RT Journal Article SR Electronic T1 The Sequence of 1504 Mutants in the Model Rice Variety Kitaake Facilitates Rapid Functional Genomic Studies JF bioRxiv FD Cold Spring Harbor Laboratory SP 111237 DO 10.1101/111237 A1 Guotian Li A1 Rashmi Jain A1 Mawsheng Chern A1 Nikki T. Pham A1 Joel A. Martin A1 Tong Wei A1 Wendy S. Schackwitz A1 Anna M. Lipzen A1 Phat Q. Duong A1 Kyle C. Jones A1 Liangrong Jiang A1 Deling Ruan A1 Diane Bauer A1 Yi Peng A1 Kerrie W. Barry A1 Jeremy Schmutz A1 Pamela C. Ronald YR 2017 UL http://biorxiv.org/content/early/2017/02/24/111237.abstract AB The availability of a whole-genome sequenced mutant population and the cataloging of mutations of each line at a single-nucleotide resolution facilitates functional genomic analysis. To this end, we generated and sequenced a fast-neutron-induced mutant population in the model rice cultivar Kitaake (Oryza sativa L. ssp. japonica), which completes its life cycle in 9 weeks. We sequenced 1,504 mutant lines at 45-fold coverage and identified 91,513 mutations affecting 32,307 genes, 58% of all rice genes. We detected an average of 61 mutations per line. Mutation types include single base substitutions, deletions, insertions, inversions, translocations, and tandem duplications. We observed a high proportion of loss-of-function mutations. Using this mutant population, we identified an inversion affecting a single gene as the causative mutation for the short-grain phenotype in one mutant line with a small segregating population. This result reveals the usefulness of the resource for efficient identification of genes conferring specific phenotypes. To facilitate public access to this genetic resource, we established an open access database called KitBase that provides access to sequence data and seed stocks, enabling rapid functional genomic studies of rice.One-sentence summary We have sequenced 1,504 mutant lines generated in the short life cycle rice variety Kitaake (9 weeks) and established a publicly available database, enabling rapid functional genomic studies of rice.