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...

Descripción completa

Detalles Bibliográficos
Autores principales: Wang, Haibin, Chen, Sumei, Jiang, Jiafu, Zhang, Fei, Chen, Fadi
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