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学科主题: 物理化学
题名: The first insight into the Taxus genome via fosmid library construction and end sequencing
作者: Hao, DaCheng1;  Yang, Ling2;  Xiao, PeiGen3
通讯作者: 杨凌
关键词: Taxus mairei ;  Fosmid genomic library ;  Fosmid end sequences ;  Repetitive sequences ;  Comparative genomics
刊名: MOLECULAR GENETICS AND GENOMICS
发表日期: 2011-03-01
DOI: 10.1007/s00438-010-0598-4
卷: 285, 期:3, 页:197-205
收录类别: SCI
文章类型: Article
部门归属: 18
项目归属: 1806
产权排名: 2,2
WOS标题词: Science & Technology ;  Life Sciences & Biomedicine
类目[WOS]: Biochemistry & Molecular Biology ;  Genetics & Heredity
摘要: The first insight into the Taxus genome via fosmid library construction and end sequencing
研究领域[WOS]: Biochemistry & Molecular Biology ;  Genetics & Heredity
英文摘要: Taxus mairei is a critically endangered and commercially important cultured medicinal gymnosperm in China and forms an important medicinal resource, but the research of its genome is absent. In this study, we constructed a T. mairei fosmid library and analyzed the fosmid end sequences to provide a preliminary assessment of the genome. The library consists of one million clones with an average insert size of about 39 kb, amounting to 3.9 genome equivalents. Fosmid stability assays indicate that T. mairei DNA was stable during propagation in the fosmid system. End sequencing of both 5' and 3' ends of 968 individual clones generated 1,923 sequences after trimming, with an average sequence length of 839 bp. BLASTN searches of the nr and EST databases of GenBank and BLASTX searches of the nr database resulted in 560 (29.1%) significant hits (E < e(-5)). Repetitive sequences analysis revealed that 20.8% of end sequences are repetitive elements, which were composed of retroelements, DNA transposons, satellites, simple repeats, and low complexity sequences. The distribution pattern of various repeat types was found to be more similar to the gymnosperm Pinus and Picea than to the monocot and dicot. The satellites of T. mairei were significantly longer than those of P. taeda and P. glauca. The tetra-nucleotide repeats of T. mairei were much longer than those of P. glauca and P. taeda. The fosmid library and the fosmid end sequences, for the first time, will serve as a useful resource for large-scale genome sequencing, physical mapping, SSR marker development and positional cloning, and provide a better understanding of the Taxus genome.
关键词[WOS]: STRUCTURAL VARIATION ;  MOLECULAR EVOLUTION ;  INITIAL ANALYSIS ;  DNA ;  CHLOROPLAST ;  IDENTIFICATION ;  PACLITAXEL ;  TAXACEAE ;  GENES ;  RICE
语种: 英语
WOS记录号: WOS:000287665100002
Citation statistics: 
内容类型: 期刊论文
URI标识: http://cas-ir.dicp.ac.cn/handle/321008/115183
Appears in Collections:中国科学院大连化学物理研究所_期刊论文

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作者单位: 1.Dalian Jiaotong Univ, Inst Biotechnol, Dalian 116028, Peoples R China
2.Chinese Acad Sci, Dalian Inst Chem Phys, Dalian 116023, Peoples R China
3.Chinese Acad Med Sci, Inst Med Plant Dev, Beijing 100193, Peoples R China

Recommended Citation:
Hao, DaCheng,Yang, Ling,Xiao, PeiGen. The first insight into the Taxus genome via fosmid library construction and end sequencing[J]. MOLECULAR GENETICS AND GENOMICS,2011,285(3):197-205.
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