ArticleFunctional & integrative genomics2007
Measuring global gene expression in polyploidy; a cautionary note from allohexaploid wheat.
Article in Functional & integrative genomics, 2007. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed.
- Article
- High Transferability of Homoeolog-Specific Markers between Bread Wheat and Newly Synthesized Hexaploid Wheat Lines.PloS one · 2016Article
- The genetic study utility of a hexaploid wheat DH population with non-recombinant A- and B-genomes.SpringerPlus · 2013Article
- Article
- Homoeolog-specific transcriptional bias in allopolyploid wheat.BMC genomics · 2010Article
- Multilevel regulation and signalling processes associated with adaptation to terminal drought in wild emmer wheat.Functional & integrative genomics · 2010Article
- wDBTF: an integrated database resource for studying wheat transcription factor families.BMC genomics · 2010Article
- Storage products and transcriptional analysis of the endosperm of cultivated wheat and two wild wheat species.Journal of applied genetics · 2010Article
- Comparative transcriptomics in the Triticeae.BMC genomics · 2009Article
- MicroRNA expression profiles in conventional and micropropagated strawberry (Fragaria x ananassa Duch.) plants.Plant cell reports · 2009Article
- The identification of candidate genes associated with Pch2 eyespot resistance in wheat using cDNA-AFLP.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2009Article
- Analysis of gene expression in resynthesized Brassica napus Allopolyploids using arabidopsis 70mer oligo microarrays.PloS one · 2009Article
- Analysis of wheat SAGE tags reveals evidence for widespread antisense transcription.BMC genomics · 2008Article
- Single-species microarrays and comparative transcriptomics.PloS one · 2008Article
- Gene expression in a starch synthase IIa mutant of barley: changes in the level of gene transcription and grain composition.Functional & integrative genomics · 2008Article
- Partitioned expression of duplicated genes during development and evolution of a single cell in a polyploid plant.Proceedings of the National Academy of Sciences of the United States of America · 2008Article
- Transcriptome analysis of grain development in hexaploid wheat.BMC genomics · 2008Article
- Wheat genomics: present status and future prospects.International journal of plant genomics · 2008Article
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Authors and funding
5 authors.
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Abstract
The number of global gene expression studies has increased significantly in recent years. It is assumed that the different techniques employed report similar levels of gene expression for each sequence type. While this may be true for many species, polyploids containing homoeologous and paralogous gene copies represent a unique situation. In this paper, we describe the comparison of the Affymetrix GeneChip Wheat Genome Array, an in-house custom-spotted complementary DNA array and quantitative reverse transcription-polymerase chain reaction (PCR) for the study of gene expression in hexaploid wheat. Analysis of the data generated from each platform revealed little concordance and suggested that global comparisons are not possible. Potential causes of these inter-platform discrepancies were investigated and revealed to be due to the inability of the platforms to discriminate between different but related transcripts. Our results also showed that the traditionally used array validation technique, quantitative reverse transcription PCR, differs in its discriminatory ability, resulting in the poor confirmation rates seen in previous polyploid studies. These findings have implications for gene expression studies in polyploid organisms and highlight the need for homoeologous- and paralogous-specific arrays when investigating polyploid gene expression.
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