The NAM parents sequencing project
NAM Consortium website: https://nam-genomes.org/
Note: These current gene model annotations are part of a two-set release process. The first set of models were generated using accession-specific RNA-seq from 10 tissues and the models obtained from these tissues were refined using evidence from B73 full-length cDNAs and EST data. These represent high-quality gene models expressed in the 10 tissues. These annotations will be augmented with a second set of gene models combining both ab-initio prediction and evidence. The second set of gene models are targeted for release in March 2020 or upon publication of the data manuscript.
Currently, many or most forms of sequence analyses are referenced to the single B73 inbred. Beyond B73, some of the most extensively researched maize lines are the core set of 25 inbreds known as the NAM founder lines, which represent a broad cross-section of modern maize diversity. Prior data show that gene content can differ by more than 5% across lines and that as much as half of the functional genetic information lies outside of genes in highly variable intergenic spaces. To capture and utilize this variation, the NAM founder inbreds have been sequenced and assembled by the NAM Consortium using PacBio long reads a mate-pair strategy. Scaffolds were validated by BioNano optical mapping, and ordered and oriented using linkage and pan-genome marker data. RNA-seq data from multiple tissues were used to annotate each genome using a pipeline that includes BRAKER, Mikado, and PASA. These data will help the maize community assess the role of structural variation such as presence-absence variation and copy number variation in the determination of agronomic traits.
Hosting status: (January, 2020)
All NAM assemblies and stock:
Coming soon to MaizeGDBJanuary 9th, 2020