Causes and consequences of chromatin variation between inbred mice.
Variation at regulatory elements, identified through hypersensitivity to digestion by DNase I, is believed to contribute to variation in complex traits, but the extent and consequences of this variation are poorly characterized. Analysis of terminally differentiated erythroblasts in eight inbred str...
Saved in:
| Main Authors: | , , , , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2013-06-01
|
| Series: | PLoS Genetics |
| Online Access: | https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1003570&type=printable |
| Tags: |
Add Tag
No Tags, Be the first to tag this record!
|
| _version_ | 1850224519720992768 |
|---|---|
| author | Mona Hosseini Leo Goodstadt Jim R Hughes Monika S Kowalczyk Marco de Gobbi Georg W Otto Richard R Copley Richard Mott Douglas R Higgs Jonathan Flint |
| author_facet | Mona Hosseini Leo Goodstadt Jim R Hughes Monika S Kowalczyk Marco de Gobbi Georg W Otto Richard R Copley Richard Mott Douglas R Higgs Jonathan Flint |
| author_sort | Mona Hosseini |
| collection | DOAJ |
| description | Variation at regulatory elements, identified through hypersensitivity to digestion by DNase I, is believed to contribute to variation in complex traits, but the extent and consequences of this variation are poorly characterized. Analysis of terminally differentiated erythroblasts in eight inbred strains of mice identified reproducible variation at approximately 6% of DNase I hypersensitive sites (DHS). Only 30% of such variable DHS contain a sequence variant predictive of site variation. Nevertheless, sequence variants within variable DHS are more likely to be associated with complex traits than those in non-variant DHS, and variants associated with complex traits preferentially occur in variable DHS. Changes at a small proportion (less than 10%) of variable DHS are associated with changes in nearby transcriptional activity. Our results show that whilst DNA sequence variation is not the major determinant of variation in open chromatin, where such variants exist they are likely to be causal for complex traits. |
| format | Article |
| id | doaj-art-15b7bbf556e64a6e8f69b4f366fa1d44 |
| institution | OA Journals |
| issn | 1553-7390 1553-7404 |
| language | English |
| publishDate | 2013-06-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS Genetics |
| spelling | doaj-art-15b7bbf556e64a6e8f69b4f366fa1d442025-08-20T02:05:36ZengPublic Library of Science (PLoS)PLoS Genetics1553-73901553-74042013-06-0196e100357010.1371/journal.pgen.1003570Causes and consequences of chromatin variation between inbred mice.Mona HosseiniLeo GoodstadtJim R HughesMonika S KowalczykMarco de GobbiGeorg W OttoRichard R CopleyRichard MottDouglas R HiggsJonathan FlintVariation at regulatory elements, identified through hypersensitivity to digestion by DNase I, is believed to contribute to variation in complex traits, but the extent and consequences of this variation are poorly characterized. Analysis of terminally differentiated erythroblasts in eight inbred strains of mice identified reproducible variation at approximately 6% of DNase I hypersensitive sites (DHS). Only 30% of such variable DHS contain a sequence variant predictive of site variation. Nevertheless, sequence variants within variable DHS are more likely to be associated with complex traits than those in non-variant DHS, and variants associated with complex traits preferentially occur in variable DHS. Changes at a small proportion (less than 10%) of variable DHS are associated with changes in nearby transcriptional activity. Our results show that whilst DNA sequence variation is not the major determinant of variation in open chromatin, where such variants exist they are likely to be causal for complex traits.https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1003570&type=printable |
| spellingShingle | Mona Hosseini Leo Goodstadt Jim R Hughes Monika S Kowalczyk Marco de Gobbi Georg W Otto Richard R Copley Richard Mott Douglas R Higgs Jonathan Flint Causes and consequences of chromatin variation between inbred mice. PLoS Genetics |
| title | Causes and consequences of chromatin variation between inbred mice. |
| title_full | Causes and consequences of chromatin variation between inbred mice. |
| title_fullStr | Causes and consequences of chromatin variation between inbred mice. |
| title_full_unstemmed | Causes and consequences of chromatin variation between inbred mice. |
| title_short | Causes and consequences of chromatin variation between inbred mice. |
| title_sort | causes and consequences of chromatin variation between inbred mice |
| url | https://journals.plos.org/plosgenetics/article/file?id=10.1371/journal.pgen.1003570&type=printable |
| work_keys_str_mv | AT monahosseini causesandconsequencesofchromatinvariationbetweeninbredmice AT leogoodstadt causesandconsequencesofchromatinvariationbetweeninbredmice AT jimrhughes causesandconsequencesofchromatinvariationbetweeninbredmice AT monikaskowalczyk causesandconsequencesofchromatinvariationbetweeninbredmice AT marcodegobbi causesandconsequencesofchromatinvariationbetweeninbredmice AT georgwotto causesandconsequencesofchromatinvariationbetweeninbredmice AT richardrcopley causesandconsequencesofchromatinvariationbetweeninbredmice AT richardmott causesandconsequencesofchromatinvariationbetweeninbredmice AT douglasrhiggs causesandconsequencesofchromatinvariationbetweeninbredmice AT jonathanflint causesandconsequencesofchromatinvariationbetweeninbredmice |