A Clone-Array Pooled Shotgun Strategy for Sequencing Large Genomes | Zendy

WeiWen Cai | Zendy; Rui Chen | Zendy; Richard A. Gibbs | Zendy; Allan Bradley | Zendy

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A Clone-Array Pooled Shotgun Strategy for Sequencing Large Genomes

Author(s) -

WeiWen Cai,

Rui Chen,

Richard A. Gibbs,

Allan Bradley

Publication year - 2001

Publication title -

genome research

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 9.556

H-Index - 297

eISSN - 1549-5469

pISSN - 1088-9051

DOI - 10.1101/gr.198101

Subject(s) - shotgun sequencing , biology , shotgun , genome , hybrid genome assembly , computational biology , sequence assembly , genetics , sequence tagged site , contig , clone (java method) , dna sequencing , whole genome sequencing , genomic library , massive parallel sequencing , pooling , deep sequencing , gene , base sequence , gene mapping , computer science , chromosome , artificial intelligence , gene expression , transcriptome

A simplified strategy for sequencing large genomes is proposed. Clone-Array Pooled Shotgun Sequencing (CAPSS) is based on pooling rows and columns of arrayed genomic clones, for shotgun library construction. Random sequences are accumulated, and the data are processed by sequential comparison of rows and columns to assemble the sequence of clones at points of intersection. Compared with either a clone-by-clone approach or whole-genome shotgun sequencing, CAPSS requires relatively few library constructions and only minimal computational power for a complete genome assembly. The strategy is suitable for sequencing large genomes for which there are no sequence-ready maps, but for which relatively high resolution STS maps and highly redundant BAC libraries are available. It is immediately applicable to the sequencing of mouse, rat, zebrafish, and other important genomes, and can be managed in a cooperative fashion to take advantage of a distributed international DNA sequencing capacity.

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