Spatial Analysis of Gene Expression by In Situ Hybridization

Masayuki Miya; Ken-Ichiro Hibara; Jun-Ichi Itoh

doi:10.1007/978-1-0716-4204-7_7

Spatial Analysis of Gene Expression by In Situ Hybridization

Methods Mol Biol. 2025:2869:49-59. doi: 10.1007/978-1-0716-4204-7_7.

Authors

Masayuki Miya¹, Ken-Ichiro Hibara², Jun-Ichi Itoh³

Affiliations

¹ National Institute of Genetics, Mishima, Shizuoka, Japan.
² Graduate School of Agricultural Regional Vitalization, Kibi International University, Minamiawaji, Japan.
³ Graduate School of Agricultural and Life Sciences, University of Tokyo, Tokyo, Japan. [email protected].

PMID: 39499467
DOI: 10.1007/978-1-0716-4204-7_7

Abstract

The analysis of the spatial expression patterns of genes is important for deciphering their functions. In situ hybridization provides insight into gene expression patterns at the cellular level. Here we describe a procedure for performing in situ hybridization on sections of paraffin-embedded tissue, including synthesis of labeled RNA probes, hybridization of the probes with target mRNAs, and immunological detection of the signals. The method enables evaluation of the expression patterns of genes in a variety of tissues of rice.

Keywords: Digoxigenin; In situ hybridization; NBT/BCIP; RNA probe; Spatial gene expression pattern.

MeSH terms

Gene Expression Profiling / methods
Gene Expression Regulation, Plant
In Situ Hybridization* / methods
Oryza* / genetics
Paraffin Embedding / methods
RNA Probes
RNA, Messenger / genetics
Spatial Analysis

Substances

RNA Probes
RNA, Messenger