Measurements of genomic GC content in plant genomes with flow cytometry a test for reliability

Measurements of genomic GC content in plant genomes with flow cytometry : a test for reliability

© 2011 The Authors. New Phytologist © 2011 New Phytologist Trust.

Bibliographische Detailangaben
Veröffentlicht in:The New phytologist. - 1979. - 193(2012), 2 vom: 04. Jan., Seite 513-21
1. Verfasser: Smarda, Petr (VerfasserIn)
Weitere Verfasser: Bureš, Petr, Smerda, Jakub, Horová, Lucie
Format: Online-Aufsatz
Sprache:English
Veröffentlicht: 2012
Zugriff auf das übergeordnete Werk:The New phytologist
Schlagworte:Journal Article Research Support, Non-U.S. Gov't DNA, Plant
Beschreibung
Zusammenfassung:© 2011 The Authors. New Phytologist © 2011 New Phytologist Trust.
• Knowledge of the phylogenetic pattern and biological relevance of the base composition of large eukaryotic genomes (including those of plants) is poor. With the use of flow cytometry (FCM), the amount of available data on the guanine + cytosine (GC) content of plants has nearly doubled in the last decade. However, skepticism exists concerning the reliability of the method because of uncertainty in some input parameters. • Here, we tested the reliability of FCM for estimating GC content by comparison with the biochemical method of DNA temperature melting analysis (TMA). We conducted measurements in 14 plant species with a maximum currently known GC content range (33.6-47.5% as measured by FCM). We also compared the estimations of the GC content by FCM with genomic sequences in 11 Oryza species. • FCM and TMA data exhibited a high degree of correspondence which remained stable over the relatively wide range of binding lengths (3.39-4.09) assumed for the base-specific dye used. A high correlation was also observed between FCM results and the sequence data in Oryza, although the latter GC contents were consistently lower. • Reliable estimates of the genomic base composition in plants by FCM are comparable with estimates obtained using other methods, and so wider application of FCM in future plant genomic research, although it would pose a challenge, would be supported by these findings
Beschreibung:Date Completed 02.05.2012
Date Revised 30.09.2020
published: Print-Electronic
Citation Status MEDLINE
ISSN:1469-8137
DOI:10.1111/j.1469-8137.2011.03942.x