evolving associations among herbivore associated elicitor-induced phytohormones in Nicotiana.’ Plant Signal and Behaviour 10, No. 7: e1035850. doi: 10.1080/15592324.2015.1035850.
- . . ‘Modeling the two-locus architecture of divergent pollinator adaptation: how variation in SAD paralogs affects fitness and evolutionary divergence in sexually deceptive orchids.’ Ecology and Evolution 5, No. 2: 493–502. doi: 10.1002/ece3.1378.
- . . ‘Insect herbivory elicits genome-wide alternative splicing responses in Nicotiana attenuata.’ The Plant journal 84, No. 1: 228–43. doi: 10.1111/tpj.12997.
- . . ‘Herbivore associated elicitor-induced defences are highly specific among closely related Nicotiana species.’ BMC Plant Biology 15: 2. doi: 10.1186/s12870-014-0406-0.
- . . ‘Transcriptome and proteome data reveal candidate genes for pollinator attraction in sexually deceptive orchids.’ PloS one 8, No. 5: e64621. doi: 10.1371/journal.pone.0064621.
- . . ‘Pollinator shifts between Ophrys sphegodes populations: might adaptation to different pollinators drive population divergence?’ Journal of Evolutionary Biology 26, No. 10: 2197–208. doi: 10.1111/jeb.12216.
- . . ‘The genetic basis of pollinator adaptation in a sexually deceptive orchid.’ PLoS Genetics 8, No. 8: e1002889. doi: 10.1371/journal.pgen.1002889.
- . . ‘Pollinator-driven speciation in sexually deceptive orchids.’ International Journal of Ecology 2012. doi: 10.1155/2012/285081.
- . . ‘Stearoyl-acyl carrier protein desaturases are associated with floral isolation in sexually deceptive orchids.’ Proceedings of the National Academy of Sciences of the United States of America (PNAS) 108, No. 14: 5696–701. doi: 10.1073/pnas.1013313108.
- . . ‘Floral isolation is the main reproductive barrier among closely related sexually deceptive orchids.’ Evolution 65, No. 9: 2606–20. doi: 10.1111/j.1558-5646.2011.01323.x.
- . . ‘Gene conversion in the rice genome.’ BMC Genomics 9: 93. doi: 10.1186/1471-2164-9-93.
- . . ‘High altitude adaptation and phylogenetic analysis of Tibetan horse based on the mitochondrial genome.’ Journal of Genetics and Genomics 34, No. 8: 720–9. doi: 10.1016/S1673-8527(07)60081-2.
- . . ‘Detection of HPV-2 and identification of novel mutations by whole genome sequencing from biopsies of two patients with multiple cutaneous horns.’ Journal of Clinic Virology 39, No. 1: 34–42. doi: 10.1016/j.jcv.2007.01.002.
- . . ‘Complete sequence and gene organization of the Tibetan chicken mitochondrial genome.’ Yi Chuan 28, No. 7: 769–77.
- . . ‘A mitochondrial genome sequence of the Tibetan antelope (Pantholops hodgsonii).’ Genomics Proteomics and Bioinformatics 3, No. 1: 5–17.
Professor Dr. Shuqing Xu
