Genomics of crop wild relatives: expanding the gene pool for crop improvement

China’s crop wild relatives: Diversity for agriculture and food security

(2015) Shelagh Kell et al.   AGRICULTURE ECOSYSTEMS & ENVIRONMENT

Genetic variants in root architecture-related genes in a Glycine soja accession, a potential resource to improve cultivated soybean

(2015) Silvas J Prince et al.   BMC GENOMICS

Potential functions of microRNAs in starch metabolism and development revealed by miRNA transcriptome profiling of cassava cultivars and their wild progenitor

(2015) Xin Chen et al.   BMC PLANT BIOLOGY

Progress, challenges and the future of crop genomes

(2015) Todd P Michael et al.   CURRENT OPINION IN PLANT BIOLOGY

Bread wheat genetic variation for grain’s protein, iron and zinc concentrations as uptake by their genetic ability

(2015) Reza Amiri et al.   EUROPEAN JOURNAL OF AGRONOMY

Resequencing 302 wild and cultivated accessions identifies genes related to domestication and improvement in soybean

(2015) Zhengkui Zhou et al.   NATURE BIOTECHNOLOGY

Genetic mechanisms of abiotic stress tolerance that translate to crop yield stability

(2015) Michael V. Mickelbart et al.   NATURE REVIEWS GENETICS

De NovoAssembly and Characterization ofOryza officinalisLeaf Transcriptome by Using RNA-Seq

(2015) Ying Bao et al.   Biomed Research International

Back to the wilds: Tapping evolutionary adaptations for resilient crops through systematic hybridization with crop wild relatives

(2014) Emily Warschefsky et al.   AMERICAN JOURNAL OF BOTANY

Plant DNA barcoding: from gene to genome

(2014) Xiwen Li et al.   BIOLOGICAL REVIEWS

Wild barley introgression lines revealed novel QTL alleles for root and related shoot traits in the cultivated barley (Hordeum vulgareL.)

(2014) Ali Ahmad Naz et al.   BMC GENETICS

Transcriptome sequencing of two wild barley (Hordeum spontaneum L.) ecotypes differentially adapted to drought stress reveals ecotype-specific transcripts

(2014) Girma Bedada et al.   BMC GENOMICS

Recent progress in drought and salt tolerance studies in Brassica crops

(2014) Xuekun Zhang et al.   BREEDING SCIENCE

Development of a national crop wild relative conservation strategy for Cyprus

(2014) Jade Phillips et al.   GENETIC RESOURCES AND CROP EVOLUTION

Fine mapping of a grain weight quantitative trait locus, qGW6, using near isogenic lines derived from Oryza rufipogon IRGC105491 and Oryza sativa cultivar MR219

(2014) M.S. Ngu et al.   GENETICS AND MOLECULAR RESEARCH

Mapping and introgression of QTL for yield and related traits in two backcross populations derived from Oryza sativa cv. Swarna and two accessions of O. nivara

(2014) B. P. MALLIKARJUNA SWAMY et al.   JOURNAL OF GENETICS

Digital imaging approaches for phenotyping whole plant nitrogen and phosphorus response inBrachypodium distachyon

(2014) Richard Poiré et al.   Journal of Integrative Plant Biology

Sequencing of diverse mandarin, pummelo and orange genomes reveals complex history of admixture during citrus domestication

(2014) G Albert Wu et al.   NATURE BIOTECHNOLOGY

De novo assembly of soybean wild relatives for pan-genome analysis of diversity and agronomic traits

(2014) Ying-hui Li et al.   NATURE BIOTECHNOLOGY

The genome of the stress-tolerant wild tomato species Solanum pennellii

(2014) Anthony Bolger et al.   NATURE GENETICS

Genomic analyses provide insights into the history of tomato breeding

(2014) Tao Lin et al.   NATURE GENETICS

Exploring natural selection to guide breeding for agriculture

(2014) Robert James Henry et al.   PLANT BIOTECHNOLOGY JOURNAL

Consequences of Whole-Genome Triplication as Revealed by Comparative Genomic Analyses of the Wild Radish Raphanus raphanistrum and Three Other Brassicaceae Species

(2014) G. D. Moghe et al.   PLANT CELL

Exploring genetic variation in the tomato (SolanumsectionLycopersicon) clade by whole-genome sequencing

(2014) et al.   PLANT JOURNAL

Transcriptome comparison reveals the patterns of selection in domesticated and wild ramie (Boehmeria nivea L. Gaud)

(2014) Touming Liu et al.   PLANT MOLECULAR BIOLOGY

Transcriptome profiling of Vitis amurensis, an extremely cold-tolerant Chinese wild Vitis species, reveals candidate genes and events that potentially connected to cold stress

(2014) Weirong Xu et al.   PLANT MOLECULAR BIOLOGY

Assessment of genetic diversity in salt-tolerant rice and its wild relatives for ten SSR loci and one allele mining primer of salT gene located on 1st chromosome

(2014) Showkat Ahmad Ganie et al.   PLANT SYSTEMATICS AND EVOLUTION

Sequencing of Chloroplast Genomes from Wheat, Barley, Rye and Their Relatives Provides a Detailed Insight into the Evolution of the Triticeae Tribe

(2014) Christopher P. Middleton et al.   PLoS One

Australian Wild Rice Reveals Pre-Domestication Origin of Polymorphism Deserts in Rice Genome

(2014) Gopala Krishnan S. et al.   PLoS One

Comparative Transcriptome Profiling of Two Tibetan Wild Barley Genotypes in Responses to Low Potassium

(2014) Jianbin Zeng et al.   PLoS One

Yield-Enhancing Heterotic QTL Transferred from Wild Species to Cultivated Rice Oryza sativa L

(2014) Kiran B. Gaikwad et al.   PLoS One

High-Throughput Phenotyping to Detect Drought Tolerance QTL in Wild Barley Introgression Lines

(2014) Nora Honsdorf et al.   PLoS One

Genome Re-Sequencing of Semi-Wild Soybean Reveals a Complex Soja Population Structure and Deep Introgression

(2014) Jie Qiu et al.   PLoS One

Whole-genome sequencing of cultivated and wild peppers provides insights into Capsicum domestication and specialization

(2014) C. Qin et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid diversification of fiveOryzaAA genomes associated with rice adaptation

(2014) Qun-Jie Zhang et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The coffee genome provides insight into the convergent evolution of caffeine biosynthesis

(2014) F. Denoeud et al.   SCIENCE

Escape from the laboratory: new horizons for plant genetics

(2014) Maurizio Rossetto et al.   TRENDS IN PLANT SCIENCE

Adaptive evolution of α-amylase genes in wild barley (Hordeum spontaneum) on micro and macro scales

(2014) Ya-Xi LIU et al.   Journal of Systematics and Evolution

Cassava genome from a wild ancestor to cultivated varieties

(2014) Wenquan Wang et al.   Nature Communications

Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing

(2014) Xinpeng Qi et al.   Nature Communications

Threat to future global food security from climate change and ozone air pollution

(2014) Amos P. K. Tai et al.   Nature Climate Change

Adapting Agriculture to Climate Change: A Global Initiative to Collect, Conserve, and Use Crop Wild Relatives

(2014) Hannes Dempewolf et al.   Agroecology and Sustainable Food Systems

Genomics strategies for germplasm characterization and the development of climate resilient crops

(2014) Robert J. Henry   Frontiers in Plant Science

A Survey Sequence Comparison of Saccharum Genotypes Reveals Allelic Diversity Differences

(2014) Paul J. Berkman et al.   Tropical Plant Biology

Chloroplast Genome of Novel Rice Germplasm Identified in Northern Australia

(2014) Marta Brozynska et al.   Tropical Plant Biology

A prioritized crop wild relative inventory to help underpin global food security

(2013) Holly Vincent et al.   BIOLOGICAL CONSERVATION

Molecular footprints of domestication and improvement in soybean revealed by whole genome re-sequencing

(2013) Ying-hui Li et al.   BMC GENOMICS

“A draft Musa balbisiana genome sequence for molecular genetics in polyploid, inter- and intra-specific Musa hybrids”

(2013) Mark W Davey et al.   BMC GENOMICS

An Inventory of Crop Wild Relatives of the United States

(2013) Colin K. Khoury et al.   CROP SCIENCE

The International Oryza Map Alignment Project: development of a genus-wide comparative genomics platform to help solve the 9 billion-people question

(2013) Julie Jacquemin et al.   CURRENT OPINION IN PLANT BIOLOGY

Deep Transcriptome Sequencing of Wild Halophyte Rice, Porteresia coarctata, Provides Novel Insights into the Salinity and Submergence Tolerance Factors

(2013) R. Garg et al.   DNA RESEARCH

Population Structure and Domestication Revealed by High-Depth Resequencing of Korean Cultivated and Wild Soybean Genomes

(2013) W.-H. Chung et al.   DNA RESEARCH

Dissection of the Octoploid Strawberry Genome by Deep Sequencing of the Genomes of Fragaria Species

(2013) H. Hirakawa et al.   DNA RESEARCH

Phylogenetic Analysis of 47 Chloroplast Genomes Clarifies the Contribution of Wild Species to the Domesticated Apple Maternal Line

(2013) Svetlana V. Nikiforova et al.   MOLECULAR BIOLOGY AND EVOLUTION

Identification of quantitative trait loci contributing to yield and seed quality parameters under terminal drought in barley advanced backcross lines

(2013) Rajesh Kalladan et al.   MOLECULAR BREEDING

Genomics of Compositae crops: reference transcriptome assemblies and evidence of hybridization with wild relatives

(2013) Kathryn A. Hodgins et al.   Molecular Ecology Resources

Draft genome of the wheat A-genome progenitor Triticum urartu

(2013) Hong-Qing Ling et al.   NATURE

Aegilops tauschii draft genome sequence reveals a gene repertoire for wheat adaptation

(2013) Jizeng Jia et al.   NATURE

A genomic variation map provides insights into the genetic basis of cucumber domestication and diversity

(2013) Jianjian Qi et al.   NATURE GENETICS

Sequencing of wild crop relatives to support the conservation and utilization of plant genetic resources

(2013) Robert J. Henry   Plant Genetic Resources-Characterization and Utilization

Deep transcriptome sequencing of rhizome and aerial-shoot in Sorghum propinquum

(2013) Ting Zhang et al.   PLANT MOLECULAR BIOLOGY

Dynamic Transcriptomic Profiles between Tomato and a Wild Relative Reflect Distinct Developmental Architectures

(2013) D. H. Chitwood et al.   PLANT PHYSIOLOGY

A Novel and Major Quantitative Trait Locus for Fusarium Crown Rot Resistance in a Genotype of Wild Barley (Hordeum spontaneum L.)

(2013) Guangdeng Chen et al.   PLoS One

Genome Wide Transcriptional Profile Analysis of Vitis amurensis and Vitis vinifera in Response to Cold Stress

(2013) Haiping Xin et al.   PLoS One

Characterisation and Analysis of the Aegilops sharonensis Transcriptome, a Wild Relative of Wheat in the Sitopsis Section

(2013) Costas Bouyioukos et al.   PLoS One

High-Throughput Sequencing and Mutagenesis to Accelerate the Domestication of Microlaena stipoides as a New Food Crop

(2013) Frances M. Shapter et al.   PLoS One

Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato

(2013) D. Koenig et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Amborella Genome and the Evolution of Flowering Plants

(2013) et al.   SCIENCE

Genome-wide marker development for the wheat D genome based on single nucleotide polymorphisms identified from transcripts in the wild wheat progenitor Aegilops tauschii

(2013) Julio Cesar Masaru Iehisa et al.   THEORETICAL AND APPLIED GENETICS

Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution

(2013) Jinfeng Chen et al.   Nature Communications

Genomic islands of divergence are not affected by geography of speciation in sunflowers

(2013) S. Renaut et al.   Nature Communications

Sequencing and De Novo Transcriptome Assembly of Brachypodium sylvaticum (Poaceae)

(2013) Samuel E. Fox et al.   Applications in Plant Sciences

Capturing chloroplast variation for molecular ecology studies: a simple next generation sequencing approach applied to a rainforest tree

(2013) Hannah McPherson et al.   BMC ECOLOGY

A comparative transcriptomic study of an allotetraploid and its diploid progenitors illustrates the unique advantages and challenges of RNA-seq in plant species

(2012) Daniel C. Ilut et al.   AMERICAN JOURNAL OF BOTANY

Ultra-barcoding in cacao (Theobroma spp.; Malvaceae) using whole chloroplast genomes and nuclear ribosomal DNA

(2012) Nolan Kane et al.   AMERICAN JOURNAL OF BOTANY

Global transcriptome analysis of two wild relatives of peanut under drought and fungi infection

(2012) Patricia M Guimarães et al.   BMC GENOMICS

Next-generation sequencing for understanding and accelerating crop domestication

(2012) R. J. Henry   Briefings in Functional Genomics

Toward the Systematic Conservation of Global Crop Wild Relative Diversity

(2012) Nigel Maxted et al.   CROP SCIENCE

Discovery of High-Confidence Single Nucleotide Polymorphisms from Large-Scale De Novo Analysis of Leaf Transcripts of Aegilops tauschii, A Wild Wheat Progenitor

(2012) J. C. M. Iehisa et al.   DNA RESEARCH

SSR analysis of introgression of drought tolerance from the genome of Hordeum spontaneum into cultivated barley (Hordeum vulgare ssp vulgare)

(2012) B. Lakew et al.   EUPHYTICA

Crop wild relatives: more common ground for breeders and ecologists

(2012) Olivier Honnay et al.   FRONTIERS IN ECOLOGY AND THE ENVIRONMENT

Os11Gsk gene from a wild rice, Oryza rufipogon improves yield in rice

(2012) Sudhakar Thalapati et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

The banana (Musa acuminata) genome and the evolution of monocotyledonous plants

(2012) Angélique D’Hont et al.   NATURE

A map of rice genome variation reveals the origin of cultivated rice

(2012) Xuehui Huang et al.   NATURE

Comparative population genomics of maize domestication and improvement

(2012) Matthew B Hufford et al.   NATURE GENETICS

Transcriptome sequencing of wild chickpea as a rich resource for marker development

(2012) Shalu Jhanwar et al.   PLANT BIOTECHNOLOGY JOURNAL

Genome-wide DNA polymorphisms in eliteindicarice inbreds discovered by whole-genome sequencing

(2012) Gopala K. Subbaiyan et al.   PLANT BIOTECHNOLOGY JOURNAL

SNP in starch biosynthesis genes associated with nutritional and functional properties of rice

(2012) Ardashir Kharabian-Masouleh et al.   Scientific Reports

Genomics of Compositae weeds: EST libraries, microarrays, and evidence of introgression

(2011) Zhao Lai et al.   AMERICAN JOURNAL OF BOTANY

Global characterization of the root transcriptome of a wild species of rice, Oryza longistaminata, by deep sequencing

(2011) Haiyuan Yang et al.   BMC GENOMICS

Variation in sorghum starch synthesis genes associated with differences in starch phenotype

(2011) Helen Hill et al.   FOOD CHEMISTRY

Genetic diversity analysis of common beans based on molecular markers

(2011) Homar R. Gill-Langarica et al.   GENETICS AND MOLECULAR BIOLOGY

DNA sequencing methods contributing to new directions in cereal research

(2011) M.A. Edwards et al.   JOURNAL OF CEREAL SCIENCE

Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes

(2011) Xun Xu et al.   NATURE BIOTECHNOLOGY

Analysis of Leaf and Root Transcriptomes of Soil-Grown Avena barbata Plants

(2011) Stéphanie M. Swarbreck et al.   PLANT AND CELL PHYSIOLOGY

Characterizing homologues of crop domestication genes in poorly described wild relatives by high-throughput sequencing of whole genomes

(2011) Sylvia Malory et al.   PLANT BIOTECHNOLOGY JOURNAL

Discovery of polymorphisms in starch-related genes in rice germplasm by amplification of pooled DNA and deeply parallel sequencing†

(2011) Ardashir Kharabian-Masouleh et al.   PLANT BIOTECHNOLOGY JOURNAL

Identification of heterotic loci associated with yield-related traits in Chinese common wild rice (Oryza rufipogon Griff.)

(2011) Xiaojin Luo et al.   PLANT SCIENCE

Genome diversity in wild grasses under environmental stress

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

Genetic diversity and population structure in cultivated sunflower and a comparison to its wild progenitor, Helianthus annuus L

(2011) J. R. Mandel et al.   THEORETICAL AND APPLIED GENETICS

The Endosperm Morphology of Rice and its Wild Relatives as Observed by Scanning Electron Microscopy

(2011) S. Kasem et al.   Rice

Chloroplast genome sequence confirms distinctness of Australian and Asian wild rice

(2011) Daniel L. E. Waters et al.   Ecology and Evolution

The Sugarcane Genome Challenge: Strategies for Sequencing a Highly Complex Genome

(2011) Glaucia Mendes Souza et al.   Tropical Plant Biology

Natural Variation in Grain Selenium Concentration of Wild Barley, Hordeum spontaneum, Populations from Israel

(2010) Yan Jun et al.   BIOLOGICAL TRACE ELEMENT RESEARCH

Breeding resilient and productive genotypes adapted to drought-prone rainfed ecosystem of India

(2010) S.B. Verulkar et al.   FIELD CROPS RESEARCH

The potential contribution of wild barley (Hordeum vulgare ssp. spontaneum) germplasm to drought tolerance of cultivated barley (H. vulgare ssp. vulgare)

(2010) B. Lakew et al.   FIELD CROPS RESEARCH

HvNax3—a locus controlling shoot sodium exclusion derived from wild barley (Hordeum vulgare ssp. spontaneum)

(2010) Yuri Shavrukov et al.   FUNCTIONAL & INTEGRATIVE GENOMICS

Genetic analysis and ecological association ofHinagenes based on single nucleotide polymorphisms (SNPs) in wild barley,Hordeum spontaneum

(2010) Wei-Tao Li et al.   HEREDITAS

Analysis of QTLs for yield-related traits in Yuanjiang common wild rice (Oryza rufipogon Griff.)

(2010) Qiang Fu et al.   Journal of Genetics and Genomics

Genome sequencing and analysis of the model grass Brachypodium distachyon

(2010) John P. Vogel et al.   NATURE

Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection

(2010) Hon-Ming Lam et al.   NATURE GENETICS

Chloroplast genome sequences from total DNA for plant identification

(2010) Catherine J. Nock et al.   PLANT BIOTECHNOLOGY JOURNAL

Whole-genome sequencing and intensive analysis of the undomesticated soybean (Glycine soja Sieb. and Zucc.) genome

(2010) M. Y. Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Drought and salt tolerances in wild relatives for wheat and barley improvement

(2009) EVIATAR NEVO et al.   PLANT CELL AND ENVIRONMENT

Whole grain morphology of Australian rice species

(2009) S. Kasem et al.   Plant Genetic Resources-Characterization and Utilization

Australian Oryza: Utility and Conservation

(2009) Robert J. Henry et al.   Rice

Crop domestication in the Compositae: a family-wide trait assessment

(2008) Hannes Dempewolf et al.   GENETIC RESOURCES AND CROP EVOLUTION

Genetic diversity of ICARDA’s worldwide barley landrace collection

(2008) Abderrazek Jilal et al.   GENETIC RESOURCES AND CROP EVOLUTION

Chloroplast DNA diversity reveals the contribution of two wild species to the origin and evolution of diploid safflower (Carthamus tinctorius L.)

(2008) Deepmala Sehgal et al.   GENOME

Botany without borders: barcoding in focus

(2008) NOLAN C. KANE et al.   MOLECULAR ECOLOGY

Selecting a set of wild barley introgression lines and verification of QTL effects for resistance to powdery mildew and leaf rust

(2008) Inga Schmalenbach et al.   THEORETICAL AND APPLIED GENETICS

Yield-enhancing quantitative trait loci (QTLs) from wild species

(2007) B.P. Mallikarjuna Swamy et al.   BIOTECHNOLOGY ADVANCES