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1. Optimization of multiplexed CRISPR/Cas9 system for highly efficient genome editing in Setaria viridis

   https://doi.org/10.1111/tpj.14949  

   Weiss, Trevor ; Wang, Chunfang ; Kang, Xiaojun ; Zhao, Hui ; Elena Gamo, Maria ; Starker, Colby G. ; Crisp, Peter A. ; Zhou, Peng ; Springer, Nathan M. ; Voytas, Daniel F. ; et al ( November 2020 , The Plant Journal)
2. Optimization of Phenotyping Assays for the Model Monocot Setaria viridis

   https://doi.org/10.3389/fpls.2017.02172  

   Acharya, Biswa R. ; Roy Choudhury, Swarup ; Estelle, Aiden B. ; Vijayakumar, Anitha ; Zhu, Chuanmei ; Hovis, Laryssa ; Pandey, Sona ( December 2017 , Frontiers in Plant Science)
3. Venom-gland transcriptomics and venom proteomics of the giant Florida blue centipede, Scolopendra viridis

   https://doi.org/10.1016/j.toxicon.2018.07.030  

   Ward, Micaiah J. ; Rokyta, Darin R. ( September 2018 , Toxicon)
4. Reference Genome for the Highly Transformable Setaria viridis ME034V

   https://doi.org/10.1534/g3.120.401345  

   Thielen, Peter M ; Pendleton, Amanda L ; Player, Robert A ; Bowden, Kenneth V ; Lawton, Thomas J ; Wisecaver, Jennifer H ( October 2020 , G3 Genes|Genomes|Genetics)

   Abstract Setaria viridis (green foxtail) is an important model system for improving cereal crops due to its diploid genome, ease of cultivation, and use of C4 photosynthesis. The S. viridis accession ME034V is exceptionally transformable, but the lack of a sequenced genome for this accession has limited its utility. We present a 397 Mb highly contiguous de novo assembly of ME034V using ultra-long nanopore sequencing technology (read N50 = 41kb). We estimate that this genome is largely complete based on our updated k-mer based genome size estimate of 401 Mb for S. viridis. Genome annotation identified 37,908 protein-coding genes and >300k repetitive elements comprising 46% of the genome. We compared the ME034V assembly with two other previously sequenced Setaria genomes as well as to a diversity panel of 235 S. viridis accessions. We found the genome assemblies to be largely syntenic, but numerous unique polymorphic structural variants were discovered. Several ME034V deletions may be associated with recent retrotransposition of copia and gypsy LTR repeat families, as evidenced by their low genotype frequencies in the sampled population. Lastly, we performed a phylogenomic analysis to identify gene families that have expanded in Setaria, including those involved in specialized metabolism and plant defensemore »response. The high continuity of the ME034V genome assembly validates the utility of ultra-long DNA sequencing to improve genetic resources for emerging model organisms. Structural variation present in Setaria illustrates the importance of obtaining the proper genome reference for genetic experiments. Thus, we anticipate that the ME034V genome will be of significant utility for the Setaria research community.« less
5. Arabidopsis Type III Gγ Protein AGG3 Is a Positive Regulator of Yield and Stress Responses in the Model Monocot Setaria viridis

   https://doi.org/10.3389/fpls.2018.00109  

   Kaur, Jagdeep ; Roy Choudhury, Swarup ; Vijayakumar, Anitha ; Hovis, Laryssa ; Rhodes, Zach ; Polzin, Rob ; Blumenthal, Dylan ; Pandey, Sona ( February 2018 , Frontiers in Plant Science)