NDLI: Ty1-copia retrotransposon-based S-SAP (sequence-specific amplified polymorphism) for genetic analysis of sweetpotato

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Ty1-copia retrotransposon-based S-SAP (sequence-specific amplified polymorphism) for genetic analysis of sweetpotato

Content Provider	Springer Nature Link
Author	Berenyi, M. Gichuki, S. Schmidt, J. Burg, K.
Copyright Year	2002
Abstract	RNaseH-LTR regions of the Ty1-copia retrotransposon were amplified and cloned from the sweetpotato genome using RNaseH gene-specific degenerate primers and restriction site-specific adaptor primers. Ninety clones out of the 240 sequenced were identified with a variable degree of homology to the Ty1-copia RNaseH gene. Three (Str6, Str85, Str187) of the 90 had characteristic RNaseH-gene, stop codon, polypurine track and putative 3′ LTR sequence elements. Analysis of nine selected genotypes representing Africa, South and Central America, as well as Papua New Guinea, by the established S-SAP technique revealed that the majority of the Ty1-copia transposon insertions were unique (33 to 64%) and only few common bands were detected. Analysis of 177 East African varieties further supported this finding and showed that most of the copia retrotransposon locations were represented only by some genotypes. Considering that sweetpotato has been present in the East African region for only about 500 years, and the number of genotypes introduced was possibly limited, a surprisingly high level of genetic variability of the transposon insertion sites was detected. These findings may indicate the putative activity of the retrotransposon in sweetpotato in the recent past. Comparison of the copia retrotransposon insertion-based S-SAP method to AFLP and RAPD showed that the majority of the markers were more polymorphic (97–99%) in the case of S-SAP in comparison to AFLP (70–90%) and RAPD (88%). Thus demonstrating the transposon-based molecular marker system was very efficient for genotyping.
Starting Page	862
Ending Page	869
Page Count	8
File Format	PDF
ISSN	00405752
Journal	Theoretical and Applied Genetics
Volume Number	105
Issue Number	6
e-ISSN	14322242
Language	English
Publisher	Springer-Verlag
Publisher Date	2002-07-30
Publisher Place	Berlin/Heidelberg
Access Restriction	One Nation One Subscription (ONOS)
Content Type	Text
Resource Type	Article
Subject	Genetics Medicine Biotechnology Agronomy and Crop Science

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