SINGLE NUCLEOTIDE POLYMORPHISM MARKER APPLICATION FOR GENETIC DIVERSITY STUDY OF LOCAL TOMATO GERMPLASM (Solanum lycopersicum) IN INDONESIA
The existence of local Indonesian tomatoes as genetic resources began to disappear replaced by hybrid varieties. Local tomato in Indonesia known as rampai/ranti (cherry) tomato, mawar (ribbed) tomato and apple (smooth) tomato. Tomatoes from the same region are often planted in other areas with diffe...
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| Format: | Theses |
| Language: | Indonesia |
| Online Access: | https://digilib.itb.ac.id/gdl/view/23550 |
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| Institution: | Institut Teknologi Bandung |
| Language: | Indonesia |
| Summary: | The existence of local Indonesian tomatoes as genetic resources began to disappear replaced by hybrid varieties. Local tomato in Indonesia known as rampai/ranti (cherry) tomato, mawar (ribbed) tomato and apple (smooth) tomato. Tomatoes from the same region are often planted in other areas with different names. Genetic diversity characterization and identification of tomatoes is required in the development of new varieties. This study aims to characterize the local Indonesian tomato germplasm collection of PT East West Seed Indonesia using morphological characters, internal transcribed spacer (ITS) and single nucleotide polymorphism (SNP) molecular markers. Characterization was conducted to observe the diversity of 40 local Indonesian tomato germplasm in comparison with 8 tomatoes resulted from breeding. A total of 24 morphological characters, ITS markers and 22 SNP molecular markers were used in the test. The phylogenetic tree constructed with MEGA 7.0.14 program shows that the germplasm tested is one species of Solanum lycopersicum based on the ITS sequence. Two subpopulations of germplasm were developed with DARwin 6.0.14 based on morphological characters: subpopulation I containing small fruit (cherry tomatoes) and subpopulation II containing big fruit (ribbed and smooth tomatoes) and small fruit with wide diameter the columella. Ten SNP markers with 0.293 to 0.456 polymorphism information content (PIC) values were informative for tomato fingerprint and could differentiate germplasm into three groups: two small cherry tomato groups and one big tomato group. Ten SNP markers are medium informative for tomato fingerprint test and could help the breeding process: SLM45, SLM46, SLM48, SLM50, lc11-2, sol4100-4, sol361882, sol34202-3, sol34205-3 and sol30111-1. The SNP markers are more informative for studying genetic diversity in cherry tomatoes and mawar tomatoes and can be used on fruit size and number of fruit locules selection in the breeding process. |
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