Anchor primer associated problems in differential display reverse transcription polymerase chain reaction

Article

Chen, Yihua, Wang, Bin, Weining, Song and Daggard, Grant. 2004. "Anchor primer associated problems in differential display reverse transcription polymerase chain reaction." Analytical Biochemistry. 329 (1), pp. 145-147. https://doi.org/10.1016/j.ab.2004.02.030
Article Title

Anchor primer associated problems in differential display reverse transcription polymerase chain reaction

ERA Journal ID1611
Article CategoryArticle
AuthorsChen, Yihua (Author), Wang, Bin (Author), Weining, Song (Author) and Daggard, Grant (Author)
Journal TitleAnalytical Biochemistry
Journal Citation329 (1), pp. 145-147
Number of Pages3
Year2004
Place of PublicationUnited States
ISSN0003-2697
1096-0309
Digital Object Identifier (DOI)https://doi.org/10.1016/j.ab.2004.02.030
Web Address (URL)https://www.sciencedirect.com/science/article/pii/S0003269704002064
Abstract

Differential display reverse transcription PCR (DDRT-PCR)2 was first reported by P. Liang and A.B. Paredee in 1992. The method utilized an anchor primer, including a poly(T) component with the addition of one or two select bases in reverse transcription. The first-strand cDNA was amplified via PCR using the same anchor primer and a 10-base random primer. As the DDRT-PCR method is simple and sensitive, it has become a popular technology in gene expression work. However, a major problem with the technique is its ability
to produce a high rate of false-positive products. A number of approaches to overcome such problems have been suggested, including using improved gel resolution systems, performing PCR with the cDNA generated by two different reverse transcriptases, and using cytoplasmic RNA to avoid unprocessed mRNA. While there has been a focus in the literature on modification of the random primer component as a means of improving DDRT-PCR reliability, in this study we report on the impact of modifications to the traditional anchor primer component and the role of anchor primers. The addition of weight bases is important for improving the reliability of traditional anchor primer in the DDRT PCR condition and can contribute to the reproducibility of DDRT PCR products.

KeywordsDDRT-PCR, differential display reverse transcriptionPCR
Contains Sensitive ContentDoes not contain sensitive content
ANZSRC Field of Research 2020300199. Agricultural biotechnology not elsewhere classified
310505. Gene expression (incl. microarray and other genome-wide approaches)
Public Notes

Files associated with this item cannot be displayed due to copyright restrictions.

Byline AffiliationsFaculty of Sciences
Southwest University of Science and Technology, China
Department of Primary Industries, Queensland
Permalink -

https://research.usq.edu.au/item/9zwv9/anchor-primer-associated-problems-in-differential-display-reverse-transcription-polymerase-chain-reaction

Log in to edit
  • 1987
    total views
  • 8
    total downloads
  • 1
    views this month
  • 0
    downloads this month

Export as

Related outputs

A 3D rGO-supported NiFe2O4 heterostructure from sacrificial polymer-assisted exfoliation of NiFe-LDH for efficient oxygen evolution reaction
Zhang, Ping, Chen, Lin, Ge, Lei, Song, Pingan, Xie, Ruishi, Wang, Bin, Fu, Yingke, Jia, Shuyu, Liao, Ting and Xiong, Ying. 2022. "A 3D rGO-supported NiFe2O4 heterostructure from sacrificial polymer-assisted exfoliation of NiFe-LDH for efficient oxygen evolution reaction." Carbon. 200, pp. 422-429. https://doi.org/10.1016/j.carbon.2022.08.085
Construction and preliminary immunobiological characterization of a novel, non-reverting, intranasal live attenuated whooping cough vaccine candidate
Cornford-Nairns, R., Daggard, G. and Mukkur, T.. 2012. "Construction and preliminary immunobiological characterization of a novel, non-reverting, intranasal live attenuated whooping cough vaccine candidate." Journal of Microbiology and Biotechnology. 22 (6), pp. 856-865. https://doi.org/10.4014/jmb.1108.08003
Shared primer PCR combined with hybridisation for the detection of Bordetella Pertussis and B. Parapertussis
Farrell, David John, Daggard, Grant Edward and Mukkur, Trilochan Kanwaljit Singh. 2001. Shared primer PCR combined with hybridisation for the detection of Bordetella Pertussis and B. Parapertussis. WO/2001/90405
Defective entities and uses therefor
Cornford-Nairn, Renee, Daggard, Grant Edward, Mukkur, Trilochan Kanwaljit Singh and Rossetti, Tony Robert. 2008. Defective entities and uses therefor. AU2002357406
Parenteral immunization of mice with a genetically inactivated pertussis toxin DNA vaccine induces cell-mediated immunity and protection
Fry, Scott R., Chen, Austen Y., Daggard, Grant and Mukkur, Trilochan K. S.. 2008. "Parenteral immunization of mice with a genetically inactivated pertussis toxin DNA vaccine induces cell-mediated immunity and protection." Journal of Medical Microbiology. 57 (1), pp. 28-35. https://doi.org/10.1099/jmm.0.47527-0
Evaluation of immune response to recombinant potential protective antigens of Mycoplasma hyopneumoniae delivered as cocktail DNA and/or recombinant protein vaccines in mice
Chen, Austen Y., Fry, Scott R., Daggard, Grant E. and Mukkur, Trilochan K. S.. 2008. "Evaluation of immune response to recombinant potential protective antigens of Mycoplasma hyopneumoniae delivered as cocktail DNA and/or recombinant protein vaccines in mice." Vaccine. 26 (34), pp. 4372-4378. https://doi.org/10.1016/j.vaccine.2008.06.005
Comparative immunogenicity of M. hyopneumoniae NrdF encoded in different expression systems delivered orally via attenuated S. typhimurium aroA in mice
Chen, Austen Y., Fry, Scott Robert, Forbes-Faulkner, Judy, Daggard, Grant and Mukkur, T. K. S.. 2006. "Comparative immunogenicity of M. hyopneumoniae NrdF encoded in different expression systems delivered orally via attenuated S. typhimurium aroA in mice." Veterinary Microbiology. 114 (3-4), pp. 252-259. https://doi.org/10.1016/j.vetmic.2005.12.009
Agrobacterium tumefaciens-mediated transformation of wheat using a superbinary vector and a polyamine-supplemented regeneration medium
Khanna, Harjeet and Daggard, Grant. 2003. "Agrobacterium tumefaciens-mediated transformation of wheat using a superbinary vector and a polyamine-supplemented regeneration medium." Plant Cell Reports. 21 (5), pp. 429-436. https://doi.org/10.1007/s00299-002-0529-x
Robustness analysis of diversified ensemble decision tree algorithms for microarray data classification
Hu, Hong, Li, Jiuyong, Wang, Hua, Daggard, Grant and Wang, Li-Zhen. 2008. "Robustness analysis of diversified ensemble decision tree algorithms for microarray data classification." ICMLC 2008: 7th International Conference on Machine Learning and Cybernetics. Kunming, China 12 - 15 Jul 2008 United States. https://doi.org/10.1109/ICMLC.2008.4620389
A RAPD-PCR genotyping assay which correlates with serotypes of group B streptococci
Zhang, G. W., Kotiw, M. and Daggard, G.. 2002. "A RAPD-PCR genotyping assay which correlates with serotypes of group B streptococci." Letters in Applied Microbiology. 35 (3), pp. 247-250. https://doi.org/10.1046/j.1472-765X.2002.01177.x
Late-onset and recurrent neonatal group B streptococcal disease associated with breast milk transmission
Kotiw, Michael, Zhang, Gwang W., Daggard, Grant, Reiss-Levy, Elizabeth, Tapsall, John W. and Numa, Andrew. 2003. "Late-onset and recurrent neonatal group B streptococcal disease associated with breast milk transmission." Pediatric and Developmental Pathology. 6 (3), pp. 251-256. https://doi.org/10.1007/s10024-001-0276-y
Targeted expression of redesigned and codon optimised synthetic gene leads to recyrstallisation inhibition and reduced electrolyte leakage in spring wheat at sub-zero temperatures
Khanna, Harjeet K. and Daggard, Grant E.. 2006. "Targeted expression of redesigned and codon optimised synthetic gene leads to recyrstallisation inhibition and reduced electrolyte leakage in spring wheat at sub-zero temperatures." Plant Cell Reports. 25 (12), pp. 1336-1346. https://doi.org/10.1007/s00299-006-0191-9
Construction of three linkage maps in bread wheat, Triticum aestivum
Chalmers, K. J., Campbell, A. W., Kretschmer, J., Karakousis, A., Henschke, P. H., Pierens, S., Harker, N., Pallotta, M., Cornish, G. B., Sharifiou, M. R., Rampling, L. R., McLauchlan, A., Daggard, G., Sharp, P. J., Holton, T. A., Sutherland, M. W., Appels, R. and Langridge, P.. 2001. "Construction of three linkage maps in bread wheat, Triticum aestivum." Australian Journal of Agricultural Research. 52 (12), pp. 1089-1119. https://doi.org/10.1071/AR01081
Curation of wheat maps to improve map accuracy and QTL detection
Lehmensiek, A., Eckermann, P. J., Verbyla, A. P., Appels, R., Sutherland, M. W. and Daggard, G. E.. 2005. "Curation of wheat maps to improve map accuracy and QTL detection." Australian Journal of Agricultural Research. 56 (12), pp. 1347-1354. https://doi.org/10.1071/AR05126
QTLs for black-point resistance in wheat and the identification of potential markers for use in breeding programmes
Lehmensiek, A., Campbell, A. W., Williamson, P. M., Michalowitz, M., Sutherland, M. W. and Daggard, G. E.. 2004. "QTLs for black-point resistance in wheat and the identification of potential markers for use in breeding programmes." Plant Breeding. 123 (5), pp. 410-416. https://doi.org/10.1111/j.1439-0523.2004.01013.x
Allelopathy, DIMBOA production and genetic variability in accessions of Triticum speltoides
Quader, Motiul, Daggard, Grant, Barrow, Russell A., Walker, Steven and Sutherland, Mark W.. 2001. "Allelopathy, DIMBOA production and genetic variability in accessions of Triticum speltoides." Journal of Chemical Ecology. 27 (4), pp. 747-760. https://doi.org/10.1023/A:1010354019573
Expression of a polygalacturonase enzyme in germinating pollen of Brassica napus
Dearnaley, John and Daggard, Grant. 2001. "Expression of a polygalacturonase enzyme in germinating pollen of Brassica napus." Sexual Plant Reproduction. 13 (5), pp. 265-271. https://doi.org/10.1007/s004970000062
Wheat flour protein content and water absorption analysis in a doubled haploid population
Ma, Wujun, Sutherland, Mark W., Kammholz, Stephen, Banks, Phillip, Brennan, Paul, Bovill, William and Daggard, Grant. 2007. "Wheat flour protein content and water absorption analysis in a doubled haploid population." Journal of Cereal Science. 45 (3), pp. 302-308. https://doi.org/10.1016/j.jcs.2006.10.005
Evaluation of the immunogenicity of the P97R1 adhesin of Mycoplasma hyopneumoniae as a mucosal vaccine in mice
Chen, Austen Y., Fry, Scott R., Forbes-Faulkner, Judy, Daggard, Grant and Mukkur, T. K. S.. 2006. "Evaluation of the immunogenicity of the P97R1 adhesin of Mycoplasma hyopneumoniae as a mucosal vaccine in mice." Journal of Medical Microbiology. 55 (7), pp. 923-929. https://doi.org/10.1099/jmm.0.46088-0
Testing for frost tolerance in wheat (Triticum aestivum L.) transformed with a gene for antifreeze protein
Vickers, Joan, Khanna, Harjeet, Christopher, Jack, Frederiks, Troy, Stephen, John, Sutherland, Mark W. and Daggard, Grant. 2006. "Testing for frost tolerance in wheat (Triticum aestivum L.) transformed with a gene for antifreeze protein." Breeding for Success: Diversity in Action (2006). Christchurch, New Zealand 18 - 21 Apr 2006 New Zealand.
Combined gene selection methods for microarray data analysis
Hu, Hong, Li, Jiuyong, Wang, Hua and Daggard, Grant. 2006. "Combined gene selection methods for microarray data analysis." Gabrys, Bogdan, Howlett, Robert J. and Jain, Lakhmi C. (ed.) 10th International Conference on Knowledge-Based Intelligent Information and Engineering Systems (KES 2006). Bournemouth, United Kingdom 09 - 11 Oct 2006 Germany. Springer. https://doi.org/10.1007/11892960_117
Flour yield QTLs in three Australian doubled haploid wheat populations
Lehmensiek, A., Eckermann, P. J., Verbyla, A. P., Appels, R., Sutherland, M. W., Martin, D. and Daggard, G. E.. 2006. "Flour yield QTLs in three Australian doubled haploid wheat populations." Australian Journal of Agricultural Research. 57 (10), pp. 1115-1122. https://doi.org/10.1071/AR05375
Finding similar patterns in microarray data
Chen, Xiangsheng, Li, Jiuyong, Daggard, Grant and Huang, Xiaodi. 2005. "Finding similar patterns in microarray data." Zhang, Shichao and Jarvis, Ray (ed.) AI 2005: Advances in artificial intelligence. Berlin, Germany. Springer. pp. 1272-1276
Validation of black point QTL in wheat
Tah, P. R., Lehmensiek, A., Williamson, P. M., Michalowitz, M., Done, A. and Daggard, G. E.. 2008. "Validation of black point QTL in wheat." Appels, Rudi, Eastwood, Russell, Lagudah, Peter, Mackay, Michael, McIntyre, Lynne and Sharp, Peter J. (ed.) 11th International Wheat Genetics Symposium 2008 (IWGS 2008). Brisbane, Australia 24 - 29 Aug 2008 Sydney, Australia.
Identification of genetic regions associated with black point in barley
Tah, Priya R., Lehmensiek, A., Fox, Glen P., Mace, Emma, Sulman, Maria, Bloustein, Gary and Daggard, Grant E.. 2010. "Identification of genetic regions associated with black point in barley." Field Crops Research. 115 (1), pp. 61-66. https://doi.org/10.1016/j.fcr.2009.10.003
The correlation between the mutation of protein kinase genes and the clinical characteristics of breast cancer progression
Birney, Genevieve, Liu, Guang B. and Daggard, Grant. 2010. "The correlation between the mutation of protein kinase genes and the clinical characteristics of breast cancer progression." ASMR Queensland Postgraduate Student Conference 2010. St Lucia, Australia 02 Jun 2010 St. Lucia, Australia.
Regional frost: calibration of frost chamber to encompass all Australian conditions
Daggard, Grant and Vickers, Joan. 2009. "Regional frost: calibration of frost chamber to encompass all Australian conditions." Poulsen, David (ed.) ABTS 2009: Barley - The Grain for Gain. Sunshine Coast, Australia 13 - 16 Sep 2009 Brisbane, Australia.
Rapid-cycle PCR method to detect Bordetella pertussis that fulfills all consensus recommendations for use of PCR in diagnosis of pertussis
Farrell, D. J., McKeon, M., Daggard, G., Loeffelholz, M. J., Thompson, C. J. and Mukkur, T. K. S.. 2000. "Rapid-cycle PCR method to detect Bordetella pertussis that fulfills all consensus recommendations for use of PCR in diagnosis of pertussis." Journal of Clinical Microbiology. 38 (12), pp. 4499-4502.
Nested duplex PCR to detect bordetella pertussis and bordetella parapertussis and its application in diagnosis of pertussis in nonmetropolitan Southeast Queensland, Australia
Farrell, D. J., Daggard, G. and Mukkur, T. K. S.. 1999. "Nested duplex PCR to detect bordetella pertussis and bordetella parapertussis and its application in diagnosis of pertussis in nonmetropolitan Southeast Queensland, Australia." Journal of Clinical Microbiology. 37 (3), pp. 606-610.
Mapping markers for priority traits in the northern grains region of Australia
Mace, E., Sutherland, Mark, Lehmensiek, Anke, Bovill, Bill, Bovill, Jessica, Collard, Bert, Daggard, Grant and Christopher, M. J.. 2006. "Mapping markers for priority traits in the northern grains region of Australia." ITMI Workshop and ACPFG Genomics Symposium (2006). Victor Harbour, Australia 27 - 31 Aug 2006
A maximally diversified multiple decision tree algorithm for microarray data classification
Hu, Hong, Li, Jiuyong, Wang, Hua, Daggard, Grant and Shi, Mingren. 2006. "A maximally diversified multiple decision tree algorithm for microarray data classification." Boden, Mikael and Bailey, Timothy (ed.) Workshop on Intelligent Systems for Bioinformatics (2006). Hobart, Australia 04 Dec 2006 Sydney, Australia.
A comparative study of classification methods for microarray data analysis
Hu, Hong, Li, Jiuyong, Plank, Ashley, Wang, Hua and Daggard, Grant. 2006. "A comparative study of classification methods for microarray data analysis." Christen, Peter, Kennedy, Paul J., Li, Jiuyong, Simoff, Simeon J. and Williams, Graham J. (ed.) 5th Australasian Conference on Data Mining and Analystics (AusDM 2006). Sydney, Australia 29 - 30 Nov 2006 Canberra, Australia.
A metabolite-deficient mutant of Bordetella pertussis that induces secretory IgA and cell-mediated immunity in mice vaccinated by the intranasal route
Mukkur, T. K. S., Cornford-Nairn, Renee A., Rossetti, T., Kershaw, S., Fry, Scott Robert, Xu, Youhong and Daggard, Grant A.. 2005. "A metabolite-deficient mutant of Bordetella pertussis that induces secretory IgA and cell-mediated immunity in mice vaccinated by the intranasal route." Fang, Ferric C. (ed.) 105th American Society for Microbiology: General Meeting. Atlanta, Georgia 05 - 09 Jun 2005 Washington.
Preparation of total RNA from a very small wheat embryo suitable for differential display
Chen, Yihua, Weining, Song and Daggard, Grant. 2003. "Preparation of total RNA from a very small wheat embryo suitable for differential display ." Annals of Applied Biology. 143 (2), pp. 261-264. https://doi.org/10.1111/j.1744-7348.2003.tb00293.x
Targetting AFLP-DNA markers to specific traits and chromosome regions
Campbell, A. W., Daggard, G., Békés, F., Pedler, A., Sutherland, M. W and Appels, R.. 2001. "Targetting AFLP-DNA markers to specific traits and chromosome regions ." Australian Journal of Agricultural Research. 52 (11-12), pp. 1153-1160. https://doi.org/10.1071/ar01028
Enhanced shoot regeneration in nine Australian wheat cultivars by spermidine and water stress treatments
Khanna, Harjeet K. and Daggard, Grant E.. 2001. "Enhanced shoot regeneration in nine Australian wheat cultivars by spermidine and water stress treatments ." Australian Journal of Plant Physiology. 28 (12), pp. 1243-1247. https://doi.org/10.1071/pp01115