Miscanthus sinensis Genome

CABBI Theme: Feedstock Production

Keywords: Genomics, RNA Sequencing, Transcriptomics

Citation

“Miscanthus sinensis v7.1,” Oct. 28, 2020. DOE-JGI, https://phytozome.jgi.doe.gov/pz/portal.html#!info?alias=Org_Msinensis_er

A) Principal component analysis of RNA-seq read counts normalized using the DESeq2 variance-stabilizing transformation method. B) Heatmap across all tissues in the study comparing the expression of a subset of genes expressed in the tissues that are actively remobilizing nutrients.

Overview

This is the first chromosome-scale assembly of Miscanthus sinensis doubled haploid DH1 (IGR-2011-001). The wild grass Miscanthus spp. is one of the world’s most widely adapted and productive plants. This chromosome-scale assembly will provide a foundational sequence resource for the Miscanthus genus, and an important link between the diploid Sorghum bicolor and the complex polyploid Saccharum species and provide a reference for the highly productive triploid M. x giganteus. Analysis of structural and regulatory changes among these genomes offer insights into the evolution of rhizome development, nutrient recycling, and self-incompatibility traits that contribute to highly efficient and sustainable biomass accumulation in a perennial temperate grass. Completion of the Miscanthus genome sequence represents a significant advance in both basic and applied plant genomics, creating a powerful system for comparative genomics among the Andropogoneae grasses that are of global importance as leading bioenergy feedstocks and food crops.

Additional Data

Genomic reads for the M. sinensis DH1 genome assembly, PRJNA346689

RNASeq data in PRJNA575573 and SRP01f7791

Code for analysis of the M. sinensis genome

Data underlying figures

Supplementary Information

Related Publication

Mitros, T., Session, A.M., James, B.T., Wu, G.A., Belaffif, M.B., Clark, L.V., Shu, S., Dong, H., Barling, A., Holmes, J.R., Mattick, J.E., Bredeson, J.V., Liu, S., Farrar, K., Glowacka, K., Jezowski, S., Barry, K., Chae, W.B., Juvik, J.A., Gifford, J., Oladeinde, A., Yamada, T., Grimwood, J., Putnam, N.H., De Vega, J., Barth, S., Klaas, M., Hodkinson, T., Li, L., Jin, X., Peng, J., Yu, C.Y., Heo, K., Yoo, J.H., Ghimire, B.K., Donnison, I.S., Schmutz, J., Hudson, M.E., Sacks, E.J., Moose, S.P., Swaminathan, K., Rokhsar, D.S. Oct. 28, 2020. “Genome Biology of the Paleotetraploid Perennial Biomass Crop Miscanthus“ Nature Communications 11, 5442 (2020). DOI: 10.1038/s41467-020-18923-6.