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Genomic analysis of Drosophila chromosome underreplication reveals a link between replication control and transcriptional territories.


ABSTRACT: In Drosophila polytene chromosomes, most late-replicating regions remain underreplicated. A loss-of-function mutant of the suppressor of underreplication [Su(UR)] gene suppresses underreplication (UR), whereas extra copies of this gene enhance the level and number of regions showing UR. By combining DNA microarray analysis with manipulation of the number of Su(UR) gene copies, we achieved genomic-scale molecular identification of 1,036 genes that are arranged in clusters located in 52 UR chromosomal regions. These regions overlap extensively (96%) but are not completely identical with late-replicating regions of mitotically dividing Kc cells in culture. Reanalysis of published gene expression profiles revealed that genomic regions defined by replication properties include clusters of coordinately expressed genes. Genomic regions that are UR in polytene chromosomes and late replicated in Kc cell chromosomes show a particularly common association with transcriptional territories that are expressed in testis/males but not ovary/females or embryos. An attractive hypothesis for future testing is that factors involved in replication control, such as SU(UR), may interact physically with those involved in epigenetic silencing of transcription territories.

SUBMITTER: Belyakin SN 

PROVIDER: S-EPMC1149430 | biostudies-literature | 2005 Jun

REPOSITORIES: biostudies-literature

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Genomic analysis of Drosophila chromosome underreplication reveals a link between replication control and transcriptional territories.

Belyakin Stepan N SN   Christophides George K GK   Alekseyenko Artyom A AA   Kriventseva Evgenia V EV   Belyaeva Elena S ES   Nanayev Roman A RA   Makunin Igor V IV   Kafatos Fotis C FC   Zhimulev Igor F IF  

Proceedings of the National Academy of Sciences of the United States of America 20050531 23


In Drosophila polytene chromosomes, most late-replicating regions remain underreplicated. A loss-of-function mutant of the suppressor of underreplication [Su(UR)] gene suppresses underreplication (UR), whereas extra copies of this gene enhance the level and number of regions showing UR. By combining DNA microarray analysis with manipulation of the number of Su(UR) gene copies, we achieved genomic-scale molecular identification of 1,036 genes that are arranged in clusters located in 52 UR chromos  ...[more]

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