Page Banner

United States Department of Agriculture

Agricultural Research Service

Research Project: Development and Utilization of Genetic Markers and Maps for Breeding Perennial Forage, Range, and Turf Plants of the Western U.S.

Location: Forage and Range Research

2013 Annual Report


1a.Objectives (from AD-416):
Sequence genes of key forage, range, and turf plants of the western U.S. and develop assays that will be implemented for high-through put genotyping and gene expression analysis of experimental and applied breeding populations that display heritable variation in rhizome development, fall and winter forage quality, salinity tolerance, winter hardiness, heading and flowering date, turf quality, and mineral uptake.


1b.Approach (from AD-416):
DNA samples from experimental populations and applied breeding programs are purified, concentrated, genotyped, and sequenced using a combination of technically precise procedures and sophisticated genomic instruments. The resulting data are processed through a pipeline of bioinformatics software using multi-processor computer workstations and clusters.


3.Progress Report:

The main objectives of this project are to sequence genes of key forage, range, and turf plants of the western U.S. and develop assays that will be implemented for high-throughput genotyping and gene expression analysis of experimental and applied breeding populations that display heritable variation in rhizome development, fall and winter forage quality, salinity tolerance, winter hardiness, heading and flowering date, turf quality, and mineral uptake.

During FY-2013: The cooperators designed and tested 96 single nucleotide polymorphism assays for lignin biosynthesis genes of intermediate wheatgrass, with approximately 40% success rate, using the Fluidigm 96 x 96 dynamic array system. Using a Fluidigm 48x48 AccessArray chip, multiple cloned genes were amplified and pooled for sequencing for Kentucky bluegrass and orchardgrass germplasm. The cooperators designed and tested 672 intermediate wheatgrass expressed gene sequence tag (EST) markers for PCR amplification and polymorphism using ABI3730 capillary electrophoresis. The cooperators also designed and tested 384 Thinopyrum bessarabicum EST markers for PCR amplification and polymorphism in related species including intermediate wheatgrass. Genomic DNA of four Neotyphodium fungal grass endophyte species was sequenced using a Roche/454 sequencing platform. Classical genotyping on an ABI3730 occurred on 472 plants from seven Lupin species, over 1,500 intermediate wheatgrass plants, 384 orchardgrass plants from 48 cultivars, and 16 Kentucky bluegrass germplasm sources.


Last Modified: 4/20/2014
Footer Content Back to Top of Page