A Clone-Array Pooled Shotgun Strategy for Sequencing Large Genomes

  1. Wei-Wen Cai1,2,
  2. Rui Chen1,2,
  3. Richard A. Gibbs1,2,5, and
  4. Allan Bradley1,3,4
  1. 1Department of Molecular and Human Genetics, 2Human Genome Sequencing Center, and 3Howard Hughes Medical Institute, Baylor College of Medicine, Houston, Texas 77030, USA

Abstract

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.

Footnotes

  • ↵4 Present address: Sanger Centre, Hinxton, UK.

  • ↵5 Corresponding author.

  • E-MAIL agibbs{at}bcm.tmc.edu; FAX (713) 798-5741.

  • Article and publication are at http://www.genome.org/cgi/doi/10.1101/gr.198101.

| Table of Contents

This Article

  1. doi: 10.1101/gr.198101 Genome Res. 11: 1619-1623 Cold Spring Harbor Laboratory Press

Article Category

Share

Preprint Server



Current Issue

  1. March 2024, 34 (3)
  1. Current Issue
  1. Alert me to new issues of Genome Research