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Fosmid Library Construction and Initial Analysis of End Sequences in Zhikong Scallop (Chlamys farreri)

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Abstract

Zhikong scallop (Chlamys farreri Jones et Preston, 1904) is one of the most commercially important bivalves in China, but research on its genome is underdeveloped. In this study, we constructed the first Zhikong scallop fosmid library, and analyzed the fosmid end sequences to provide a preliminary assessment of the genome. The library consists of 133,851 clones with an average insert size of about 40 kb, amounting to 4.3 genome equivalents. Fosmid stability assays indicate that Zhikong scallop DNA was stable during propagation in the fosmid system. Library screening with two genes and seven microsatellite markers yielded between two and eight positive clones, and none of those tested was absent from the library. End-sequencing of 480 individual clones generated 828 sequences after trimming, with an average sequence length of 624 bp. BLASTN searches of the nr and EST databases of GenBank and BLASTX searches of the nr database resulted in 213 (25.72%) and 44 (5.31%) significant hits (E < e−5), respectively. Repetitive sequences analysis resulted in 375 repeats, accounting for 15.84% of total length, which were composed of interspersed repetitive sequences, tandem repeats, and low-complexity sequences. The fosmid library, in conjunction with the fosmid end sequences, will serve as a useful resource for physical mapping and positional cloning, and provide a better understanding of the Zhikong scallop genome.

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Acknowledgements

This work is supported by The National High Technology Research and Development Program of China (2006AA10A408; 20060110A4013), The National Program for Sci-Tech Basic Conditions Platform Construction (2005DKA30470), The Project-sponsored by SRF ROCS, SEM, and Specialized Research Fund for the Doctoral Program of Higher Education (20060423015).

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Authors and Affiliations

  1. Laboratory of Marine Genetics and Breeding (MGB), Division of Life Science and Technology, Ocean University of China, Qingdao, 266003, People’s Republic of China

    Lingling Zhang, Zhenmin Bao, Jie Cheng, Hui Li, Xiaoting Huang, Shi Wang,  Can Zhang & Jingjie Hu

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  1. Lingling Zhang
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  2. Zhenmin Bao
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  3. Jie Cheng
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  4. Hui Li
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  5. Xiaoting Huang
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  6. Shi Wang
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  7. Can Zhang
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  8. Jingjie Hu
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Correspondence to Zhenmin Bao.

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Zhang, L., Bao, Z., Cheng, J. et al. Fosmid Library Construction and Initial Analysis of End Sequences in Zhikong Scallop (Chlamys farreri). Mar Biotechnol 9, 606–612 (2007). https://doi.org/10.1007/s10126-007-9014-4

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  • DOI: https://doi.org/10.1007/s10126-007-9014-4

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