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Xiangchao Gan | Eik Dahms | R. Garrido-Oter | P. Schulze-Lefert | S. Laurent | P. Krajewski | H. Sakakibara | K. Fukushima | M. Tsiantis | Baoxing Song | P. Bednarek | Kenichi Tsuda | A. Piasecka | Thomas M. Winkelmüller | F. Entila | Shajahan Anver | K. Kułak | Aneta Sawikowska | K. Tsuda
[1] Omri M. Finkel,et al. The Plant Microbiome: From Ecology to Reductionism and Beyond. , 2020, Annual review of microbiology.
[2] Jian-Min Zhou,et al. Plant Immunity: Danger Perception and Signaling , 2020, Cell.
[3] S. He,et al. A plant genetic network for preventing dysbiosis in the phyllosphere , 2020, Nature.
[4] William M. Mauck,et al. The strength and pattern of natural selection on gene expression in rice , 2020, Nature.
[5] C. Hua,et al. Surface Sensor Systems in Plant Immunity[OPEN] , 2019, Plant Physiology.
[6] Hai Wang,et al. Complement Genome Annotation Lift Over Using a Weighted Sequence Alignment Strategy , 2019, Front. Genet..
[7] Xun Xu,et al. One thousand plant transcriptomes and the phylogenomics of green plants , 2019, Nature.
[8] J. Baker,et al. Gene expression across mammalian organ development , 2019, Nature.
[9] R. Garrido-Oter,et al. Balancing trade-offs between biotic and abiotic stress responses through leaf age-dependent variation in stress hormone cross-talk , 2019, Proceedings of the National Academy of Sciences.
[10] M. Tsiantis,et al. Gene networks and the evolution of plant morphology. , 2018, Current opinion in plant biology.
[11] S. Nuzhdin,et al. The Evolution of Gene Expression in cis and trans. , 2018, Trends in genetics : TIG.
[12] Barbara Kracher,et al. The Defense Phytohormone Signaling Network Enables Rapid, High-Amplitude Transcriptional Reprogramming during Effector-Triggered Immunity[OPEN] , 2018, Plant Cell.
[13] P. Schulze-Lefert,et al. A dominant‐interfering camta3 mutation compromises primary transcriptional outputs mediated by both cell surface and intracellular immune receptors in Arabidopsis thaliana , 2017, The New phytologist.
[14] Ruben Garrido-Oter,et al. Interplay Between Innate Immunity and the Plant Microbiota. , 2017, Annual review of phytopathology.
[15] C. Zipfel,et al. Function, Discovery, and Exploitation of Plant Pattern Recognition Receptors for Broad-Spectrum Disease Resistance. , 2017, Annual review of phytopathology.
[16] Stéphane Robin,et al. Inference of Adaptive Shifts for Multivariate Correlated Traits , 2017, bioRxiv.
[17] P. Lockhart,et al. Evolutionary Transcriptomics and Proteomics: Insight into Plant Adaptation. , 2017, Trends in plant science.
[18] Kim-Anh Lê Cao,et al. mixOmics: An R package for ‘omics feature selection and multiple data integration , 2017, bioRxiv.
[19] Jonathan D. G. Jones,et al. The highly buffered Arabidopsis immune signaling network conceals the functions of its components , 2017, PLoS genetics.
[20] Rainer P Birkenbihl,et al. Induced Genome-Wide Binding of Three Arabidopsis WRKY Transcription Factors during Early MAMP-Triggered Immunity , 2016, Plant Cell.
[21] I. Somssich,et al. A DNA-based real-time PCR assay for robust growth quantification of the bacterial pathogen Pseudomonas syringae on Arabidopsis thaliana , 2016, Plant Methods.
[22] R. Mott,et al. The Cardamine hirsuta genome offers insight into the evolution of morphological diversity , 2016, Nature Plants.
[23] M. Yasuda,et al. Effector-Triggered Immunity Determines Host Genotype-Specific Incompatibility in Legume-Rhizobium Symbiosis. , 2016, Plant & cell physiology.
[24] J. Bergelson,et al. Genetic architecture and pleiotropy shape costs of Rps2-mediated resistance in Arabidopsis thaliana , 2016, Nature Plants.
[25] Karsten M. Borgwardt,et al. 1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana , 2016, Cell.
[26] Stefan R. Henz,et al. Epigenomic Diversity in a Global Collection of Arabidopsis thaliana Accessions , 2016, Cell.
[27] Karl Rohe,et al. Fast and accurate detection of evolutionary shifts in Ornstein–Uhlenbeck models , 2016 .
[28] M. Koch,et al. Turnip Time Travels: Age Estimates in Brassicaceae. , 2016, Trends in plant science.
[29] Marcel Dicke,et al. Transcriptome dynamics of Arabidopsis during sequential biotic and abiotic stresses. , 2016, The Plant journal : for cell and molecular biology.
[30] Bronwen L. Aken,et al. Divergence in gene expression within and between two closely related flycatcher species , 2016, Molecular ecology.
[31] L. Rieseberg,et al. Expression Divergence Is Correlated with Sequence Evolution but Not Positive Selection in Conifers. , 2016, Molecular biology and evolution.
[32] Yang Zhong,et al. Resolution of Brassicaceae Phylogeny Using Nuclear Genes Uncovers Nested Radiations and Supports Convergent Morphological Evolution , 2015, Molecular biology and evolution.
[33] R. Yoshida,et al. Abiotic Stresses Antagonize the Rice Defence Pathway through the Tyrosine-Dephosphorylation of OsMPK6 , 2015, PLoS pathogens.
[34] M. Koch,et al. A Time-Calibrated Road Map of Brassicaceae Species Radiation and Evolutionary History[OPEN] , 2015, Plant Cell.
[35] Achim Tresch,et al. Heterochrony underpins natural variation in Cardamine hirsuta leaf form , 2015, Proceedings of the National Academy of Sciences.
[36] Peter W. Harrison,et al. Positive Selection Underlies Faster-Z Evolution of Gene Expression in Birds , 2015, Molecular biology and evolution.
[37] Imre E Somssich,et al. Transcriptional networks in plant immunity. , 2015, The New phytologist.
[38] Matthew E. Ritchie,et al. limma powers differential expression analyses for RNA-sequencing and microarray studies , 2015, Nucleic acids research.
[39] Sudhir Kumar,et al. Tree of Life Reveals Clock-Like Speciation and Diversification , 2014, Molecular biology and evolution.
[40] Henrik Kaessmann,et al. Evolutionary dynamics of coding and non-coding transcriptomes , 2014, Nature Reviews Genetics.
[41] Paul Theodor Pyl,et al. HTSeq – A Python framework to work with high-throughput sequencing data , 2014, bioRxiv.
[42] Guy Baele,et al. Analysis of 41 plant genomes supports a wave of successful genome duplications in association with the Cretaceous–Paleogene boundary , 2014, Genome research.
[43] E. Boltenkov,et al. One or three species in Megadenia (Brassicaceae): insight from molecular studies , 2014, Genetica.
[44] C. Whittle,et al. Dynamics of transcriptome evolution in the model eukaryote Neurospora , 2014, Journal of evolutionary biology.
[45] Keqiang Wu,et al. Environmental History Modulates Arabidopsis Pattern-Triggered Immunity in a HISTONE ACETYLTRANSFERASE1–Dependent Manner[C][W] , 2014, Plant Cell.
[46] Jun Zhu,et al. The tapetal AHL family protein TEK determines nexine formation in the pollen wall , 2014, Nature Communications.
[47] F. Vuolo,et al. Leaf Shape Evolution Through Duplication, Regulatory Diversification, and Loss of a Homeobox Gene , 2014, Science.
[48] Michael S. Barker,et al. The butterfly plant arms-race escalated by gene and genome duplications , 2014, Proceedings of the National Academy of Sciences.
[49] J. Glazebrook,et al. Dual Regulation of Gene Expression Mediated by Extended MAPK Activation and Salicylic Acid Contributes to Robust Innate Immunity in Arabidopsis thaliana , 2013, PLoS genetics.
[50] C. Neinhuis,et al. Single-Copy Nuclear Genes Place Haustorial Hydnoraceae within Piperales and Reveal a Cretaceous Origin of Multiple Parasitic Angiosperm Lineages , 2013, PloS one.
[51] Anthony M. Bolger,et al. Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato , 2013, Proceedings of the National Academy of Sciences.
[52] Mathieu Blanchette,et al. The Capsella rubella genome and the genomic consequences of rapid mating system evolution , 2013, Nature Genetics.
[53] Simon Prochnik,et al. The Reference Genome of the Halophytic Plant Eutrema salsugineum , 2013, Front. Plant Sci..
[54] L. Keller,et al. Evolution at two levels in fire ants: the relationship between patterns of gene expression and protein sequence evolution. , 2013, Molecular biology and evolution.
[55] F. Parcy. Faculty Opinions recommendation of Conserved noncoding sequences highlight shared components of regulatory networks in dicotyledonous plants. , 2013 .
[56] A. Prinzing,et al. Disparate relatives: Life histories vary more in genera occupying intermediate environments , 2012 .
[57] Jun Wang,et al. Insights into salt tolerance from the genome of Thellungiella salsuginea , 2012, Proceedings of the National Academy of Sciences.
[58] Peter W. Harrison,et al. The evolution of gene expression and the transcriptome-phenotype relationship. , 2012, Seminars in cell & developmental biology.
[59] L. Bernatchez,et al. Genome-wide patterns of divergence during speciation: the lake whitefish case study , 2012, Philosophical Transactions of the Royal Society B: Biological Sciences.
[60] J. Bergelson,et al. Flagellin perception varies quantitatively in Arabidopsis thaliana and its relatives. , 2012, Molecular biology and evolution.
[61] Tanya Z. Berardini,et al. The Arabidopsis Information Resource (TAIR): improved gene annotation and new tools , 2011, Nucleic Acids Res..
[62] P. Schulze-Lefert,et al. Conservation and clade-specific diversification of pathogen-inducible tryptophan and indole glucosinolate metabolism in Arabidopsis thaliana relatives. , 2011, The New phytologist.
[63] D. Higgins,et al. Fast, scalable generation of high-quality protein multiple sequence alignments using Clustal Omega , 2011, Molecular systems biology.
[64] M. Schierup,et al. Genomic Determinants of Protein Evolution and Polymorphism in Arabidopsis , 2011, Genome biology and evolution.
[65] U. Eggli,et al. Contemporaneous and recent radiations of the world's major succulent plant lineages , 2011, Proceedings of the National Academy of Sciences.
[66] Hanbo Chen,et al. VennDiagram: a package for the generation of highly-customizable Venn and Euler diagrams in R , 2011, BMC Bioinformatics.
[67] M. Clements,et al. Dated molecular phylogenies indicate a Miocene origin for Arabidopsis thaliana , 2010, Proceedings of the National Academy of Sciences.
[68] Matej Oresic,et al. MZmine 2: Modular framework for processing, visualizing, and analyzing mass spectrometry-based molecular profile data , 2010, BMC Bioinformatics.
[69] Martin Krzywinski,et al. Fast Diploidization in Close Mesopolyploid Relatives of Arabidopsis[W][OA] , 2010, Plant Cell.
[70] Timothy L. Bailey,et al. Motif Enrichment Analysis: a unified framework and an evaluation on ChIP data , 2010, BMC Bioinformatics.
[71] T. Boller,et al. Uncoupling of sustained MAMP receptor signaling from early outputs in an Arabidopsis endoplasmic reticulum glucosidase II allele , 2009, Proceedings of the National Academy of Sciences.
[72] J. Glazebrook,et al. Network Properties of Robust Immunity in Plants , 2009, PLoS genetics.
[73] Davis J. McCarthy,et al. edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..
[74] R. Ree,et al. Molecular phylogeny of Solms‐laubachia (Brassicaceae) s.l., based on multiple nuclear and plastid DNA sequences, and its biogeographic implications , 2009 .
[75] M. Matsuoka,et al. Highly sensitive and high-throughput analysis of plant hormones using MS-probe modification and liquid chromatography-tandem mass spectrometry: an application for hormone profiling in Oryza sativa. , 2009, Plant & cell physiology.
[76] Lior Pachter,et al. Sequence Analysis , 2020, Definitions.
[77] I. Al‐Shehbaz,et al. Arabidopsis family ties: molecular phylogeny and age estimates in Brassicaceae , 2009 .
[78] Steffen Neumann,et al. Highly sensitive feature detection for high resolution LC/MS , 2008, BMC Bioinformatics.
[79] N. Graham,et al. Evidence of neutral transcriptome evolution in plants. , 2008, The New phytologist.
[80] Peter Widmayer,et al. Genevestigator V3: A Reference Expression Database for the Meta-Analysis of Transcriptomes , 2008, Adv. Bioinformatics.
[81] J. Glazebrook,et al. Interplay between MAMP-triggered and SA-mediated defense responses. , 2008, The Plant journal : for cell and molecular biology.
[82] Naama Barkai,et al. Evolution of gene sequence and gene expression are not correlated in yeast. , 2008, Trends in genetics : TIG.
[83] Wenxian Sun,et al. Identification and Mutational Analysis of Arabidopsis FLS2 Leucine-Rich Repeat Domain Residues That Contribute to Flagellin Perception[W] , 2007, The Plant Cell Online.
[84] Ziheng Yang. PAML 4: phylogenetic analysis by maximum likelihood. , 2007, Molecular biology and evolution.
[85] Miltos Tsiantis,et al. The genetic basis for differences in leaf form between Arabidopsis thaliana and its wild relative Cardamine hirsuta , 2006, Nature Genetics.
[86] Peer Bork,et al. PAL2NAL: robust conversion of protein sequence alignments into the corresponding codon alignments , 2006, Nucleic Acids Res..
[87] Jeffrey P. Mower,et al. Multiple major increases and decreases in mitochondrial substitution rates in the plant family Geraniaceae , 2005, BMC Evolutionary Biology.
[88] R. Nielsen. Molecular signatures of natural selection. , 2005, Annual review of genetics.
[89] S. Pääbo,et al. Parallel Patterns of Evolution in the Genomes and Transcriptomes of Humans and Chimpanzees , 2005, Science.
[90] Martin Kuiper,et al. BiNGO: a Cytoscape plugin to assess overrepresentation of Gene Ontology categories in Biological Networks , 2005, Bioinform..
[91] Jonathan D. G. Jones,et al. Bacterial disease resistance in Arabidopsis through flagellin perception , 2004, Nature.
[92] D. Schluter,et al. Genetic and developmental basis of evolutionary pelvic reduction in threespine sticklebacks , 2004, Nature.
[93] Robert C. Edgar,et al. MUSCLE: multiple sequence alignment with high accuracy and high throughput. , 2004, Nucleic acids research.
[94] P. Shannon,et al. Cytoscape: a software environment for integrated models of biomolecular interaction networks. , 2003, Genome research.
[95] A. Mitchell,et al. Molecular systematics of the New Zealand Pachycladon (Brassicaceae) complex: Generic circumscription and relationships to Arabidopsis sens. lat. and Arabis sens. lat. , 2002 .
[96] F. Ausubel,et al. MAP kinase signalling cascade in Arabidopsis innate immunity , 2002, Nature.
[97] M. A. Koch,et al. Comparative evolutionary analysis of chalcone synthase and alcohol dehydrogenase loci in Arabidopsis, Arabis, and related genera (Brassicaceae). , 2000, Molecular biology and evolution.
[98] T. Boller,et al. A single locus determines sensitivity to bacterial flagellin in Arabidopsis thaliana. , 1999, The Plant journal : for cell and molecular biology.
[99] T. F. Hansen. STABILIZING SELECTION AND THE COMPARATIVE ANALYSIS OF ADAPTATION , 1997, Evolution; international journal of organic evolution.
[100] M. Kojima,et al. Highly sensitive high-throughput profiling of six phytohormones using MS-probe modification and liquid chromatography-tandem mass spectrometry. , 2012, Methods in molecular biology.
[101] F. Bakker,et al. Molecular phylogenetics, temporal diversification, and principles of evolution in the mustard family (Brassicaceae). , 2010, Molecular biology and evolution.
[102] John Quackenbush,et al. Genesis: cluster analysis of microarray data , 2002, Bioinform..
[103] Y. Benjamini,et al. Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .