Commentary : Consistent production of cost-effective longSAGE libraries

Crawford, Allison Clare, White, Jessica, Bundock, Peter, Cordeiro, Glovanni, McIntosh, Shane, Pacey-Miller, Tony, Rooke, Lee and Henry, Robert James (2005) Commentary : Consistent production of cost-effective longSAGE libraries. Plant Molecular Biology Reporter, 23 2: 139-143. doi:10.1007/BF02772704


Author Crawford, Allison Clare
White, Jessica
Bundock, Peter
Cordeiro, Glovanni
McIntosh, Shane
Pacey-Miller, Tony
Rooke, Lee
Henry, Robert James
Title Commentary : Consistent production of cost-effective longSAGE libraries
Journal name Plant Molecular Biology Reporter   Check publisher's open access policy
ISSN 0735-9640
1572-9818
Publication date 2005-06
Sub-type Critical review of research, literature review, critical commentary
DOI 10.1007/BF02772704
Volume 23
Issue 2
Start page 139
End page 143
Total pages 5
Place of publication New York, NY, United States
Publisher Springer New York LLC
Language eng
Formatted abstract
Serial analysis of gene expression (SAGE) and related techniques are gaining popularity as tools for exploring expression of plant genes but remain suboptimal because of smaller-than-expected average concatemer sizes. The presence of low-molecular-weight contaminants in high-molecular-weight concatemer fractions reduces the average size of cloned fragments, thereby limiting the viability of high-throughput sequencing methods. Implementation of an additional digestion step to promote formation of linear concatemer fragments appears to reduce the proportion of contaminants indirectly, but with variable results. We explored the effect of initial ditag polymerase chain reaction (PCR) quantity on the average size of cloned concatemers from the greater than 1000-bp fraction. The quantity of PCR material used was found to have a strong influence on the frequency of low-molecular-weight contaminants within this fraction, which has important implications for reducing costs associated with high-throughput sequencing of concatemer clones. © 2005 International Society for Plant Molecular Biology.
Keyword Barley
Cost-effective
Gene expression
Modification
Protocol
Transcript abundance
Transcriptome
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown

Document type: Journal Article
Sub-type: Critical review of research, literature review, critical commentary
Collections: Queensland Alliance for Agriculture and Food Innovation
ERA 2012 Admin Only
 
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Created: Wed, 09 Feb 2011, 12:03:14 EST