Switchgrass (Panicum virgatum L.) is a perennial grass that has been designated as an herbaceous model biofuel crop for the United States of America. To facilitate accelerated breeding programs of switchgrass, we developed both an association panel and linkage populations for genome-wide association study (GWAS) and genomic selection (GS). All of the 840 individuals were then genotyped using genotyping by sequencing (GBS), generating 350 GB of sequence in total. As a highly heterozygous polyploid (tetraploid and octoploid) species lacking a reference genome, switchgrass is highly intractable with earlier methodologies of single nucleotide polymorphism (SNP) discovery. To access the genetic diversity of species like switchgrass, we developed a SNP discovery pipeline based on a network approach called the Universal Network-Enabled Analysis Kit (UNEAK). Complexities that hinder single nucleotide polymorphism discovery, such as repeats, paralogs, and sequencing errors, are easily resolved with UNEAK. Here, 1.2 million putative SNPs were discovered in a diverse collection of primarily upland, northern-adapted switchgrass populations. Further analysis of this data set revealed the fundamentally diploid nature of tetraploid switchgrass. Taking advantage of the high conservation of genome structure between switchgrass and foxtail millet (Setaria italica (L.) P. Beauv.), two parent-specific, synteny-based, ultra high-density linkage maps containing a total of 88,217 SNPs were constructed. Also, our results showed clear patterns of isolation-by-distance and isolation-by-ploidy in natural populations of switchgrass. Phylogenetic analysis supported a general south-to-north migration path of switchgrass. In addition, this analysis suggested that upland tetraploid arose from upland octoploid. All together, this study provides unparalleled insights into the diversity, genomic complexity, population structure, phylogeny, phylogeography, ploidy, and evolutionary dynamics of switchgrass.

Alfalfa stems, reed canarygrass, and switchgrass; perennial herbaceous species that have potential as biomass energy crops in temperate regions; were evaluated for their bioconversion potential as energy crops. Each forage species was harvested at two or three maturity stages and analyzed for carbohydrates, lignin, protein, lipid, organic acids, and mineral composition. The biomass samples were also evaluated for sugar yields following pretreatment with dilute sulfuric followed by enzymatic saccharification using a commercial cellulase preparation. Total carbohydrate content of the plants varied from 518 to 655 g kg À1 dry matter (DM) and cellulose concentration from 209 to 322 g kg À1 DM. Carbohydrate and lignin contents were lower for samples from early maturity samples compared to samples from late maturity harvests. Several important trends were observed in regards to the efficiency of sugar recovery following treatments with dilute acid and cellulase. First, a significant amount of the available carbohydrates were in the form of soluble sugars and storage carbohydrates (4.3-16.3% wt/wt). Recovery of soluble sugars following dilute acid pretreatment was problematic, especially that of fructose. Fructose was found to be extremely labile to the dilute acid pretreatments. Second, the efficiency at which available glucose was recovered was inversely correlated to maturity and lignin content. However, total glucose yields were higher for the later maturities because of higher cellulose contents compared to the earlier maturity samples. Finally, cell wall polysaccharides, as determined by the widely applied detergent fiber system were found to be inaccurate. The detergent fiber method consistently overestimated cellulose and hemicellulose and underestimated lignin by substantial amounts.

Switchgrass (Panicum virgatum L.) is a widely adapted warm‐season perennial that has considerable potential as a biofuel crop. Evolutionary processes and environmental factors have combined to create considerable ecotypic differentiation in switchgrass. The objective of this study was to determine the nature of population × location interaction for switchgrass, quantifying potential differences in latitudinal adaptation of switchgrass populations. Twenty populations were evaluated for biofuel and agronomic traits for 2 yr at five locations ranging from 36 to 46° N lat. Biomass yield, survival, and plant height had considerable population × location interaction, much of which (53–65%) could be attributed to the linear effect of latitude and to germplasm groups (Northern Upland, Southern Upland, Northern Lowland, and Southern Lowland). Differences among populations were consistent across locations for maturity, dry matter, and lodging. Increasingly later maturity and the more rapid stem elongation rate of more southern‐origin ecotypes (mainly lowland cytotypes) resulted in high biomass yield potential, reduced dry matter concentration, and longer retention of photosynthetically active tissue at more southern locations. Conversely, increasing cold tolerance of more northern‐origin ecotypes (mainly upland cytotypes) resulted in higher survival, stand longevity, and sustained biomass yields at more northern locations, allowing switchgrass to thrive at cold, northern latitudes. Although cytotype explained much of the variation among populations and the population × location interaction, ecotypic differentiation within cytotypes accounted for considerable variation in adaption of switchgrass populations.

Long-term climate change and periodic environmental extremes threaten food and fuel security1 and global crop productivity2–4. Although molecular and adaptive breeding strategies can buffer the effects of climatic stress and improve crop resilience5, these approaches require sufficient knowledge of the genes that underlie productivity and adaptation6—knowledge that has been limited to a small number of well-studied model systems. Here we present the assembly and annotation of the large and complex genome of the polyploid bioenergy crop switchgrass (Panicum virgatum). Analysis of biomass and survival among 732 resequenced genotypes, which were grown across 10 common gardens that span 1,800 km of latitude, jointly revealed extensive genomic evidence of climate adaptation. Climate–gene–biomass associations were abundant but varied considerably among deeply diverged gene pools. Furthermore, we found that gene flow accelerated climate adaptation during the postglacial colonization of northern habitats through introgression of alleles from a pre-adapted northern gene pool. The polyploid nature of switchgrass also enhanced adaptive potential through the fractionation of gene function, as there was an increased level of heritable genetic diversity on the nondominant subgenome. In addition to investigating patterns of climate adaptation, the genome resources and gene–trait associations developed here provide breeders with the necessary tools to increase switchgrass yield for the sustainable production of bioenergy.

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Switchgrass (Panicum virgatum L.) is a warm‐season native grass, used for livestock feed, bioenergy, soil and wildlife conservation, and prairie restoration in a large portion of the USA. The objective of this research was to quantify the relative importance of latitude and longitude for adaptation and agronomic performance of a diverse group of switchgrass populations. Six populations, chosen to represent remnant prairie populations on two north–south transects, were evaluated for agronomic traits at 12 locations ranging from 36 to 47°N latitude and 88 to 101°W longitude. Although the population × location interactions accounted for only 10 to 31% of the variance among population means, many significant changes in ranking and adaptive responses were observed. Ground cover was greater for northern‐origin populations evaluated in hardiness zones 3 and 4 and for southern‐origin populations evaluated in hardiness zones 5 and 6. There were no adaptive responses related to longitude (ecoregion). Switchgrass populations for use in biomass production, conservation, or restoration should not be moved more than one hardiness zone north or south from their origin, but some can be moved east or west of their original ecoregion, if results from field tests support broad longitudinal adaptation.

G. 2006. Switchgrass as a biofuels feedstock in the USA. Can. J. Plant Sci. 86: 1315-1325. Switchgrass (Panicum virgatum L.) has been identified as a model herbaceous energy crop for the USA. In this review, we selectively highlight current USDA-ARS research on switchgrass for biomass energy. Intensive research on switchgrass as a biomass feedstock in the 1990s greatly improved our understanding of the adaptation of switchgrass cultivars, production practices, and environmental benefits. Several constraints still remain in terms of economic production of switchgrass for biomass feedstock including reliable establishment practices to ensure productive stands in the seeding year, efficient use of fertilizers, and more efficient methods to convert lignocellulose to biofuels. Overcoming the biological constraints will require genetic enhancement, molecular biology, and plant breeding efforts to improve switchgrass cultivars. New genomic resources will aid in developing molecular markers, and should allow for marker-assisted selection of improved germplasm. Research is also needed on profitable management practices for switchgrass production appropriate to specific agro-ecoregions and breakthroughs in conversion methodology. Current higher costs of biofuels compared to fossil fuels may be offset by accurately valuing environmental benefits associated with perennial grasses such as reduced runoff and erosion and associated reduced losses of soil nutrients and organic matter, increased incorporation of soil carbon and reduced use of agricultural chemicals. Use of warm-season perennial grasses in bioenergy cropping systems may also mitigate increases in atmospheric CO 2 . A critical need is teams of scientists, extension staff, and producer-cooperators in key agro-ecoregions to develop profitable management practices for the production of biomass feedstocks appropriate to those agro-ecoregions.

Despite considerable rhetoric, there were no serious efforts to improve genetically the nutritional value of forage crops until the 1960s when advances in analytical chemistry and rumen fermentation technology allowed breeders to adapt meaningful laboratory techniques for repeatably screening thousands of samples in a short time period. Genetic increases in some measure of digestibility, typically in vitro dry matter digestibility (IVDMD), have been documented in new cultivars of at least seven forage crops, including legumes, coolseason grasses, warm-season grasses, annuals, and perennials. The rate of gain for IVDMD ranges from 8 to 45 g kg" 1 cycle" 1 , which, on a percentage basis (0.7-2.5% yr '), is similar to long-term gains for grain yield of many cereal crops. In asexually propagated species, in which all genetic variance can be utilized in a single cycle of selection, gains as high as 11.8% cycle" 1 have been reported. Generally, gains in IVDMD are repeatable across a wide range of environments and management systems, including on-farm tests. Averaged across species, a 1% increase in IVDMD generally leads to a 3.2% increase in average daily gains of beef cattle (Bos taurus). Because increased IVDMD generally does not decrease forage yield per se, and sometimes occurs with increased forage yield, these gains also translate to improved beef production per hectare. The ability to document increased animal performance associated with breeding for increased forage nutritional value can greatly enhance the value of a new cultivar to forage producers, which can lead to rapid adoption of new cultivars. F ORMAL FORAGE feeding began in the late 1880s. Records dating back at least 200 yr prior to that describe the concept of phenotypic differences among strains of a single forage species (Casler et al., 1996). Contemporary literature includes references to selection of strains or genotypes for superior "quality" of forage and the concept of superior strain selection dating back at least 300