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Identification of groundnut (Arachis hypogaea) SSR markers suitable for multiple resistance traits QTL mapping in African germplasm

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Relation http://oar.icrisat.org/8664/
http://dx.doi.org/10.1016/j.ejbt.2014.10.004
10.1016/j.ejbt.2014.10.004
 
Title Identification of groundnut (Arachis hypogaea) SSR markers suitable for multiple resistance traits QTL mapping in African germplasm
 
Creator Kanyika, B T N
Lungu, D
Mweetwa, A M
Kaimoyo, E
Njung'e, V M
Monyo, E S
Siambi, M
He, G
Prakash, C S
Zhao, Y
de Villiers, S M
 
Subject Groundnut
 
Description Background: This study aimed to identify and select informative Simple Sequence Repeat (SSR)markers that may
be linked to resistance to important groundnut diseases such as Early Leaf Spot, Groundnut Rosette Disease, rust
and aflatoxin contamination. To this end, 799 markers were screened across 16 farmer preferred and other
cultivated African groundnut varieties that are routinely used in groundnut improvement, some with known
resistance traits.
Results: The SSR markers amplified 817 loci and were graded on a scale of 1 to 4 according to successful
amplification and ease of scoring of amplified alleles. Of these, 376 markers exhibited Polymorphic
Information Content (PIC) values ranging from 0.06 to 0.86, with 1476 alleles detected at an average of 3.7
alleles per locus. The remaining 423 markers were either monomorphic or did not work well. The best
performing polymorphic markers were subsequently used to construct a dissimilarity matrix that indicated
the relatedness of the varieties in order to aid selection of appropriately diverse parents for groundnut
improvement. The closest related varieties were MGV5 and ICGV-SM 90704 and most distant were
Chalimbana and 47–10. The mean dissimilarity value was 0.51, ranging from 0.34 to 0.66.
Discussion: Of the 376 informative markers identified in this study, 139 (37%) have previously been mapped to
the Arachis genome and can now be employed in Quantitative Trait Loci (QTL) mapping and the additional
237 markers identified can be used to improve the efficiency of introgression of resistance to multiple
important biotic constraints into farmer-preferred varieties of Sub-Saharan Africa
 
Publisher Elsvier
 
Date 2015
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
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Identifier http://oar.icrisat.org/8664/1/ElectronicJournal%20ofBiotechnolgy_18_61-67_2015.pdf
Kanyika, B T N and Lungu, D and Mweetwa, A M and Kaimoyo, E and Njung'e, V M and Monyo, E S and Siambi, M and He, G and Prakash, C S and Zhao, Y and de Villiers, S M (2015) Identification of groundnut (Arachis hypogaea) SSR markers suitable for multiple resistance traits QTL mapping in African germplasm. Electronic Journal of Biotechnology, 18 (2). pp. 61-67. ISSN 0972-5849