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Cross-amplification of EST-derived markers among 16 grass species

OAR@ICRISAT

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Relation http://oar.icrisat.org/213/
http://dx.doi.org/10.1016/j.fcr.2010.03.014
 
Title Cross-amplification of EST-derived markers among 16 grass species
 
Creator Zeid, M
Yu, J K
Goldowitz, I
Denton, M E
Costich, D E
Jayasuriya, C T
Saha, M
Elshire, R
Benscher, D
Breseghello, F
Munkvold, J
Varshney, R K
Belay, G
Sorrells, M E
 
Subject Agriculture-Farming, Production, Technology, Economics
 
Description The availability of a large number of expressed sequence tags (ESTs) has facilitated the development of molecular markers in members of the grass family. As these markers are derived from coding sequences, cross-species amplification and transferability is higher than for markers designed from genomic DNA sequences. In this study, 919 EST-based primers developed from seven grass species were assessed for their amplification across a diverse panel of 16 grass species including cereal, turf and forage crops. Out of the 919 primers tested, 89 successfully amplified DNA from one or more species and 340 primers generated PCR amplicons from at least half of the species in the panel. Only 5.2% of the primers tested produced clear amplicons in all 16 species. The majority of the primers (66.9%) were developed from tall
fescue and rice and these two species showed amplification rate of 41.6% and 19.0% across the panel, respectively. The highest amplification rate was found for conserved-intron scanning primers (CISP) developed from pearl millet (91%) and sorghum (75%) EST sequences that aligned to rice sequences. The primers with successful amplification identified in this study showed promise in other grass species as demonstrated in differentiating a set of 13 clones of reed canary grass, a species for which very little
genomic research has been done. Sequences from the amplified PCR fragments indicated the potential for the transferable CISP markers for comparative mapping purposes. These primer sets can be immediately used for within and across species mapping and will be especially useful for minor grass species with few or no available molecular markers.
 
Publisher Elsevier
 
Date 2010
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
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Identifier http://oar.icrisat.org/213/1/n644.pdf
Zeid, M and Yu, J K and Goldowitz, I and Denton, M E and Costich, D E and Jayasuriya, C T and Saha, M and Elshire, R and Benscher, D and Breseghello, F and Munkvold, J and Varshney, R K and Belay, G and Sorrells, M E (2010) Cross-amplification of EST-derived markers among 16 grass species. Field Crops Research, 118. pp. 28-35.