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United States Department of Agriculture

Agricultural Research Service

Title: Oat Molecular Markers: Status and Opportunities

Author
item Rines, Howard

Submitted to: American Oat Workers Conference Proceedings
Publication Type: Abstract Only
Publication Acceptance Date: May 23, 2006
Publication Date: July 23, 2006
Citation: Rines, H.W. 2006. Oat molecular markers: status and opportunities [abstract]. In: 2006 American Oat Workers' Conference Program Book. 2006 American Oat Workers Conference, July 23-26, 2006, Fargo, North Dakota. p. 33. Available: http://wheat.pw.usda.gov/ggpages/oatnewsletter/v50/AOWC/Oat_Book5.pdf.

Technical Abstract: Advances in genomic analysis and application of marker-assisted selection to oat genetic improvement is currently limited by a lack of genomic information and molecular genetic tools, particularly user-friendly molecular markers adapted to high-throughput technology. Identification of such markers in large numbers would allow oat breeders and geneticists to take advantage of the services of recently established regional marker labs, thus enabling much more ready trait marker association identification and application of marker-assisted selection. Single-sequence repeat (SSR) markers are marker-of-choice for many situations because they are often co-dominant and multi-allelic. However, they are arduous and expensive to develop. Only a limited number of genomic SSRs have been reported to date for oat and the amount of polymorphism detected among cultivars has been disappointingly low. Identification of SSR sequences in expressed sequence tag (EST) sequences in GenBank and other data bases have been a less expensive source of these markers, but only a few thousand ESTs have been reported in oat limiting the number of oat EST-SSRs identified. Genome sequence similarities among grasses allow some cross-detection of markers across species, particularly for EST-SSR markers, providing opportunities for identification of markers from wheat, barley, lolium, fescue, and other grasses that are useful in oat. Communication and coordination among researchers are needed to make screening markers from other species on oat more efficient. Other type markers (e.g., RFLPs, AFLPs) found associated with genes or QTLs of interest, or even candidate genes, have been converted to PCR-based markers to increase their efficiency, but again in limited numbers. Several new technologies for identification and scoring of SNPs and other markers have arisen. A most promising technology, Display Array Technology (http://www.diversityarrays.com/applicationsdart.html), which could provide genome-wide finger-printing for several hundred markers rapidly and at a low per-marker cost, currently is being pursued by an international consortium of oat researchers. This presentation is intended to promote a discussion of how oat workers can best coordinate their efforts to improve opportunities for marker development and use in oat improvement.

Last Modified: 12/19/2014
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