Methodology

Dealing with the problem of non-specific in situ mRNA hybridization signals associated with plant tissues undergoing programmed cell death

Jaana Vuosku^1,2 , Suvi Sutela¹ , Mira Sääskilahti¹ , Johanna Kestilä¹ , Anne Jokela¹ , Tytti Sarjala² and Hely Häggman¹

¹  Department of Biology, University of Oulu, P.O. Box 3000, 90014 Oulu, Finland

²  Finnish Forest Research Institute, Parkano Research Unit, 39700 Parkano, Finland

author email corresponding author email

Plant Methods 2010, 6:7doi:10.1186/1746-4811-6-7

Published:	5 February 2010

Abstract

Background

In situ hybridization is a general molecular method typically used for the localization of mRNA transcripts in plants. The method provides a valuable tool to unravel the connection between gene expression and anatomy, especially in species such as pines which show large genome size and shortage of sequence information.

Results

In the present study, expression of the catalase gene (CAT) related to the scavenging of reactive oxygen species (ROS) and the polyamine metabolism related genes, diamine oxidase (DAO) and arginine decarboxylase (ADC), were localized in developing Scots pine (Pinus sylvestris L.) seeds. In addition to specific signals from target mRNAs, the probes continually hybridized non-specifically in the embryo surrounding region (ESR) of the megagametophyte tissue, in the remnants of the degenerated suspensors as well as in the cells of the nucellar layers, i.e. tissues exposed to cell death processes and extensive nucleic acid fragmentation during Scots pine seed development.

Conclusions

In plants, cell death is an integral part of both development and defence, and hence it is a common phenomenon in all stages of the life cycle. Our results suggest that extensive nucleic acid fragmentation during cell death processes can be a considerable source of non-specific signals in traditional in situ mRNA hybridization. Thus, the visualization of potential nucleic acid fragmentation simultaneously with the in situ mRNA hybridization assay may be necessary to ensure the correct interpretation of the signals in the case of non-specific hybridization of probes in plant tissues.