| # | Title | Journal | Year | Citations |
|---|
| 1 | Reactive oxygen gene network of plants | Trends in Plant Science | 2004 | 4,689 |
| 2 | The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray) | Science | 2006 | 3,945 |
| 3 | BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks | Bioinformatics | 2005 | 3,901 |
| 4 | LIGNINBIOSYNTHESIS | Annual Review of Plant Biology | 2003 | 3,709 |
| 5 | The genome of the domesticated apple (Malus × domestica Borkh.) | Nature Genetics | 2010 | 1,891 |
| 6 | Lignins: Natural polymers from oxidative coupling of 4-hydroxyphenyl- propanoids | Phytochemistry Reviews | 2004 | 1,282 |
| 7 | The Medicago genome provides insight into the evolution of rhizobial symbioses | Nature | 2011 | 1,166 |
| 8 | Auxin: A Trigger for Change in Plant Development | Cell | 2009 | 1,102 |
| 9 | The genome of Laccaria bicolor provides insights into mycorrhizal symbiosis | Nature | 2008 | 1,003 |
| 10 | Reactive oxygen species as signals that modulate plant stress responses and programmed cell death | BioEssays | 2006 | 951 |
| 11 | The genome of Tetranychus urticae reveals herbivorous pest adaptations | Nature | 2011 | 897 |
| 12 | Nitrate-Regulated Auxin Transport by NRT1.1 Defines a Mechanism for Nutrient Sensing in Plants | Developmental Cell | 2010 | 870 |
| 13 | Modeling gene and genome duplications in eukaryotes | Proceedings of the National Academy of Sciences of the United States of America | 2005 | 850 |
| 14 | NINJA connects the co-repressor TOPLESS to jasmonate signalling | Nature | 2010 | 832 |
| 15 | Reactive Oxygen Species in Plant Cell Death | Plant Physiology | 2006 | 818 |
| 16 | Genome analysis of the smallest free-living eukaryote Ostreococcus tauri unveils many unique features | Proceedings of the National Academy of Sciences of the United States of America | 2006 | 809 |
| 17 | Duplication and Divergence: The Evolution of New Genes and Old Ideas | Annual Review of Genetics | 2004 | 756 |
| 18 | Draft Genome Sequence of the Sexually Transmitted Pathogen Trichomonas vaginalis | Science | 2007 | 731 |
| 19 | The auxin influx carrier LAX3 promotes lateral root emergence | Nature Cell Biology | 2008 | 715 |
| 20 | Cell Cycle Regulation in Plant Development | Annual Review of Genetics | 2006 | 704 |
| 21 | Genome-Wide Characterization of the Lignification Toolbox in Arabidopsis | Plant Physiology | 2003 | 689 |
| 22 | Transcriptomic Footprints Disclose Specificity of Reactive Oxygen Species Signaling in Arabidopsis | Plant Physiology | 2006 | 683 |
| 23 | Ethylene Regulates Root Growth through Effects on Auxin Biosynthesis and Transport-Dependent Auxin Distribution | Plant Cell | 2007 | 682 |
| 24 | Arabidopsis lateral root development: an emerging story | Trends in Plant Science | 2009 | 681 |
| 25 | A novel sensor to map auxin response and distribution at high spatio-temporal resolution | Nature | 2012 | 664 |
| 26 | Estimating the total number of phosphoproteins and phosphorylation sites in eukaryotic proteomes | GigaScience | 2017 | 602 |
| 27 | Green Evolution and Dynamic Adaptations Revealed by Genomes of the Marine Picoeukaryotes Micromonas | Science | 2009 | 591 |
| 28 | Functional redundancy of PIN proteins is accompanied by auxin-dependent cross-regulation of PIN expression | Development (Cambridge) | 2005 | 574 |
| 29 | The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation | Proceedings of the National Academy of Sciences of the United States of America | 2007 | 563 |
| 30 | Plant dormancy in the perennial context | Trends in Plant Science | 2007 | 553 |
| 31 | Plants with double genomes might have had a better chance to survive the Cretaceous–Tertiary extinction event | Proceedings of the National Academy of Sciences of the United States of America | 2009 | 552 |
| 32 | Modular cloning in plant cells | Trends in Plant Science | 2005 | 549 |
| 33 | How relevant are flavonoids as antioxidants in plants? | Trends in Plant Science | 2009 | 548 |
| 34 | Auxin-dependent regulation of lateral root positioning in the basal meristem of Arabidopsis | Development (Cambridge) | 2007 | 540 |
| 35 | Ethylene Upregulates Auxin Biosynthesis inArabidopsisSeedlings to Enhance Inhibition of Root Cell Elongation | Plant Cell | 2007 | 536 |
| 36 | Auxin acts as a local morphogenetic trigger to specify lateral root founder cells | Proceedings of the National Academy of Sciences of the United States of America | 2008 | 527 |
| 37 | Genome-Wide Analysis of Core Cell Cycle Genes in Arabidopsis | Plant Cell | 2002 | 523 |
| 38 | Auxin-Mediated Cell Cycle Activation during Early Lateral Root Initiation | Plant Cell | 2002 | 523 |
| 39 | Major events in the genome evolution of vertebrates: Paranome age and size differ considerably between ray-finned fishes and land vertebrates | Proceedings of the National Academy of Sciences of the United States of America | 2004 | 489 |
| 40 | A Guard-Cell-Specific MYB Transcription Factor Regulates Stomatal Movements and Plant Drought Tolerance | Current Biology | 2005 | 484 |
| 41 | Genome duplication and the origin of angiosperms | Trends in Ecology and Evolution | 2005 | 483 |
| 42 | Evidence that microRNA precursors, unlike other non-coding RNAs, have lower folding free energies than random sequences | Bioinformatics | 2004 | 480 |
| 43 | Genome-Wide Analysis of Hydrogen Peroxide-Regulated Gene Expression in Arabidopsis Reveals a High Light-Induced Transcriptional Cluster Involved in Anthocyanin Biosynthesis | Plant Physiology | 2005 | 476 |
| 44 | Transcriptional machineries in jasmonate-elicited plant secondary metabolism | Trends in Plant Science | 2012 | 467 |
| 45 | The hidden duplication past of Arabidopsis thaliana | Proceedings of the National Academy of Sciences of the United States of America | 2002 | 463 |
| 46 | Subcellular homeostasis of phytohormone auxin is mediated by the ER-localized PIN5 transporter | Nature | 2009 | 462 |
| 47 | The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea | Nature | 2016 | 460 |
| 48 | Cell Surface- and Rho GTPase-Based Auxin Signaling Controls Cellular Interdigitation in Arabidopsis | Cell | 2010 | 454 |
| 49 | Pan genome of the phytoplankton Emiliania underpins its global distribution | Nature | 2013 | 448 |
| 50 | A Molecular Timetable for Apical Bud Formation and Dormancy Induction in Poplar | Plant Cell | 2007 | 436 |
