Comparative Transcriptome Analysis Reveals Genetic Mechanisms of Sugarcane Aphid Resistance in Grain Sorghum

The sugarcane aphid, Melanaphis sacchari (Zehntner) (Hemiptera: Aphididae) (SCA), has become a major pest of grain sorghum since its appearance in the USA. Several grain sorghum parental lines are moderately resistant to the SCA. However, the molecular and genetic mechanisms underlying this resistance are poorly understood, which has constrained breeding for improved resistance. RNA-Seq was used to conduct transcriptomics analysis on a moderately resistant genotype (TAM428) and a susceptible genotype (Tx2737) to elucidate the molecular mechanisms underlying resistance. Differential expression analysis revealed differences in transcriptomic profile between the two genotypes at multiple time points after infestation by SCA. Six gene clusters had differential expression during SCA infestation. Gene ontology enrichment and cluster analysis of genes differentially expressed after SCA infestation revealed consistent upregulation of genes controlling protein and lipid binding, cellular catabolic processes, transcription initiation, and autophagy in the resistant genotype. Genes regulating responses to external stimuli and stress, cell communication, and transferase activities, were all upregulated in later stages of infestation. On the other hand, expression of genes controlling cell cycle and nuclear division were reduced after SCA infestation in the resistant genotype. These results indicate that different classes of genes, including stress response genes and transcription factors, are responsible for countering the physiological effects of SCA infestation in resistant sorghum plants

Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency

Citation: Serba, D. D., Uppalapati, S. R., Krom, N., Mukherjee, S., Tang, Y. H., Mysore, K. S., & Saha, M. C. (2016). Transcriptome analysis in switchgrass discloses ecotype difference in photosynthetic efficiency. Bmc Genomics, 17, 14. doi:10.1186/s12864-016-3377-8Background: Switchgrass, a warm-season perennial grass studied as a potential dedicated biofuel feedstock, is classified into two main taxa - lowland and upland ecotypes - that differ in morphology and habitat of adaptation. But there is limited information on their inherent molecular variations. Results: Transcriptome analysis by RNA-sequencing (RNA-Seq) was conducted for lowland and upland ecotypes to document their gene expression variations. Mapping of transcriptome to the reference genome (Panicum virgatum v1. 1) revealed that the lowland and upland ecotypes differ substantially in sets of genes transcribed as well as levels of expression. Differential gene expression analysis exhibited that transcripts related to photosynthesis efficiency and development and photosystem reaction center subunits were upregulated in lowlands compared to upland genotype. On the other hand, catalase isozymes, helix-loop-helix, late embryogenesis abundant group I, photosulfokinases, and S-adenosyl methionine synthase gene transcripts were upregulated in the upland compared to the lowlands. At >= 100x coverage and >= 5% minor allele frequency, a total of 25,894 and 16,979 single nucleotide polymorphism (SNP) markers were discovered for VS16 (upland ecotype) and K5 (lowland ecotype) against the reference genome. The allele combination of the SNPs revealed that the transition mutations are more prevalent than the transversion mutations. Conclusions: The gene ontology (GO) analysis of the transcriptome indicated lowland ecotype had significantly higher representation for cellular components associated with photosynthesis machinery controlling carbon fixation. In addition, using the transcriptome data, SNP markers were detected, which were distributed throughout the genome. The differentially expressed genes and SNP markers detected in this study would be useful resources for traits mapping and gene transfer across ecotypes in switchgrass breeding for increased biomass yield for biofuel conversion

Hybrid Bermudagrass Responses to Impaired Water Sources

Low-quality (i.e., impaired) water sources are commonly used to irrigate warm-season turfgrass landscapes as a result of limited supplies of potable water sources. Currently, there is great need to define the impacts of impaired water sources on turfgrass water consumption, growth, and quality. The objectives of this study were to characterize actual evaporation (ETa), clipping production, and quality of three hybrid bermudagrass varieties [‘TifTuf’, ‘Tifway’, and ‘Midiron’; Cynodon dactylon (L.) Pers. × C. traansvalensis Burtt Davy] grown under three water sources [reverse osmosis (RO), local well, and recycled], each supplied at full irrigation levels (1.0 × ETa) over two 8-week study periods. When pooling across water source and date, TifTuf maintained the highest visual quality and normalized difference vegetation index (NDVI) compared with both Midiron and Tifway. This was accompanied by a greater daily ETa rate, clipping production, and water use efficiency (WUE) compared with Midiron in both studies. When pooling across variety and date, daily ETa of turfgrass receiving recycled water was 5% to 10% less than those receiving the local well or RO water. In addition, turfgrasses receiving local well water held the greatest visual quality and NDVI compared with those receiving either RO water in the summer study. Visual quality and NDVI were also less in turfgrasses receiving RO water compared with those receiving local well or recycled water in the fall. Despite turfgrasses having a lower ETa under recycled water in both study periods, these plants had significantly greater clipping production compared with RO water in the summer. Also, clipping production under recycled water did not differ significantly from the other two sources in the fall study. Furthermoe, in both studies, WUE was similar for turfgrasses receiving recycled water compared with those receiving RO or local well water. Results demonstrated that irrigation water quality influences critical factors for hybrid bermudagrass growth and that considerable variability exists among three commercially available varieties for evapotranspiration rates, quality, and clipping production

Blue Fescue Overseeding Improves Performance of Fairway Height Buffalograsses

Buffalograss [Buchloe dactyloides (Nutt.) Engelm.] use as a fairway turfgrass is limited in northern portions of its adaptation zone by its extended winter dormancy and tan coloration in early spring and late fall. Cool-season grasses mixed with buffalograss could enhance turfgrass appearance and performance in fall and early spring. Research was conducted near Mead, NE, with eight buffalograss genotypes maintained under fairway conditions to determine the effect of blue fescue (Festuca ovina L. var. glauca Lam.) overseeding rate on turfgrass performance. Interactions were nonsignificant in most cases so main effects are emphasized. Differences were observed between seeding rates and genotypes for most traits studied. Overseeding blue fescue enhanced spring green-up, fall color retention, stand density, and turfgrass quality. These effects were most pronounced in late fall and early spring, when buffalograss plants were entering or exiting winter dormancy. The 5 g∙m–2 blue fescue overseeding rate improved all performance traits studied when compared with the nonoverseeded buffalograss control and was not different from the 10 gm–2 seeding rate treatment. Thus, the 5 g∙m–2 blue fescue overseeding rate appeared to be near optimum for overall turfgrass performance, offering reduced seed cost and decreased potential for species interference. The ‘Legacy’ buffalograss and ‘SR-3200’ blue fescue mixture had the best performance of the genotypes studied as a result of their visual compatibility in terms of color similarity

Pertinent Water-Saving Management Strategies for Sustainable Turfgrass in the Desert U.S. Southwest

Drought and heat stresses are major challenges for turfgrass management in the desert southwest of the United States where rainfall is insufficient to support managed turfgrass growth. Irrigation water availability and its quality are increasingly strained due to diminishing surface water supplies. Unprecedented drought conditions threaten the reliance on groundwater supplies that are heavily scrutinized for irrigation practices on landscape and recreational turfgrass. Therefore, development of drought tolerant cultivars, lower input turf management strategies that sustains turfgrass appearance and performance with less irrigation water, and tolerance to higher seasonal temperatures will be critically important. Sustainability of acceptable quality turfgrass can be accomplished through harnessing the natural genetic variation, genetic manipulation using modern genomic technology, and optimizing turfgrass management practices for improved drought tolerance. Besides persistent efforts of varietal development and improved turfgrass management for drought tolerance and performance, redefining the quality of irrigated turfgrass for consumers to align with the environmental conditions is envisioned to foster a sustainable golf, sports fields, and landscape turfgrass industry in the region. A comprehensive study encompassing different turfgrass species and enhancing management practices to achieve acceptable performing turfgrass as well as outreach education to improve public perception of realities for a “green” environment will be critically important. The recent developments in turfgrass science and contemporary communication platforms are instrumental in increasing awareness for a sustainable turfgrass paradigm and sustain eco-tourism of the region

Characterization of the Rust Fungus, \u3ci\u3ePuccinia emaculata\u3c/i\u3e, and Evaluation of Genetic Variability for Rust Resistance in Switchgrass Populations

Several fungal pathogens have been identified on ornamental and native stands of switchgrass (Panicum virgatum L.). Diseases of switchgrass, particularly rust, have been largely neglected and are likely to become the major limiting factor to biomass yield and quality, especially when monocultured over a large acreage. Based on teliospore morphology and internal transcribed spacer-based diagnostic primers, the rust pathogen collected from switchgrass research fields in Oklahoma was identified as Puccinia emaculata. Furthermore, to identify genetically diverse source(s) of rust resistance, several switchgrass genotypes from both upland (cv. ‘Summer’ and ‘Cave-in-Rock’) and lowland (cv. ‘Alamo’ and ‘Kanlow’) ecotypes were evaluated in Ardmore, Oklahoma during 2008 and 2009 and in growth chamber assays. Field and growth chamber evaluations revealed a high degree of genetic variation within and among switchgrass cultivars. In general, Alamo and Kanlow showed moderate resistance to P. emaculata, while Summer was highly susceptible. Distinct ecotypic variations for reactions to rust were also prevalent with the lowlands maintaining a high level of resistance. These results suggest the potential for improvement of rust resistance via the selection of resistant individuals from currently available cultivars. Further, the selection pressure on the pathogen would also be reduced by employing several rust resistant cultivars in production-scale situations