Nucleic Acids Research, Vol 25, Issue 15 2960-2966, Copyright © 1997 by Oxford University Press
SL Chissoe, MA Marra, L Hillier, R Brinkman, RK Wilson and RH Waterston
Representation of subcloned Caenorhabditis elegans and human DNA sequences
in both M13 and pUC sequencing vectors was determined in the context of
large scale genomic sequencing. In many cases, regions of subclone
under-representation correlated with the occurrence of repeat sequences,
and in some cases the under-representation was orientation specific.
Factors which affected subclone representation included the nature and
complexity of the repeat sequence, as well as the length of the repeat
region. In some but not all cases, notable differences between the M13 and
pUC subclone distributions existed. However, in all regions lacking one
type of subclone (either M13 or pUC), an alternate subclone was identified
in at least one orientation. This suggests that complementary use of M13
and pUC subclones would provide the most comprehensive subclone coverage of
a given genomic sequence.
ARTICLES
Representation of cloned genomic sequences in two sequencing vectors: correlation of DNA sequence and subclone distribution
Department of Genetics and Genome Sequencing Center, Washington University School of Medicine, St Louis, MO 63108, USA. schissoe@watson.wustl.edu
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