A BAC-Based Physical Map of Zhikong Scallop (Chlamys farreri Jones et Preston)

doi:10.1371/journal.pone.0027612

IOCAS-IR > 实验海洋生物学重点实验室

	A BAC-Based Physical Map of Zhikong Scallop (Chlamys farreri Jones et Preston)
	Zhang, Xiaojun 1; Zhao, Cui 1,2; Huang, Chao1,2 ; Duan, Hu 1,2; Huan, Pin1 ; Liu, Chengzhang 1; Zhang, Xiuying 1,2; Zhang, Yang 3; Li, Fuhua 1; Zhang, Hong-Bin 3; Xiang, Jianhai1
	2011-11-16
发表期刊	PLOS ONE
ISSN	1932-6203
卷号	6 期号:11 页码:e27612
文章类型	Article
摘要	Zhikong scallop (Chlamys farreri) is one of the most economically important aquaculture species in China. Physical maps are crucial tools for genome sequencing, gene mapping and cloning, genetic improvement and selective breeding. In this study, we have developed a genome-wide, BAC-based physical map for the species. A total of 81,408 clones from two BAC libraries of the scallop were fingerprinted using an ABI 3130xl Genetic Analyzer and a fingerprinting kit developed in our laboratory. After data processing, 63,641 (similar to 5.8x genome coverage) fingerprints were validated and used in the physical map assembly. A total of 3,696 contigs were assembled for the physical map. Each contig contained an average of 10.0 clones, with an average physical size of 490 kb. The combined total physical size of all contigs was 1.81 Gb, equivalent to approximately 1.5 fold of the scallop haploid genome. A total of 10,587 BAC end sequences (BESs) and 167 markers were integrated into the physical map. We evaluated the physical map by overgo hybridization, BAC-FISH (fluorescence in situ hybridization), contig BAC pool screening and source BAC library screening. The results have provided evidence of the high reliability of the contig physical map. This is the first physical map in mollusc; therefore, it provides an important platform for advanced research of genomics and genetics, and mapping of genes and QTL of economical importance, thus facilitating the genetic improvement and selective breeding of the scallop and other marine molluscs.; Zhikong scallop (Chlamys farreri) is one of the most economically important aquaculture species in China. Physical maps are crucial tools for genome sequencing, gene mapping and cloning, genetic improvement and selective breeding. In this study, we have developed a genome-wide, BAC-based physical map for the species. A total of 81,408 clones from two BAC libraries of the scallop were fingerprinted using an ABI 3130xl Genetic Analyzer and a fingerprinting kit developed in our laboratory. After data processing, 63,641 (similar to 5.8x genome coverage) fingerprints were validated and used in the physical map assembly. A total of 3,696 contigs were assembled for the physical map. Each contig contained an average of 10.0 clones, with an average physical size of 490 kb. The combined total physical size of all contigs was 1.81 Gb, equivalent to approximately 1.5 fold of the scallop haploid genome. A total of 10,587 BAC end sequences (BESs) and 167 markers were integrated into the physical map. We evaluated the physical map by overgo hybridization, BAC-FISH (fluorescence in situ hybridization), contig BAC pool screening and source BAC library screening. The results have provided evidence of the high reliability of the contig physical map. This is the first physical map in mollusc; therefore, it provides an important platform for advanced research of genomics and genetics, and mapping of genes and QTL of economical importance, thus facilitating the genetic improvement and selective breeding of the scallop and other marine molluscs.
学科领域	Life Sciences & Biomedicine - Other Topics
DOI	10.1371/journal.pone.0027612
URL	查看原文
收录类别	SCI
语种	英语
WOS记录号	WOS:000297555400071
引用统计	被引频次：19[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/11737
专题	实验海洋生物学重点实验室
作者单位	1.Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing, Peoples R China 3.Texas A&M Univ, Dept Soil & Crop Sci, College Stn, TX 77843 USA
第一作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Zhang, Xiaojun,Zhao, Cui,Huang, Chao,et al. A BAC-Based Physical Map of Zhikong Scallop (Chlamys farreri Jones et Preston)[J]. PLOS ONE,2011,6(11):e27612.
APA	Zhang, Xiaojun.,Zhao, Cui.,Huang, Chao.,Duan, Hu.,Huan, Pin.,...&Xiang, Jianhai.(2011).A BAC-Based Physical Map of Zhikong Scallop (Chlamys farreri Jones et Preston).PLOS ONE,6(11),e27612.
MLA	Zhang, Xiaojun,et al."A BAC-Based Physical Map of Zhikong Scallop (Chlamys farreri Jones et Preston)".PLOS ONE 6.11(2011):e27612.

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