2024-03-28T18:36:37Z
https://meral.edu.mm/oai
oai:meral.edu.mm:recid/49
2022-03-24T23:12:36Z
1582963567848:1582969313627
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Distribution and Frequencie of SSR Motifs in the Chrysanthemum SSR-enrich Library through 454 Pyrosequencing Technology
Moe Kyaw Thu
Sang-Bog Ra
Gi-An Lee
Myung-Chul Lee
Ha-Seung Park
Dong-Chan Kim
Cheol-Hwi Lee
Hyun-Gu Choi
Nak-Beom Jeon
Byung-Jun Choi
Ji-Youn Jung
Kyu-Min Lee
Yong-Jin Park
Chrysanthemums, often called mums or chrysanths, belong to the genus Chrysanthemum,
which includes about 30 species of perennial flowering plants in the family Asteraceae. We extracted
DNA from Dendranthema grandiflorum (‘Smileball’) to construct a simple sequence repeat (SSR)-
enriched library, using a modified biotin-streptavidin capture method. GS FLX (Genome Sequencer
FLX System which provides the flexibility to perform the broad range of applications) sequencing (at the
1/8 run specification) resulted in 18.83 mega base pairs (Mbp) with an average read length of 280.06 bp.
Sequence analyses of all SSR-containing clones revealed a predominance of di-nucleotide motifs (16,375,
61.5%) followed by tri-nucleotide motifs (6,616, 24.8%), tetra-nucleotide motifs (1,674, 6.3%), pentanucleotide motifs (1,283, 4.8%), and hexa-nucleotide motifs (693, 2.6%). Among the di-nucleotide motifs,
the AC/CA class was the most frequently identified (93.5% of all di-nucleotide types), followed by the
GA/AG class (6.1%), the AT/TA class (0.4%), and the CG/GC class (0.03%). When we analyzed the distribution of different repeat motifs and their respective numbers of repeats, regardless of the motif class,
of 100 SSR markers, we found a higher number of di-nucleotide motifs with 70 to 80 repeats; we also
found two di-nucleotide motifs with 83 and 89 repeats, respectively, but their product lengths were
within optimum size (297 and 300 bp). In future work, we will screen for polymorphisms of possible
primer pairs. The results will provide a useful tool for assessing molecular diversity and investigating the
population structure among and within Chrysanthemum species.
2011
http://hdl.handle.net/20.500.12678/0000000049
https://meral.edu.mm/records/49