Transcriptomic basis of genome by genome variation in a legume-rhizobia mutualism

Morphotype of bacteroids in different legumes correlates with the number and type of symbiotic NCR peptides

(2017) Jesús Montiel et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Multiple mutualist effects on genomewide expression in the tripartite association betweenMedicago truncatula,nitrogen-fixing bacteria and mycorrhizal fungi

(2016) Michelle E. Afkhami et al.   MOLECULAR ECOLOGY

Within-host evolution of bacterial pathogens

(2016) Xavier Didelot et al.   NATURE REVIEWS MICROBIOLOGY

The evolution of symbiont preference traits in the model legume Medicago truncatula

(2016) Rebecca T. Batstone et al.   NEW PHYTOLOGIST

Disulfide cross-linking influences symbiotic activities of nodule peptide NCR247

(2016) Mohammed Shabab et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Snapshot of Functional Genetic Studies in Medicago truncatula

(2016) Yun Kang et al.   Frontiers in Plant Science

Tripartite mutualism: Facilitation or trade-offs between rhizobial and mycorrhizal symbionts of legume hosts

(2015) Julia N. Ossler et al.   AMERICAN JOURNAL OF BOTANY

Cheaters must prosper: reconciling theoretical and empirical perspectives on cheating in mutualism

(2015) Emily I. Jones et al.   ECOLOGY LETTERS

Non-adaptive plasticity potentiates rapid adaptive evolution of gene expression in nature

(2015) Cameron K. Ghalambor et al.   NATURE

Eco-Evo-Devo: developmental symbiosis and developmental plasticity as evolutionary agents

(2015) Scott F. Gilbert et al.   NATURE REVIEWS GENETICS

The Pfam protein families database: towards a more sustainable future

(2015) Robert D. Finn et al.   NUCLEIC ACIDS RESEARCH

Deep Sequencing of theMedicago truncatulaRoot Transcriptome Reveals a Massive and Early Interaction between Nodulation Factor and Ethylene Signals

(2015) Estíbaliz Larrainzar et al.   PLANT PHYSIOLOGY

The Micro-RNA172c-APETALA2-1 Node as a Key Regulator of the Common Bean-Rhizobium etliNitrogen Fixation Symbiosis

(2015) Bárbara Nova-Franco et al.   PLANT PHYSIOLOGY

Association mapping reveals the role of purifying selection in the maintenance of genomic variation in gene expression

(2015) Emily B. Josephs et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rhizobium–legume symbioses: the crucial role of plant immunity

(2015) Benjamin Gourion et al.   TRENDS IN PLANT SCIENCE

Allelic variation contributes to bacterial host specificity

(2015) Min Yue et al.   Nature Communications

Flux Control in a Defense Pathway in Arabidopsis thaliana Is Robust to Environmental Perturbations and Controls Variation in Adaptive Traits

(2015) Carrie F. Olson-Manning et al.   G3-Genes Genomes Genetics

HTSeq--a Python framework to work with high-throughput sequencing data

(2014) S. Anders et al.   BIOINFORMATICS

InterProScan 5: genome-scale protein function classification

(2014) P. Jones et al.   BIOINFORMATICS

Extreme specificity of NCR gene expression in Medicago truncatula

(2014) Ibtissem Guefrachi et al.   BMC GENOMICS

An improved genome release (version Mt4.0) for the model legume Medicago truncatula

(2014) Haibao Tang et al.   BMC GENOMICS

How context dependent are species interactions?

(2014) Scott A. Chamberlain et al.   ECOLOGY LETTERS

Multihost Experimental Evolution of the Pathogen Ralstonia solanacearum Unveils Genes Involved in Adaptation to Plants

(2014) Alice Guidot et al.   MOLECULAR BIOLOGY AND EVOLUTION

Global reprogramming of transcription and metabolism inMedicago truncatuladuring progressive drought and after rewatering

(2014) JI-YI ZHANG et al.   PLANT CELL AND ENVIRONMENT

An integrated analysis of plant and bacterial gene expression in symbiotic root nodules using laser-capture microdissection coupled to RNA sequencing

(2014) Brice Roux et al.   PLANT JOURNAL

Standing genetic variation in host preference for mutualist microbial symbionts

(2014) A. K. Simonsen et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Mapping the Fitness Landscape of Gene Expression Uncovers the Cause of Antagonism and Sign Epistasis between Adaptive Mutations

(2014) Hsin-Hung Chou et al.   PLoS Genetics

Nodule carbohydrate catabolism is enhanced in the Medicago truncatula A17-Sinorhizobium medicae WSM419 symbiosis

(2014) Estíbaliz Larrainzar et al.   Frontiers in Microbiology

The symbiont side of symbiosis: do microbes really benefit?

(2014) Justine R. Garcia et al.   Frontiers in Microbiology

Transcriptional responses of Medicago truncatula upon sulfur deficiency stress and arbuscular mycorrhizal symbiosis

(2014) Daniel Wipf et al.   Frontiers in Plant Science

Transport and Metabolism in Legume-Rhizobia Symbioses

(2013) Michael Udvardi et al.   Annual Review of Plant Biology

Common bean (Phaseolus vulgaris L.) PvTIFY orchestrates global changes in transcript profile response to jasmonate and phosphorus deficiency

(2013) Rosaura Aparicio-Fabre et al.   BMC PLANT BIOLOGY

EXPLAINING MUTUALISM VARIATION: A NEW EVOLUTIONARY PARADOX?

(2013) Katy D. Heath et al.   EVOLUTION

APETALA2/Ethylene Responsive Factor (AP2/ERF) transcription factors: mediators of stress responses and developmental programs

(2013) Francesco Licausi et al.   NEW PHYTOLOGIST

Expression Quantitative Trait Locus Mapping across Water Availability Environments Reveals Contrasting Associations with Genomic Features in Arabidopsis

(2013) D. B. Lowry et al.   PLANT CELL

Candidate Genes and Genetic Architecture of Symbiotic and Agronomic Traits Revealed by Whole-Genome, Sequence-Based Association Genetics in Medicago truncatula

(2013) John Stanton-Geddes et al.   PLoS One

Iron: an essential micronutrient for the legume-rhizobium symbiosis

(2013) Ella M. Brear et al.   Frontiers in Plant Science

Comparative genomics of the core and accessory genomes of 48 Sinorhizobium strains comprising five genospecies

(2013) Masayuki Sugawara et al.   GENOME BIOLOGY

Glutamine Synthetase in Legumes: Recent Advances in Enzyme Structure and Functional Genomics

(2012) Marco Betti et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

Evolution of Flux Control in the Glucosinolate Pathway in Arabidopsis thaliana

(2012) Carrie F. Olson-Manning et al.   MOLECULAR BIOLOGY AND EVOLUTION

Transcriptomic insights into mechanisms of symbiotic cooperation

(2012) Ellen L. Simms et al.   MOLECULAR ECOLOGY

Coevolutionary genetic variation in the legume-rhizobium transcriptome

(2012) KATY D. HEATH et al.   MOLECULAR ECOLOGY

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

(2012) Cole Trapnell et al.   Nature Protocols

Widespread fitness alignment in the legume-rhizobium symbiosis

(2012) Maren L. Friesen   NEW PHYTOLOGIST

Local and systemic N signaling are involved in Medicago truncatula preference for the most efficient Sinorhizobium symbiotic partners

(2012) Gisèle Laguerre et al.   NEW PHYTOLOGIST

Mapping the Genetic Basis of Symbiotic Variation in Legume-Rhizobium Interactions in Medicago truncatula

(2012) Amanda J. Gorton et al.   G3-Genes Genomes Genetics

Population Genomics of the Facultatively Mutualistic Bacteria Sinorhizobium meliloti and S. medicae

(2012) Brendan Epstein et al.   PLoS Genetics

The Rules of Engagement in the Legume-Rhizobial Symbiosis

(2011) Giles E.D. Oldroyd et al.   Annual Review of Genetics

Life Histories of Symbiotic Rhizobia and Mycorrhizal Fungi

(2011) R. Ford Denison et al.   CURRENT BIOLOGY

Origin and evolutionary analysis of the plant-specific TIFY transcription factor family

(2011) Youhuang Bai et al.   GENOMICS

The Medicago genome provides insight into the evolution of rhizobial symbioses

(2011) Nevin D. Young et al.   NATURE

Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula

(2011) A. Branca et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary transitions in bacterial symbiosis

(2011) J. L. Sachs et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Failure to fix nitrogen by non-reproductive symbiotic rhizobia triggers host sanctions that reduce fitness of their reproductive clonemates

(2011) R. Oono et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Evolutionary microbial genomics: insights into bacterial host adaptation

(2010) Christina Toft et al.   NATURE REVIEWS GENETICS

Recent insights into antioxidant defenses of legume root nodules

(2010) Manuel Becana et al.   NEW PHYTOLOGIST

Partner choice in Medicago Truncatula-Sinorhizobium symbiosis

(2010) C. Gubry-Rangin et al.   PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

The study of eQTL variations by RNA-seq: from SNPs to phenotypes

(2010) Jacek Majewski et al.   TRENDS IN GENETICS

Complete genome sequence of the Medicago microsymbiont Ensifer (Sinorhizobium) medicae strain WSM419

(2010) Wayne Reeve et al.   Standards in Genomic Sciences

Functional Role of Bradyrhizobium japonicum Trehalose Biosynthesis and Metabolism Genes during Physiological Stress and Nodulation

(2009) M. Sugawara et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

The Medicago truncatula gene expression atlas web server

(2009) Ji He et al.   BMC BIOINFORMATICS

The Evolution of Control and Distribution of Adaptive Mutations in a Metabolic Pathway

(2009) K. M. Wright et al.   GENETICS

STABILIZING MECHANISMS IN A LEGUME-RHIZOBIUM MUTUALISM

(2008) Katy D. Heath et al.   EVOLUTION

Epistasis — the essential role of gene interactions in the structure and evolution of genetic systems

(2008) Patrick C. Phillips   NATURE REVIEWS GENETICS

The model legumeMedicago truncatulaA17 is poorly matched for N2fixation with the sequenced microsymbiontSinorhizobium meliloti1021

(2008) Jason J. Terpolilli et al.   NEW PHYTOLOGIST

Global inputs of biological nitrogen fixation in agricultural systems

(2008) David F. Herridge et al.   PLANT AND SOIL

A gene expression atlas of the model legumeMedicago truncatula

(2008) Vagner A. Benedito et al.   PLANT JOURNAL

Large-scale insertional mutagenesis using the Tnt1 retrotransposon in the model legume Medicago truncatula

(2008) Million Tadege et al.   PLANT JOURNAL