A plant genetic network for preventing dysbiosis in the phyllosphere

[1]  William A. Walters,et al.  Reproducible, interactive, scalable and extensible microbiome data science using QIIME 2 , 2019, Nature Biotechnology.

[2]  Na Zhang,et al.  NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice , 2019, Nature Biotechnology.

[3]  N. Zhang,et al.  NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice , 2019, Nature Biotechnology.

[4]  Donovan H. Parks,et al.  A standardized bacterial taxonomy based on genome phylogeny substantially revises the tree of life , 2018, Nature Biotechnology.

[5]  R. Garrido-Oter,et al.  Microbial Interkingdom Interactions in Roots Promote Arabidopsis Survival , 2018, Cell.

[6]  W. Turpin,et al.  Determinants of IBD Heritability: Genes, Bugs, and More. , 2018, Inflammatory bowel diseases.

[7]  Young-Mo Kim,et al.  Drought delays development of the sorghum root microbiome and enriches for monoderm bacteria , 2018, Proceedings of the National Academy of Sciences.

[8]  V. Sundaresan,et al.  Compositional shifts in root-associated bacterial and archaeal microbiota track the plant life cycle in field-grown rice , 2018, PLoS biology.

[9]  J. Tiedje,et al.  FlowPot axenic plant growth system for microbiota research , 2018, bioRxiv.

[10]  J. Whisstock,et al.  Perforin-A key (shaped) weapon in the immunological arsenal. , 2017, Seminars in cell & developmental biology.

[11]  J. Friml,et al.  BEN3/BIG2 ARF GEF is Involved in Brefeldin A-Sensitive Trafficking at the trans-Golgi Network/Early Endosome in Arabidopsis thaliana , 2017, Plant & cell physiology.

[12]  Ramnik J. Xavier,et al.  Human genetic variation and the gut microbiome in disease , 2017, Nature Reviews Genetics.

[13]  C. Zipfel,et al.  Function, Discovery, and Exploitation of Plant Pattern Recognition Receptors for Broad-Spectrum Disease Resistance. , 2017, Annual review of phytopathology.

[14]  Omri M. Finkel,et al.  Understanding and exploiting plant beneficial microbes. , 2017, Current opinion in plant biology.

[15]  Christian Messier,et al.  Leaf bacterial diversity mediates plant diversity and ecosystem function relationships , 2017, Nature.

[16]  Jian-Min Zhou,et al.  Receptor Kinases in Plant-Pathogen Interactions: More Than Pattern Recognition[OPEN] , 2017, Plant Cell.

[17]  S. Koren,et al.  Canu: scalable and accurate long-read assembly via adaptive k-mer weighting and repeat separation , 2016, bioRxiv.

[18]  Aleksandra A. Kolodziejczyk,et al.  Dysbiosis and the immune system , 2017, Nature Reviews Immunology.

[19]  Dmitri A. Nusinow,et al.  Mapping Protein-Protein Interactions Using Affinity Purification and Mass Spectrometry. , 2017, Methods in molecular biology.

[20]  Daniel B. Müller,et al.  The Plant Microbiota: Systems-Level Insights and Perspectives. , 2016, Annual review of genetics.

[21]  Jeff H. Chang,et al.  Bacteria establish an aqueous living space in plants crucial for virulence , 2016, Nature.

[22]  S. Tringe,et al.  Host genotype and age shape the leaf and root microbiomes of a wild perennial plant , 2016, Nature Communications.

[23]  Paul J. McMurdie,et al.  DADA2: High resolution sample inference from Illumina amplicon data , 2016, Nature Methods.

[24]  Sudhir Kumar,et al.  MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets. , 2016, Molecular biology and evolution.

[25]  C. Pieterse,et al.  The Soil-Borne Supremacy. , 2016, Trends in plant science.

[26]  Christopher J Petzold,et al.  Free-Flow Electrophoresis of Plasma Membrane Vesicles Enriched by Two-Phase Partitioning Enhances the Quality of the Proteome from Arabidopsis Seedlings. , 2016, Journal of proteome research.

[27]  Alice C. McHardy,et al.  Functional overlap of the Arabidopsis leaf and root microbiota , 2015, Nature.

[28]  Korbinian Schneeberger,et al.  SHOREmap v3.0: fast and accurate identification of causal mutations from forward genetic screens. , 2015, Methods in molecular biology.

[29]  Christina A. Cuomo,et al.  Pilon: An Integrated Tool for Comprehensive Microbial Variant Detection and Genome Assembly Improvement , 2014, PloS one.

[30]  Bjarni J. Vilhjálmsson,et al.  Genome-wide association study of Arabidopsis thaliana's leaf microbial community , 2014, Nature Communications.

[31]  Arnold J. Bloom,et al.  Easy Leaf Area: Automated digital image analysis for rapid and accurate measurement of leaf area1 , 2014, Applications in plant sciences.

[32]  J. Vorholt,et al.  A Synthetic Community Approach Reveals Plant Genotypes Affecting the Phyllosphere Microbiota , 2014, PLoS genetics.

[33]  D. Guttman,et al.  Next-generation mapping of genetic mutations using bulk population sequencing. , 2014, Methods in molecular biology.

[34]  J. Friml,et al.  Fluorescence Imaging-Based Screen Identifies ARF GEF Component of Early Endosomal Trafficking , 2014, Current Biology.

[35]  E. Podack,et al.  Killing machines: three pore-forming proteins of the immune system , 2013, Immunologic research.

[36]  C. Pieterse,et al.  The rhizosphere microbiome and plant health. , 2012, Trends in plant science.

[37]  William A. Walters,et al.  Impact of training sets on classification of high-throughput bacterial 16s rRNA gene surveys , 2011, The ISME Journal.

[38]  G. Nava,et al.  Host genetic susceptibility, dysbiosis, and viral triggers in inflammatory bowel disease , 2011, Current opinion in gastroenterology.

[39]  Jeff H. Chang,et al.  Effector-triggered immunity blocks pathogen degradation of an immunity-associated vesicle traffic regulator in Arabidopsis , 2011, Proceedings of the National Academy of Sciences.

[40]  Marcel Martin Cutadapt removes adapter sequences from high-throughput sequencing reads , 2011 .

[41]  H. Sokol,et al.  The intestinal microbiota in inflammatory bowel diseases: time to connect with the host , 2010, Current opinion in gastroenterology.

[42]  Mark D. Robinson,et al.  edgeR: a Bioconductor package for differential expression analysis of digital gene expression data , 2009, Bioinform..

[43]  J. Glazebrook,et al.  Network Properties of Robust Immunity in Plants , 2009, PLoS genetics.

[44]  Martin Hartmann,et al.  Introducing mothur: Open-Source, Platform-Independent, Community-Supported Software for Describing and Comparing Microbial Communities , 2009, Applied and Environmental Microbiology.

[45]  J. Friml,et al.  Fluorescence Imaging-Based Screen Identifies ARF GEF Component of Early Endosomal Trafficking , 2009, Current Biology.

[46]  Sheng Yang He,et al.  A Bacterial Virulence Protein Suppresses Host Innate Immunity to Cause Plant Disease , 2006, Science.

[47]  H. Yoshioka,et al.  The Arabidopsis gene CAD1 controls programmed cell death in the plant immune system and encodes a protein containing a MACPF domain. , 2005, Plant & cell physiology.

[48]  C. Larsson,et al.  Arabidopsis plasma membrane proteomics identifies components of transport, signal transduction and membrane trafficking. , 2004, Plant & cell physiology.

[49]  Jonathan D. G. Jones,et al.  Bacterial disease resistance in Arabidopsis through flagellin perception , 2004, Nature.

[50]  S. Lindow,et al.  Microbiology of the Phyllosphere , 2003, Applied and Environmental Microbiology.

[51]  T. Boller,et al.  Plants have a sensitive perception system for the most conserved domain of bacterial flagellin. , 1999, The Plant journal : for cell and molecular biology.

[52]  S. Lindow,et al.  Bacterial colonization of leaves: a spectrum of strategies. , 1999, Phytopathology.

[53]  S. Clough,et al.  Floral dip: a simplified method for Agrobacterium-mediated transformation of Arabidopsis thaliana. , 1998, The Plant journal : for cell and molecular biology.

[54]  Y. Benjamini,et al.  Controlling the false discovery rate: a practical and powerful approach to multiple testing , 1995 .