Characteristics of Microsatellite in Camellia saluenensis by High-throughput Sequencing

doi:10.7525/j.issn.1673-5102.2019.01.018

Abstract

Abstract: Leaves sample of Camellia saluenensis Stapf ex Bean was sequenced with high-throughput sequencing technology(Illumina Hiseq 2000). In total 140 996 transcripts of C.saluenensis were screened using MISA software. The 32 696 SSRs were identified, and the frequency of SSR was 23.2% and mean distribution density was dinucleotide 32.02 kB. The di-nucleotide repeats were the highest, followed by tri-nucleotide and mono-nucleotide repeat types. The tetra-nucleotide, penta-nucleotide and hexa-nucleotide were all less than 1%. Among the mononucleotide repeats, the A/T repeats motifs were the highest frequency(10.92%). AG/CT was the most frequent repeat motifs in di-nucleotide repeats(49.72%), followed by AT/AT and AC/GT. CG/CG were minimum. AAG/CTT repeats motifs was the highest in tri-nucleotide followed by ACC/GGT, ATC/ATG and AGG/CCT, while CCG/GGC, ACT/AGT and ACG/CGT were lowest(<1%). The repeat motifs were very few in tetra-nucleotide, petra-nucleotide and hexa-nucleotide and had no obvious differences. The microsatellite number in C.saluenensis decreased with the increased number of repeats and length of repeats.

Key words: Camellia saluenensis Stapf ex Bean, Transcriptome, microsatellite, high-throughput sequencing

CLC Number:

S685.14

WANG Da-Wei, ZHOU Fan, SHEN Bing-Qi, WANG Lian-Chun. Characteristics of Microsatellite in Camellia saluenensis by High-throughput Sequencing[J]. Bulletin of Botanical Research, 2019, 39(1): 148-155.

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