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논문 기본 정보
- 자료유형
- 학술저널
- 저자정보
- 발행연도
- 2017.1
- 수록면
- 25 - 35 (11page)
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초록· 키워드
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Korean ginseng (Panax ginseng) is a well-known valuable medicinal plant with excellent therapeutic effects, however its complex genome structure has not been elucidated yet. To understand its genome structure, we obtained ten ginseng bacterial artificial chromosome (BAC) clone sequences by single-molecule real-time (SMRT) sequencing platform using a pooled DNA of the BAC clones. Out of the ten BAC clones, nine were completely assembled without any gap and one remained a single gap. The total length of BAC clone sequences was 1,163,364 bp. Sophisticated sequence analysis revealed that the 89.7% of the sequences are high copy repeat regions and the remaining 10.3% are non-repeat regions. Eleven protein-coding genes were identified in the non-repeat regions. Most of the repeat regions show more than 1,000 copies and complex structure of various repetitive elements. Ty3/Gypsy family long terminal repeat retrotransposons (LTR-RTs) are predominant repeats occupying 46.9% of the 1,163-kbp sequence. We identified six novel LTR-RTs and their insertion time. Fluorescence in situ hybridization (FISH) analysis demonstrated that PgDel2 and PgDel5 elements had a subgenome-biased distribution. Collectively, our analysis reveals that ginseng genome has very complex genome structure with abundant repetitive elements and rare gene frequency.
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참고문헌 (46)
참고문헌 신청
Bang KH / 2010 / Construction of genomic DNA library of Korean ginseng (Panax ginseng C. A. MEYER) and development of sequence-tagged sites / Biol. Pharm. Bull 33:1579~1588
Bennett HW / 2016 / Insights into telomerase action from high-throughput sequencing of S. pombe telomeres / bioRxiv :047837
Benson G. / 1999 / Tandem repeats finder: a program to analyze DNA sequences / Nucl. Acids. Res 27:573~580
Chin CS / 2013 / Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data / Nat. Methods 10:563~569
Choi HI / 2013 / Evolutionary relationship of Panax ginseng and P. quinquefolius inferred from sequencing and comparative analysis of expressed sequence tags / Genet. Resour. Crop Ev 60:1377~1387
Bennett HW / 2016 / Insights into telomerase action from high-throughput sequencing of S. pombe telomeres / bioRxiv :047837
Benson G. / 1999 / Tandem repeats finder: a program to analyze DNA sequences / Nucl. Acids. Res 27:573~580
Chin CS / 2013 / Nonhybrid, finished microbial genome assemblies from long-read SMRT sequencing data / Nat. Methods 10:563~569
Choi HI / 2013 / Evolutionary relationship of Panax ginseng and P. quinquefolius inferred from sequencing and comparative analysis of expressed sequence tags / Genet. Resour. Crop Ev 60:1377~1387
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