Genomics

Whole genome resequencing was carried out on ~400 sorghum accessions to understand the landscape of genetic variation in the selected germplasm and enable high-resolution mapping of bioenergy traits with genome wide association studies (GWAS). Additionally, ~200 sorghum recombinant inbred lines (RILs) were characterized with ~400,000 genetic markers using genotyping-by-sequencing (Morris et al., 2013) for trait dissection in the RIL population and testcross hybrids of the RIL population.

Whole-genome resequencing

Experimental Design:

• 384 BAP samples were sequenced to an average depth of ~25x.

  • List of BAP accessions in BETYdb

• Shotgun sequencing (127-bp paired-end) was done using an Illumina X10 instrument at the HudsonAlpha Institute for Biotechnology.

• Variant calling was done using a computational pipeline at the Danforth Center.

• Data were aligned against the BTx623 reference genotype

  • NCBI https://www.ncbi.nlm.nih.gov/assembly/GCF_000003195.3/

  • Phytozome https://phytozome.jgi.doe.gov/pz/portal.html#!info?alias=Org_Sbicolor

Genotyping-by-sequencing

Experimental Design:

• 768 RIL samples were sequenced using a GBS approach.

See Also

• Genomics Protocols

• Genomics Data Availability