Steven B. Cannon
A5007582587- Legume Nitrogen Fixing Symbiosis
- Soybean genetics and cultivation
- Plant pathogens and resistance mechanisms
- Agricultural pest management studies
- Genetic and Environmental Crop Studies
- Plant Virus Research Studies
- Plant Disease Resistance and Genetics
- Genomics and Phylogenetic Studies
- Chromosomal and Genetic Variations
- Peanut Plant Research Studies
- Coconut Research and Applications
- Plant-Microbe Interactions and Immunity
- Plant Pathogenic Bacteria Studies
- Plant nutrient uptake and metabolism
- Botanical Research and Chemistry
- Agronomic Practices and Intercropping Systems
- Genetics and Plant Breeding
- Plant Parasitism and Resistance
- Nitrogen and Sulfur Effects on Brassica
- Plant Pathogens and Resistance
- Soil Geostatistics and Mapping
- Plant Diversity and Evolution
- Nematode management and characterization studies
- Genetic and phenotypic traits in livestock
- Plant Molecular Biology Research
Agricultural Research Service
2015-2024
United States Department of Agriculture
2013-2024
Iowa State University
2009-2022
University of Florida
2021
University of New Caledonia
2019
University of Iowa
2014
Royal College of Surgeons of England
2014
University of Minnesota
2002-2012
University of Oklahoma
2005-2012
Université Paris-Sud
2008-2012
Soybean (Glycine max) is one of the most important crop plants for seed protein and oil content, its capacity to fix atmospheric nitrogen through symbioses with soil-borne microorganisms. We sequenced 1.1-gigabase genome by a whole-genome shotgun approach integrated it physical high-density genetic maps create chromosome-scale draft sequence assembly. predict 46,430 protein-coding genes, 70% more than Arabidopsis similar poplar which, like soybean, an ancient polyploid (palaeopolyploid)....
Most genes in Arabidopsis thaliana are members of gene families. How do the families arise, and how family copy numbers maintained? Some may evolve primarily through tandem duplication high rates birth death clusters, others infrequent polyploidy or large-scale segmental duplications subsequent losses.Our approach to understanding mechanisms evolution was construct phylogenies for 50 large thaliana, identify internal Arabidopsis, map onto duplications, use this information which nodes each...
Green plants (Viridiplantae) include around 450,000-500,000 species1,2 of great diversity and have important roles in terrestrial aquatic ecosystems. Here, as part the One Thousand Plant Transcriptomes Initiative, we sequenced vegetative transcriptomes 1,124 species that span a broad sense (Archaeplastida), including green (Viridiplantae), glaucophytes (Glaucophyta) red algae (Rhodophyta). Our analysis provides robust phylogenomic framework for examining evolution plants. Most inferred...
Legumes (Fabaceae or Leguminosae) are unique among cultivated plants for their ability to carry out endosymbiotic nitrogen fixation with rhizobial bacteria, a process that takes place in specialized structure known as the nodule. belong one of two main groups eurosids, Fabidae, which includes most species capable fixation. comprise several evolutionary lineages derived from common ancestor 60 million years ago (Myr ago). Papilionoids largest clade, dating nearly origin legumes and containing...
Scott Jackson, Jeremy Schmutz, Phillip McClean and colleagues report the genome sequence of common bean (Phaseolus vulgaris) resequenced wild individuals landraces from Mesoamerican Andean gene pools, showing that underwent two independent domestications. Common vulgaris L.) is most important grain legume for human consumption has a role in sustainable agriculture owing to its ability fix atmospheric nitrogen. We assembled 473 Mb 587-Mb genetically anchored 98% this 11 chromosome-scale...
A draft sequence of the staple crop kabuli chickpea, together with resequencing and analysis 90 additional lines from 10 countries, provides a resource for breeders. Chickpea (Cicer arietinum) is second most widely grown legume after soybean, accounting substantial proportion human dietary nitrogen intake playing crucial role in food security developing countries. We report ∼738-Mb whole genome shotgun CDC Frontier, chickpea variety, which contains an estimated 28,269 genes. Resequencing...
David Bertioli and colleagues report the genomes of Arachis duranensis ipaensis, diploid ancestors cultivated peanut, hypogaea. Their analyses are a first step in understanding evolution peanut's tetraploid genome. Cultivated peanut (Arachis hypogaea) is an allotetraploid with closely related subgenomes total size ∼2.7 Gb. This makes assembly chromosomal pseudomolecules very challenging. As foundation to genome we sequences its ipaensis). We show that these similar A B use them identify...
Next generation sequencing is transforming our understanding of transcriptomes. It can determine the expression level transcripts with a dynamic range over six orders magnitude from multiple tissues, developmental stages or conditions. Patterns gene provide insight into functions genes unknown annotation. The RNA Seq-Atlas presented here provides record high-resolution in set fourteen diverse tissues. Hierarchical clustering transcriptional profiles for these tissues suggests three clades...
SoyBase, the USDA-ARS soybean genetic database, is a comprehensive repository for professionally curated genetics, genomics and related data resources soybean. SoyBase contains most current genetic, physical genomic sequence maps integrated with qualitative quantitative traits. The trait loci (QTL) represent more than 18 years of QTL mapping 90 unique also well-annotated ‘Williams 82’ associated mining tools. views chromosomes extensive on traits phenotypes are extensively interlinked. This...
Like many other crops, the cultivated peanut (Arachis hypogaea L.) is of hybrid origin and has a polyploid genome that contains essentially complete sets chromosomes from two ancestral species. Here we report sequence show after its origin, evolved through mobile-element activity, deletions by flow genetic information between corresponding (that is, homeologous recombination). Uniformity patterns recombination at ends favors single for wild counterpart A. monticola. However, much genome,...
Summary Cowpea ( Vigna unguiculata [L.] Walp.) is a major crop for worldwide food and nutritional security, especially in sub‐Saharan Africa, that resilient to hot drought‐prone environments. An assembly of the single‐haplotype inbred genome cowpea IT97K‐499‐35 was developed by exploiting synergies between single‐molecule real‐time sequencing, optical genetic mapping, an reconciliation algorithm. A total 519 Mb included assembled sequences. Nearly half sequence composed repetitive elements,...
The Soybean Consensus Map 4.0 facilitated the anchoring of 95.6% soybean whole genome sequence developed by Joint Genome Institute, Department Energy, but its marker density was only sufficient to properly orient 66% scaffolds. discovery and genetic mapping more single nucleotide polymorphism (SNP) markers were needed anchor remaining sequence. To that end, next generation sequencing high-throughput genotyping combined obtain a much higher resolution map could be used most help validate...
Summary Chickpea ( Cicer arietinum L.) is an important legume crop in the semi‐arid regions of Asia and Africa. Gains productivity have been low however, particularly because biotic abiotic stresses. To help enhance using molecular breeding techniques, next generation sequencing technologies such as Roche/454 Illumina/Solexa were used to determine sequence most gene transcripts identify drought‐responsive genes gene‐based markers. A total 103 215 tentative unique sequences (TUSs) produced...
Abstract Efficient crop improvement depends on the application of accurate genetic information contained in diverse germplasm resources. Here we report a reference-grade genome wild soybean accession W05, with final assembled size 1013.2 Mb and contig N50 3.3 Mb. The analytical power W05 is demonstrated by several examples. First, identify an inversion at locus determining seed coat color during domestication. Second, translocation event between chromosomes 11 13 some genotypes shown to...
Unresolved questions about evolution of the large and diverse legume family include timing polyploidy (whole-genome duplication; WGDs) relative to origin major lineages within Fabaceae symbiotic nitrogen fixation. Previous work has established that a WGD affects most in Papilionoideae occurred sometime after divergence papilionoid mimosoid clades, but exact been unknown. The history also not for outside Papilionoideae. We investigated presence WGDs legumes by querying thousands phylogenetic...
Lupins are important grain legume crops that form a critical part of sustainable farming systems, reducing fertilizer use and providing disease breaks. It has basal phylogenetic position relative to other crop model legumes high speciation rate. Narrow-leafed lupin (NLL; Lupinus angustifolius L.) is gaining popularity as health food, which in protein dietary fibre but low starch gluten-free. We report the draft genome assembly (609 Mb) NLL cultivar Tanjil, captured >98% gene content,...
Summary We report reference‐quality genome assemblies and annotations for two accessions of soybean ( Glycine max ) one accession soja , the closest wild relative G. . The provided are widely used US cultivars: northern line Williams 82 (Wm82) southern Lee. Wm82 assembly improves prior published assembly, Lee new these accessions. Comparisons among three show generally high structural conservation, but nucleotide difference 1.7 single‐nucleotide polymorphisms snp s) per kb between Lee, 4.7 s...
Genome sequencing of the model legumes, Medicago truncatula and Lotus japonicus, provides an opportunity for large-scale sequence-based comparison two genomes in same plant family. Here we report synteny comparisons between these species, including details about chromosome relationships, blocks, microsynteny within genome regions lacking clear correspondence. The share a minimum 10 each with substantial collinearity frequently extending length whole arms. proportion genes syntenic collinear...
Abstract The nucleotide-binding site (NBS)-Leucine-rich repeat (LRR) gene family accounts for the largest number of known disease resistance genes, and is one families in plant genomes. We have identified 333 nonredundant NBS-LRRs current Medicago truncatula draft genome (Mt1.0), likely representing 400 to 500 full genome, or roughly 3 times present Arabidopsis (Arabidopsis thaliana). Although many characteristics are similar those described on other genomes, several evolutionary features...
The lysin motif (LysM) domain is an ancient and ubiquitous protein module that binds peptidoglycan structurally related molecules. A genomic survey in a large number of species spanning all kingdoms reveals the combination LysM receptor kinase domains present exclusively plants. However, particular biological functions molecular evolution this gene family remain largely unknown. We show plant proteins are highly diversified minimum six distinct types motifs exist five additional nonkinase...
The Fabaceae, the third largest family of plants and source many crops, has been target genomic studies. Currently, only grasses surpass legumes for number publicly available expressed sequence tags (ESTs). quantity sequences from diverse enables use computational approaches to identify novel genes in specific taxa. We used BLAST algorithms compare unigene sets Medicago truncatula, Lotus japonicus, soybean (Glycine max Glycine soja) nonlegume sets, GenBank's nonredundant EST databases, rice...
The availability of complete or nearly genome sequences from several plant species permits detailed discovery and cross-species comparison transposable elements (TEs) at the whole level. We initially investigated 510 long terminal repeat-retrotransposon (LTR-RT) families comprising 32370 in soybean (Glycine max (L.) Merr.). Approximately 87% these were located recombination-suppressed pericentromeric regions, where ratio (1.26) solo LTRs to intact (S/I) is significantly lower than that...