Can functional hologenomics aid tackling current challenges in plant breeding?

Isolation, characterization, and antimicrobial activity of endophytic bacteria from Polygonum cuspidatum

(2016) Sun Hui et al.   African Journal of Microbiology Research

The CRISPR/Cas9 system for plant genome editing and beyond

(2015) Luisa Bortesi et al.   BIOTECHNOLOGY ADVANCES

The importance of the microbiome of the plant holobiont

(2015) Philippe Vandenkoornhuyse et al.   NEW PHYTOLOGIST

Symbiosis, selection, and individuality

(2014) Austin Booth   BIOLOGY & PHILOSOPHY

Functional marker development is challenged by the ubiquity of endophytes--a practical perspective

(2014) B. Arnholdt-Schmitt et al.   Briefings in Functional Genomics

Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative

(2014) Maggie R. Wagner et al.   ECOLOGY LETTERS

Selection on soil microbiomes reveals reproducible impacts on plant function

(2014) Kevin Panke-Buisse et al.   ISME Journal

Hydrogen peroxide staining to visualize intracellular bacterial infections of seedling root cells

(2014) James F. White et al.   MICROSCOPY RESEARCH AND TECHNIQUE

Identifying the core microbial community in the gut of fungus-growing termites

(2014) Saria Otani et al.   MOLECULAR ECOLOGY

Simultaneous editing of three homoeoalleles in hexaploid bread wheat confers heritable resistance to powdery mildew

(2014) Yanpeng Wang et al.   NATURE BIOTECHNOLOGY

Microbial genome-enabled insights into plant–microorganism interactions

(2014) David S. Guttman et al.   NATURE REVIEWS GENETICS

Inclusive fitness in agriculture

(2014) E. T. Kiers et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES

Genetic Dissection of Drought and Heat Tolerance in Chickpea through Genome-Wide and Candidate Gene-Based Association Mapping Approaches

(2014) Mahendar Thudi et al.   PLoS One

Live cell imaging reveals extensive intracellular cytoplasmic colonization of banana by normally non-cultivable endophytic bacteria

(2014) Pious Thomas et al.   AoB Plants

Unraveling the plant microbiome: looking back and future perspectives

(2014) Gabriele Berg et al.   Frontiers in Microbiology

Environmental disruption of host–microbe co-adaptation as a potential driving force in evolution

(2014) Yoav Soen   Frontiers in Genetics

Achievements and prospects of genomics-assisted breeding in three legume crops of the semi-arid tropics

(2013) Rajeev K. Varshney et al.   BIOTECHNOLOGY ADVANCES

Tall fescue endophyte effects on tolerance to water-deficit stress

(2013) Padmaja Nagabhyru et al.   BMC PLANT BIOLOGY

A fungal endophyte induces transcription of genes encoding a redundant fungicide pathway in its host plant

(2013) Sameh SM Soliman et al.   BMC PLANT BIOLOGY

Increased drought stress resilience of maize through endophytic colonization by Burkholderia phytofirmans PsJN and Enterobacter sp. FD17

(2013) Muhammad Naveed et al.   ENVIRONMENTAL AND EXPERIMENTAL BOTANY

Fungal endophytes enhance wheat heat and drought tolerance in terms of grain yield and second-generation seed viability

(2013) M. Hubbard et al.   JOURNAL OF APPLIED MICROBIOLOGY

The Impact of Beneficial Plant-Associated Microbes on Plant Phenotypic Plasticity

(2013) Chooi-Hua Goh et al.   JOURNAL OF CHEMICAL ECOLOGY

Diversity and heritability of the maize rhizosphere microbiome under field conditions

(2013) J. A. Peiffer et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Sustainable agriculture: possible trajectories from mutualistic symbiosis and plant neodomestication

(2013) Marie Duhamel et al.   TRENDS IN PLANT SCIENCE

Application of Genomic Tools in Plant Breeding

(2012) A. M. Perez-de-Castro et al.   CURRENT GENOMICS

Complete Genome Sequence of the Endophytic Bacterium Burkholderia sp. Strain KJ006

(2012) M.-J. Kwak et al.   JOURNAL OF BACTERIOLOGY

Genome Sequence of Enterobacter radicincitans DSM16656T, a Plant Growth-Promoting Endophyte

(2012) K. Witzel et al.   JOURNAL OF BACTERIOLOGY

Defining the core Arabidopsis thaliana root microbiome

(2012) Derek S. Lundberg et al.   NATURE

Revealing structure and assembly cues for Arabidopsis root-inhabiting bacterial microbiota

(2012) Davide Bulgarelli et al.   NATURE

High-efficiency TALEN-based gene editing produces disease-resistant rice

(2012) Ting Li et al.   NATURE BIOTECHNOLOGY

Ecology of Root Colonizing Massilia (Oxalobacteraceae)

(2012) Maya Ofek et al.   PLoS One

Methylobacterium-Induced Endophyte Community Changes Correspond with Protection of Plants against Pathogen Attack

(2012) Pavlo Ardanov et al.   PLoS One

Population genomic and genome-wide association studies of agroclimatic traits in sorghum

(2012) G. P. Morris et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

A Symbiotic View of Life: We Have Never Been Individuals

(2012) Scott F. Gilbert et al.   QUARTERLY REVIEW OF BIOLOGY

Microbially Mediated Plant Functional Traits

(2011) Maren L. Friesen et al.   Annual Review of Ecology Evolution and Systematics

Hidden Fungi, Emergent Properties: Endophytes and Microbiomes

(2011) Andrea Porras-Alfaro et al.   Annual Review of Phytopathology

Symbiosis and development: The hologenome concept

(2011) Eugene Rosenberg et al.   BIRTH DEFECTS RESEARCH PART C-EMBRYO TODAY-REVIEWS

Living inside plants: bacterial endophytes

(2011) Barbara Reinhold-Hurek et al.   CURRENT OPINION IN PLANT BIOLOGY

Quantitative trait locus analysis and construction of consensus genetic map for foliar disease resistance based on two recombinant inbred line populations in cultivated groundnut (Arachis hypogaea L.)

(2011) V. Sujay et al.   MOLECULAR BREEDING

Differential effects of foliar endophytic fungi on insect herbivores attacking a herbaceous plant

(2011) Alan C. Gange et al.   OECOLOGIA

Reciprocal Rewards Stabilize Cooperation in the Mycorrhizal Symbiosis

(2011) E. T. Kiers et al.   SCIENCE

Metaorganisms as the new frontier

(2011) Thomas C.G. Bosch et al.   ZOOLOGY

Endophytic Life Strategies Decoded by Genome and Transcriptome Analyses of the Mutualistic Root Symbiont Piriformospora indica

(2011) Alga Zuccaro et al.   PLoS Pathogens

The Microbe-Free Plant: Fact or Artifact?

(2011) Laila P. Partida-Martínez et al.   Frontiers in Plant Science

Fungal endophyte negative effects on herbivory are enhanced on intact plants and maintained in a subsequent generation

(2010) LARA R. JABER et al.   ECOLOGICAL ENTOMOLOGY

Complete Genome Sequence of the Metabolically Versatile Plant Growth-Promoting Endophyte Variovorax paradoxus S110

(2010) J.-I. Han et al.   JOURNAL OF BACTERIOLOGY

The beneficial effect of Trichoderma spp. on tomato is modulated by the plant genotype

(2010) MARINA TUCCI et al.   MOLECULAR PLANT PATHOLOGY

Breeding Technologies to Increase Crop Production in a Changing World

(2010) M. Tester et al.   SCIENCE

Identification of several small main-effect QTLs and a large number of epistatic QTLs for drought tolerance related traits in groundnut (Arachis hypogaea L.)

(2010) K. Ravi et al.   THEORETICAL AND APPLIED GENETICS

Evolution of the mutation rate

(2010) Michael Lynch   TRENDS IN GENETICS

Plant-Growth-Promoting Rhizobacteria

(2009) Ben Lugtenberg et al.   Annual Review of Microbiology

The hologenome theory of evolution contains Lamarckian aspects within a Darwinian framework

(2009) Eugene Rosenberg et al.   ENVIRONMENTAL MICROBIOLOGY

Auxin production by plant associated bacteria: impact on endogenous IAA content and growth ofTriticum aestivumL.

(2009) B. Ali et al.   LETTERS IN APPLIED MICROBIOLOGY

Phenomics: the systematic study of phenotypes on a genome-wide scale

(2009) R.M. Bilder et al.   NEUROSCIENCE

Fungal endophytes: diversity and functional roles

(2009) R. J. Rodriguez et al.   NEW PHYTOLOGIST

Dark septate root endophytic fungi increase growth of Scots pine seedlings under elevated CO2 through enhanced nitrogen use efficiency

(2009) Odair Alberton et al.   PLANT AND SOIL

Host genotype overrides fungal endophyte infection in influencing tiller and spike production of Lolium perenne (Poaceae) in a common garden experiment

(2008) G. P. Cheplick   AMERICAN JOURNAL OF BOTANY

The unseen majority: soil microbes as drivers of plant diversity and productivity in terrestrial ecosystems

(2008) Marcel G. A. van der Heijden et al.   ECOLOGY LETTERS

Stress tolerance in plants via habitat-adapted symbiosis

(2008) Rusty J Rodriguez et al.   ISME Journal

Soil Bacteria Confer Plant Salt Tolerance by Tissue-Specific Regulation of the Sodium TransporterHKT1

(2008) Huiming Zhang et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

The Root-Colonizing EndophytePirifomospora indicaConfers Drought Tolerance inArabidopsisby Stimulating the Expression of Drought Stress–Related Genes in Leaves

(2008) Irena Sherameti et al.   MOLECULAR PLANT-MICROBE INTERACTIONS

Salt tolerance of barley induced by the root endophytePiriformospora indicais associated with a strong increase in antioxidants

(2008) Helmut Baltruschat et al.   NEW PHYTOLOGIST

Novel approaches in plant breeding for rhizosphere-related traits

(2008) Matthias Wissuwa et al.   PLANT AND SOIL

Bacterial RNA Chaperones Confer Abiotic Stress Tolerance in Plants and Improved Grain Yield in Maize under Water-Limited Conditions

(2008) P. Castiglioni et al.   PLANT PHYSIOLOGY

Properties of bacterial endophytes and their proposed role in plant growth

(2008) Pablo R. Hardoim et al.   TRENDS IN MICROBIOLOGY

Rhizosphere bacteria help plants tolerate abiotic stress

(2008) Jungwook Yang et al.   TRENDS IN PLANT SCIENCE

Marker-assisted selection: an approach for precision plant breeding in the twenty-first century

(2007) B. C.Y Collard et al.   PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES