Cargando…
Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp.
The establishment of a (set of) stably expressed reference gene(s) is required to normalize transcription data. Polyploidy is very common in the plant kingdom, but it is not necessarily the case that a reference gene which works well at the diploid level will also work well at the polyploid level. H...
Autores principales: | , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group
2015
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4308696/ https://www.ncbi.nlm.nih.gov/pubmed/25627791 http://dx.doi.org/10.1038/srep08094 |
_version_ | 1782354567193690112 |
---|---|
author | Wang, Haibin Chen, Sumei Jiang, Jiafu Zhang, Fei Chen, Fadi |
author_facet | Wang, Haibin Chen, Sumei Jiang, Jiafu Zhang, Fei Chen, Fadi |
author_sort | Wang, Haibin |
collection | PubMed |
description | The establishment of a (set of) stably expressed reference gene(s) is required to normalize transcription data. Polyploidy is very common in the plant kingdom, but it is not necessarily the case that a reference gene which works well at the diploid level will also work well at the polyploid level. Here, ten candidate reference genes are compared in the context of gene transcription in the genus Chrysanthemum. The robustness of some, but not all, of these was shown to be high across ploidy levels. MTP (metalloprotease) and ACTIN (actin) were the most stable in diploid and tetraploid C. nankingense, while PSAA (photosynthesis-related plastid gene representing photosystem I) and EF-1α (elongation factor-1α) were the most stable in tetraploid and hexaploid C. zawadskii. EF-1α and PGK (phosphoglycerate kinase) was the best combination for the complete set of four taxa. These results suggest that when making cross-species comparison of transcript abundance involving different ploidy levels, care needs to be taken in the selection of reference gene(s). |
format | Online Article Text |
id | pubmed-4308696 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
spelling | pubmed-43086962015-02-06 Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. Wang, Haibin Chen, Sumei Jiang, Jiafu Zhang, Fei Chen, Fadi Sci Rep Article The establishment of a (set of) stably expressed reference gene(s) is required to normalize transcription data. Polyploidy is very common in the plant kingdom, but it is not necessarily the case that a reference gene which works well at the diploid level will also work well at the polyploid level. Here, ten candidate reference genes are compared in the context of gene transcription in the genus Chrysanthemum. The robustness of some, but not all, of these was shown to be high across ploidy levels. MTP (metalloprotease) and ACTIN (actin) were the most stable in diploid and tetraploid C. nankingense, while PSAA (photosynthesis-related plastid gene representing photosystem I) and EF-1α (elongation factor-1α) were the most stable in tetraploid and hexaploid C. zawadskii. EF-1α and PGK (phosphoglycerate kinase) was the best combination for the complete set of four taxa. These results suggest that when making cross-species comparison of transcript abundance involving different ploidy levels, care needs to be taken in the selection of reference gene(s). Nature Publishing Group 2015-01-28 /pmc/articles/PMC4308696/ /pubmed/25627791 http://dx.doi.org/10.1038/srep08094 Text en Copyright © 2015, Macmillan Publishers Limited. All rights reserved http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article's Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder in order to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ |
spellingShingle | Article Wang, Haibin Chen, Sumei Jiang, Jiafu Zhang, Fei Chen, Fadi Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title | Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title_full | Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title_fullStr | Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title_full_unstemmed | Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title_short | Reference gene selection for cross-species and cross-ploidy level comparisons in Chrysanthemum spp. |
title_sort | reference gene selection for cross-species and cross-ploidy level comparisons in chrysanthemum spp. |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4308696/ https://www.ncbi.nlm.nih.gov/pubmed/25627791 http://dx.doi.org/10.1038/srep08094 |
work_keys_str_mv | AT wanghaibin referencegeneselectionforcrossspeciesandcrossploidylevelcomparisonsinchrysanthemumspp AT chensumei referencegeneselectionforcrossspeciesandcrossploidylevelcomparisonsinchrysanthemumspp AT jiangjiafu referencegeneselectionforcrossspeciesandcrossploidylevelcomparisonsinchrysanthemumspp AT zhangfei referencegeneselectionforcrossspeciesandcrossploidylevelcomparisonsinchrysanthemumspp AT chenfadi referencegeneselectionforcrossspeciesandcrossploidylevelcomparisonsinchrysanthemumspp |