A comprehensive genome-wide map of autonomously replicating sequences in a naive genome.
Eukaryotic chromosomes initiate DNA synthesis from multiple replication origins. The machinery that initiates DNA synthesis is highly conserved, but the sites where the replication initiation proteins bind have diverged significantly. Functional comparative genomics is an obvious approach to study t...
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doaj-910ede6ff9a340368023a5016bf001882020-11-24T21:47:52ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042010-05-0165e100094610.1371/journal.pgen.1000946A comprehensive genome-wide map of autonomously replicating sequences in a naive genome.Ivan LiachkoAnand BhaskarChanmi LeeShau Chee Claire ChungBik-Kwoon TyeUri KeichEukaryotic chromosomes initiate DNA synthesis from multiple replication origins. The machinery that initiates DNA synthesis is highly conserved, but the sites where the replication initiation proteins bind have diverged significantly. Functional comparative genomics is an obvious approach to study the evolution of replication origins. However, to date, the Saccharomyces cerevisiae replication origin map is the only genome map available. Using an iterative approach that combines computational prediction and functional validation, we have generated a high-resolution genome-wide map of DNA replication origins in Kluyveromyces lactis. Unlike other yeasts or metazoans, K. lactis autonomously replicating sequences (KlARSs) contain a 50 bp consensus motif suggestive of a dimeric structure. This motif is necessary and largely sufficient for initiation and was used to dependably identify 145 of the up to 156 non-repetitive intergenic ARSs projected for the K. lactis genome. Though similar in genome sizes, K. lactis has half as many ARSs as its distant relative S. cerevisiae. Comparative genomic analysis shows that ARSs in K. lactis and S. cerevisiae preferentially localize to non-syntenic intergenic regions, linking ARSs with loci of accelerated evolutionary change.http://europepmc.org/articles/PMC2869322?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Ivan Liachko Anand Bhaskar Chanmi Lee Shau Chee Claire Chung Bik-Kwoon Tye Uri Keich |
spellingShingle |
Ivan Liachko Anand Bhaskar Chanmi Lee Shau Chee Claire Chung Bik-Kwoon Tye Uri Keich A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. PLoS Genetics |
author_facet |
Ivan Liachko Anand Bhaskar Chanmi Lee Shau Chee Claire Chung Bik-Kwoon Tye Uri Keich |
author_sort |
Ivan Liachko |
title |
A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
title_short |
A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
title_full |
A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
title_fullStr |
A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
title_full_unstemmed |
A comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
title_sort |
comprehensive genome-wide map of autonomously replicating sequences in a naive genome. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS Genetics |
issn |
1553-7390 1553-7404 |
publishDate |
2010-05-01 |
description |
Eukaryotic chromosomes initiate DNA synthesis from multiple replication origins. The machinery that initiates DNA synthesis is highly conserved, but the sites where the replication initiation proteins bind have diverged significantly. Functional comparative genomics is an obvious approach to study the evolution of replication origins. However, to date, the Saccharomyces cerevisiae replication origin map is the only genome map available. Using an iterative approach that combines computational prediction and functional validation, we have generated a high-resolution genome-wide map of DNA replication origins in Kluyveromyces lactis. Unlike other yeasts or metazoans, K. lactis autonomously replicating sequences (KlARSs) contain a 50 bp consensus motif suggestive of a dimeric structure. This motif is necessary and largely sufficient for initiation and was used to dependably identify 145 of the up to 156 non-repetitive intergenic ARSs projected for the K. lactis genome. Though similar in genome sizes, K. lactis has half as many ARSs as its distant relative S. cerevisiae. Comparative genomic analysis shows that ARSs in K. lactis and S. cerevisiae preferentially localize to non-syntenic intergenic regions, linking ARSs with loci of accelerated evolutionary change. |
url |
http://europepmc.org/articles/PMC2869322?pdf=render |
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