DICP OpenIR
Subject Area物理化学
The first insight into the Taxus genome via fosmid library construction and end sequencing
Hao, DaCheng1; Yang, Ling2; Xiao, PeiGen3; Yang L(杨凌)
KeywordTaxus Mairei Fosmid Genomic Library Fosmid End Sequences Repetitive Sequences Comparative Genomics
Source PublicationMOLECULAR GENETICS AND GENOMICS
2011-03-01
ISSN待补充
DOI10.1007/s00438-010-0598-4
Volume285Issue:3Pages:197-205
Indexed BySCI
SubtypeArticle
Department18
Funding Project1806
Contribution Rank2,2
WOS HeadingsScience & Technology ; Life Sciences & Biomedicine
WOS SubjectBiochemistry & Molecular Biology ; Genetics & Heredity
WOS Research AreaBiochemistry & Molecular Biology ; Genetics & Heredity
WOS KeywordSTRUCTURAL VARIATION ; MOLECULAR EVOLUTION ; INITIAL ANALYSIS ; DNA ; CHLOROPLAST ; IDENTIFICATION ; PACLITAXEL ; TAXACEAE ; GENES ; RICE
AbstractThe first insight into the Taxus genome via fosmid library construction and end sequencing; 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.
Language英语
WOS IDWOS:000287665100002
Citation statistics
Cited Times:21[WOS]   [WOS Record]     [Related Records in WOS]
Document Type期刊论文
Identifierhttp://cas-ir.dicp.ac.cn/handle/321008/115183
Collection中国科学院大连化学物理研究所
Corresponding AuthorYang L(杨凌)
Affiliation1.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
GB/T 7714
Hao, DaCheng,Yang, Ling,Xiao, PeiGen,et al. The first insight into the Taxus genome via fosmid library construction and end sequencing[J]. MOLECULAR GENETICS AND GENOMICS,2011,285(3):197-205.
APA Hao, DaCheng,Yang, Ling,Xiao, PeiGen,&杨凌.(2011).The first insight into the Taxus genome via fosmid library construction and end sequencing.MOLECULAR GENETICS AND GENOMICS,285(3),197-205.
MLA Hao, DaCheng,et al."The first insight into the Taxus genome via fosmid library construction and end sequencing".MOLECULAR GENETICS AND GENOMICS 285.3(2011):197-205.
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