GWAS, MWAS and mGWAS provide insights into precision agriculture based on genotype-dependent microbial effects in foxtail millet
暂无分享,去创建一个
Sunil Kumar Sahu | Huanming Yang | Xin Liu | Gengyun Zhang | L. Gram | Huan Liu | Xun Xu | Yayu Wang | Hongfeng Zou | Ertao Wang | Jinpu Wei | Xiaolin Wang | Shuai Sun | Canzhi Jin | Jianmu Su | Xinyue Luo | Jiawen Wen | Tong Wei | Hongyun Chen | Zhixin Mu | Z. Mu | Xin Liu | Xin Liu
[1] Shuo Zhang,et al. Identification of blast-resistance loci through genome-wide association analysis in foxtail millet (Setaria italica (L.) Beauv.) , 2021, Journal of Integrative Agriculture.
[2] Rui Guan,et al. Coordination of microbe–host homeostasis by crosstalk with plant innate immunity , 2021, Nature Plants.
[3] S. Hacquard,et al. Microbiota-root-shoot-environment axis and stress tolerance in plants. , 2021, Current opinion in plant biology.
[4] Yunpeng Liu,et al. Specialized metabolic functions of keystone taxa sustain soil microbiome stability , 2021, Microbiome.
[5] Omri M. Finkel,et al. A single bacterial genus maintains root growth in a complex microbiome , 2020, Nature.
[6] Yong-guan Zhu,et al. Rare taxa maintain the stability of crop mycobiomes and ecosystem functions. , 2020, Environmental microbiology.
[7] Rui Guan,et al. Coordination of microbe-host homeostasis via a crosstalk with plant innate immunity , 2020 .
[8] S. He,et al. A plant genetic network for preventing dysbiosis in the phyllosphere , 2020, Nature.
[9] D. Coleman-Derr,et al. Genome wide association study reveals plant loci controlling heritability of the rhizosphere microbiome , 2020, The ISME Journal.
[10] Jizhong Zhou,et al. Differentiation strategies of soil rare and abundant microbial taxa in response to changing climatic regimes. , 2020, Environmental microbiology.
[11] Zhang Zhang,et al. GWAS Atlas: a curated resource of genome-wide variant-trait associations in plants and animals , 2019, Nucleic Acids Res..
[12] S. Proietti,et al. Modulation of the Root Microbiome by Plant Molecules: The Basis for Targeted Disease Suppression and Plant Growth Promotion , 2020, Frontiers in Plant Science.
[13] Joseph N. Paulson,et al. Pathogen-induced activation of disease-suppressive functions in the endophytic root microbiome , 2019, Science.
[14] N. Wojciechowska,et al. Occurrence of autophagy during pioneer root and stem development in Populus trichocarpa , 2019, Planta.
[15] Steven L Salzberg,et al. Graph-based genome alignment and genotyping with HISAT2 and HISAT-genotype , 2019, Nature Biotechnology.
[16] Bo Zhang,et al. Genetic Interactions Among Ghd7, Ghd8, OsPRR37 and Hd1 Contribute to Large Variation in Heading Date in Rice , 2019, Rice.
[17] Li Jiang,et al. The AabHLH35 Transcription Factor Identified from Anthurium andraeanum is Involved in Cold and Drought Tolerance , 2019, Plants.
[18] E. Halperin,et al. A heritable subset of the core rumen microbiome dictates dairy cow productivity and emissions , 2019, Science Advances.
[19] C. Gutjahr,et al. Systems Biology of Plant-Microbiome Interactions. , 2019, Molecular plant.
[20] Na Zhang,et al. NRT1.1B is associated with root microbiota composition and nitrogen use in field-grown rice , 2019, Nature Biotechnology.
[21] Jingyuan Fu,et al. Causal relationships among the gut microbiome, short-chain fatty acids and metabolic diseases , 2019, Nature Genetics.
[22] J. Bergelson,et al. Genome-wide association studies on the phyllosphere microbiome: Embracing complexity in host-microbe interactions. , 2019, The Plant journal : for cell and molecular biology.
[23] E. Rubin,et al. Rhizosphere microbiome structure alters to enable wilt resistance in tomato , 2018, Nature Biotechnology.
[24] Yuan Tian,et al. Comparative performance of the BGISEQ-500 and Illumina HiSeq4000 sequencing platforms for transcriptome analysis in plants , 2018, Plant Methods.
[25] Gordon K Smyth,et al. The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads , 2018, bioRxiv.
[26] William A. Walters,et al. Large-scale replicated field study of maize rhizosphere identifies heritable microbes , 2018, Proceedings of the National Academy of Sciences.
[27] Wei Fan,et al. Resequencing of 243 diploid cotton accessions based on an updated A genome identifies the genetic basis of key agronomic traits , 2018, Nature Genetics.
[28] Kenneth L. McNally,et al. Genomic variation in 3,010 diverse accessions of Asian cultivated rice , 2018, Nature.
[29] K. Yu,et al. MYB72-dependent coumarin exudation shapes root microbiome assembly to promote plant health , 2018, Proceedings of the National Academy of Sciences.
[30] Suisha Liang,et al. Taxonomic structure and functional association of foxtail millet root microbiome , 2017, GigaScience.
[31] B. Lacombe,et al. Substrate (un)specificity of Arabidopsis NRT1/PTR FAMILY (NPF) proteins , 2017, Journal of experimental botany.
[32] G. Hartman,et al. Metagenome-Wide Association Study and Machine Learning Prediction of Bulk Soil Microbiome and Crop Productivity , 2017, Front. Microbiol..
[33] Sur Herrera Paredes,et al. Root microbiota drive direct integration of phosphate stress and immunity , 2017, Nature.
[34] A. Paterson,et al. Association of host genome with intestinal microbial composition in a large healthy cohort , 2016, Nature Genetics.
[35] M. K. Maiti,et al. The sucrose non-fermenting 1-related kinase 2 gene SAPK9 improves drought tolerance and grain yield in rice by modulating cellular osmotic potential, stomatal closure and stress-responsive gene expression , 2016, BMC Plant Biology.
[36] Man Li,et al. A high density genetic map and QTL for agronomic and yield traits in Foxtail millet [Setaria italica (L.) P. Beauv.] , 2016, BMC Genomics.
[37] Morris A. Swertz,et al. Population-based metagenomics analysis reveals markers for gut microbiome composition and diversity , 2016, Science.
[38] V. Vassileva,et al. Cyclin-like F-box protein plays a role in growth and development of the three model species Medicago truncatula , Lotus japonicus , and Arabidopsis thaliana , 2015 .
[39] Daniel MacLean,et al. bio-samtools 2: a package for analysis and visualization of sequence and alignment data with SAMtools in Ruby , 2015, Bioinform..
[40] T. Juenger,et al. Genome-environment associations in sorghum landraces predict adaptive traits , 2015, Science Advances.
[41] C. Sorlini,et al. Improved plant resistance to drought is promoted by the root-associated microbiome as a water stress-dependent trait. , 2015, Environmental microbiology.
[42] T. Greb,et al. (Pro)cambium formation and proliferation: two sides of the same coin? , 2014, Current opinion in plant biology.
[43] Hui Xiang,et al. Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean , 2015, Nature Biotechnology.
[44] Bjarni J. Vilhjálmsson,et al. Genome-wide association study of Arabidopsis thaliana's leaf microbial community , 2014, Nature Communications.
[45] F. Pedrosa,et al. Performance of different wheat genotypes inoculated with the plant growth promoting bacterium Herbaspirillum seropedicae , 2014 .
[46] James C. Schnable,et al. Mapping of Quantitative Trait Locus (QTLs) that Contribute to Germination and Early Seedling Drought Tolerance in the Interspecific Cross Setaria italica×Setaria viridis , 2014, PloS one.
[47] Alyssa C. Frazee,et al. Flexible isoform-level differential expression analysis with Ballgown , 2014 .
[48] Wei Li,et al. A haplotype map of genomic variations and genome-wide association studies of agronomic traits in foxtail millet (Setaria italica) , 2013, Nature Genetics.
[49] A. Nicotra,et al. The Impact of Beneficial Plant-Associated Microbes on Plant Phenotypic Plasticity , 2013, Journal of Chemical Ecology.
[50] S. Tringe,et al. Diversity and heritability of the maize rhizosphere microbiome under field conditions , 2013, Proceedings of the National Academy of Sciences.
[51] Heng Li. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM , 2013, 1303.3997.
[52] Ji Huang,et al. A Novel Nuclear Protein Phosphatase 2C Negatively Regulated by ABL1 is Involved in Abiotic Stress and Panicle Development in Rice , 2013, Molecular Biotechnology.
[53] Jian Wang,et al. SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler , 2012, GigaScience.
[54] Jian Wang,et al. Genome sequence of foxtail millet (Setaria italica) provides insights into grass evolution and biofuel potential , 2012, Nature Biotechnology.
[55] Y. Kamiya,et al. Identification of an abscisic acid transporter by functional screening using the receptor complex as a sensor , 2012, Proceedings of the National Academy of Sciences.
[56] M. Stephens,et al. Genome-wide Efficient Mixed Model Analysis for Association Studies , 2012, Nature Genetics.
[57] Pablo Cingolani,et al. © 2012 Landes Bioscience. Do not distribute. , 2022 .
[58] S. Ramachandran,et al. Genome-wide patterns of genetic variation in sweet and grain sorghum (Sorghum bicolor) , 2011, Genome Biology.
[59] P. He,et al. Direct Ubiquitination of Pattern Recognition Receptor FLS2 Attenuates Plant Innate Immunity , 2011, Science.
[60] P. Visscher,et al. GCTA: a tool for genome-wide complex trait analysis. , 2011, American journal of human genetics.
[61] M. Rockman,et al. Molecular Methods for Evolutionary Genetics , 2011, Methods in Molecular Biology.
[62] Jian Wang,et al. Genome-wide patterns of genetic variation among elite maize inbred lines , 2010, Nature Genetics.
[63] M. DePristo,et al. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. , 2010, Genome research.
[64] L. Xiong,et al. Genetic analysis of pathway regulation for enhancing branched-chain amino acid biosynthesis in plants. , 2010, The Plant journal : for cell and molecular biology.
[65] W. Huber,et al. which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. MAnorm: a robust model for quantitative comparison of ChIP-Seq data sets , 2011 .
[66] B. D. Kohorn,et al. Pectin activation of MAP kinase and gene expression is WAK2 dependent. , 2009, The Plant journal : for cell and molecular biology.
[67] Andrea Pitzschke,et al. MAPK cascade signalling networks in plant defence. , 2009, Current opinion in plant biology.
[68] T Mark Beasley,et al. Rank-Based Inverse Normal Transformations are Increasingly Used, But are They Merited? , 2009, Behavior genetics.
[69] B. Browning,et al. A unified approach to genotype imputation and haplotype-phase inference for large data sets of trios and unrelated individuals. , 2009, American journal of human genetics.
[70] M. Nei,et al. Evolution of F-box genes in plants: Different modes of sequence divergence and their relationships with functional diversification , 2009, Proceedings of the National Academy of Sciences.
[71] Huiming Zhang,et al. Soil bacteria elevate essential oil accumulation and emissions in sweet basil. , 2009, Journal of agricultural and food chemistry.
[72] W. Liesack,et al. Substrate-induced growth and isolation of Acidobacteria from acidic Sphagnum peat , 2008, The ISME Journal.
[73] Hyong Woo Choi,et al. Function of a novel GDSL-type pepper lipase gene, CaGLIP1, in disease susceptibility and abiotic stress tolerance , 2008, Planta.
[74] Manuel A. R. Ferreira,et al. PLINK: a tool set for whole-genome association and population-based linkage analyses. , 2007, American journal of human genetics.
[75] A. Baker,et al. Plant peroxisomes as a source of signalling molecules. , 2006, Biochimica et biophysica acta.
[76] M. Tester,et al. Evidence that L-glutamate can act as an exogenous signal to modulate root growth and branching in Arabidopsis thaliana. , 2006, Plant & cell physiology.
[77] J. Lee,et al. Gene-specific expression and calcium activation of Arabidopsis thaliana phospholipase C isoforms. , 2004, The New phytologist.
[78] Yi Lee,et al. Regulation of Expansin Gene Expression Affects Growth and Development in Transgenic Rice Plants Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.011965. , 2003, The Plant Cell Online.
[79] H. Zahran. Rhizobium-Legume Symbiosis and Nitrogen Fixation under Severe Conditions and in an Arid Climate , 1999, Microbiology and Molecular Biology Reviews.
[80] L. Eliasson,et al. Inhibitory action of auxin on root elongation not mediated by ethylene. , 1989, Plant physiology.
[81] F. David,et al. Statistical Estimates and Transformed Beta-Variables. , 1960 .