Ty1-copia retrotransposon-based SSAP marker development in cashew (Anacardium occidentale L.)

• Published in: Theoretical and applied genetics Vol. 110; no. 7; pp. 1195 - 1202
• Main Authors: Syed, N.H, Sureshsundar, S, Wilkinson, M.J, Bhau, B.S, Cavalcanti, J.J.V, Flavell, A.J
• Format: Journal Article
• Language: English
• Published: Germany Springer Nature B.V 01-05-2005
• Subjects: Amino Acid Sequence; amplified fragment length polymorphism; Anacardium - genetics; Anacardium occidentale; Base Sequence; cashew nuts; DNA Primers; Gene Components; genetic markers; Genetic Markers - genetics; genetic polymorphism; Molecular Sequence Data; Nucleic Acid Amplification Techniques; Polymerase Chain Reaction; Polymorphism; Polymorphism, Genetic; Polymorphism, Restriction Fragment Length; Retroelements - genetics; retrotransposons; Sequence Analysis, DNA; sequence-specific amplification polymorphism; terminal repeat sequences; Terminal Repeat Sequences - genetics
• ISSN: 0040-5752; 1432-2242
• DOI: 10.1007/s00122-005-1948-1

The most popular retrotransposon-based molecular marker system in use at the present time is the sequence-specific amplification polymorphism (SSAP) system. This system exploits the insertional polymorphism of long terminal repeat (LTR) retrotransposons around the genome. Because the LTR sequence is used to design primers for this method, its successful application requires sequence information from the terminal region of the mobile elements. In this study, two LTR sequences were isolated from the cashew genome and used successfully to develop SSAP marker systems. These were shown to have higher levels of polymorphism than amplified fragment length polymorphic markers for this species.