CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens
<p>Abstract</p> <p>Background</p> <p>The analysis of nucleic acids is limited by the availability of archival specimens and the quality and amount of the extracted material. Archived cytogenetic preparations are stored in many laboratories and are a potential source of...
| Main Authors: | , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2012-02-01
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| Series: | Molecular Cytogenetics |
| Subjects: | |
| Online Access: | http://www.molecularcytogenetics.org/content/5/1/10 |
| _version_ | 1818756110766571520 |
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| author | MacKinnon Ruth N Selan Carly Zordan Adrian Wall Meaghan Nandurkar Harshal Campbell Lynda J |
| author_facet | MacKinnon Ruth N Selan Carly Zordan Adrian Wall Meaghan Nandurkar Harshal Campbell Lynda J |
| author_sort | MacKinnon Ruth N |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The analysis of nucleic acids is limited by the availability of archival specimens and the quality and amount of the extracted material. Archived cytogenetic preparations are stored in many laboratories and are a potential source of total genomic DNA for array karyotyping and other applications. Array CGH using DNA from fixed cytogenetic preparations has been described, but it is not known whether it can be used for SNP arrays. Diagnostic bone marrow specimens taken during the assessment of hematological malignancies are also a potential source of DNA, but it is generally assumed that DNA must be extracted, or the specimen frozen, within a day or two of collection, to obtain DNA suitable for further analysis. We have assessed DNA extracted from these materials for both SNP array and array CGH.</p> <p>Results</p> <p>We show that both SNP array and array CGH can be performed on genomic DNA extracted from cytogenetic specimens stored in Carnoy's fixative, and from bone marrow which has been stored unfrozen, at 4°C, for at least 36 days. We describe a procedure for extracting a usable concentration of total genomic DNA from cytogenetic suspensions of low cellularity.</p> <p>Conclusions</p> <p>The ability to use these archival specimens for DNA-based analysis increases the potential for retrospective genetic analysis of clinical specimens. Fixed cytogenetic preparations and long-term refrigerated bone marrow both provide DNA suitable for array karyotyping, and may be suitable for a wider range of analytical procedures.</p> |
| first_indexed | 2024-12-18T05:49:50Z |
| format | Article |
| id | doaj.art-c968636cc81a43b3b60ddc764148e30a |
| institution | Directory Open Access Journal |
| issn | 1755-8166 |
| language | English |
| last_indexed | 2024-12-18T05:49:50Z |
| publishDate | 2012-02-01 |
| publisher | BMC |
| record_format | Article |
| series | Molecular Cytogenetics |
| spelling | doaj.art-c968636cc81a43b3b60ddc764148e30a2022-12-21T21:18:56ZengBMCMolecular Cytogenetics1755-81662012-02-01511010.1186/1755-8166-5-10CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimensMacKinnon Ruth NSelan CarlyZordan AdrianWall MeaghanNandurkar HarshalCampbell Lynda J<p>Abstract</p> <p>Background</p> <p>The analysis of nucleic acids is limited by the availability of archival specimens and the quality and amount of the extracted material. Archived cytogenetic preparations are stored in many laboratories and are a potential source of total genomic DNA for array karyotyping and other applications. Array CGH using DNA from fixed cytogenetic preparations has been described, but it is not known whether it can be used for SNP arrays. Diagnostic bone marrow specimens taken during the assessment of hematological malignancies are also a potential source of DNA, but it is generally assumed that DNA must be extracted, or the specimen frozen, within a day or two of collection, to obtain DNA suitable for further analysis. We have assessed DNA extracted from these materials for both SNP array and array CGH.</p> <p>Results</p> <p>We show that both SNP array and array CGH can be performed on genomic DNA extracted from cytogenetic specimens stored in Carnoy's fixative, and from bone marrow which has been stored unfrozen, at 4°C, for at least 36 days. We describe a procedure for extracting a usable concentration of total genomic DNA from cytogenetic suspensions of low cellularity.</p> <p>Conclusions</p> <p>The ability to use these archival specimens for DNA-based analysis increases the potential for retrospective genetic analysis of clinical specimens. Fixed cytogenetic preparations and long-term refrigerated bone marrow both provide DNA suitable for array karyotyping, and may be suitable for a wider range of analytical procedures.</p>http://www.molecularcytogenetics.org/content/5/1/10SNP arrayarray CGHbone marrowarchived specimensold archived specimensDNA extractionDNA analysisU937 |
| spellingShingle | MacKinnon Ruth N Selan Carly Zordan Adrian Wall Meaghan Nandurkar Harshal Campbell Lynda J CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens Molecular Cytogenetics SNP array array CGH bone marrow archived specimens old archived specimens DNA extraction DNA analysis U937 |
| title | CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens |
| title_full | CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens |
| title_fullStr | CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens |
| title_full_unstemmed | CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens |
| title_short | CGH and SNP array using DNA extracted from fixed cytogenetic preparations and long-term refrigerated bone marrow specimens |
| title_sort | cgh and snp array using dna extracted from fixed cytogenetic preparations and long term refrigerated bone marrow specimens |
| topic | SNP array array CGH bone marrow archived specimens old archived specimens DNA extraction DNA analysis U937 |
| url | http://www.molecularcytogenetics.org/content/5/1/10 |
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