通过原位 RT-PCR 检测白菜保卫细胞特异性基因表达的优化方案

Yingying Song; Xinlei Guo; Jian Wu; Jianli Liang; Runmao   Lin; Zifu  Yan; Xiaowu Wang

doi:10.21769/BioProtoc.4810

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Peer-reviewed

An Optimized Protocol for Detecting Guard Cell–specific Gene Expression by in situ RT-PCR in Brassica rapa

通过原位 RT-PCR 检测白菜保卫细胞特异性基因表达的优化方案

ZY Zifu Yan email

XW Xiaowu Wang email

(*contributed equally to this work) 发布: 2023年09月05日第13卷第17期 DOI: 10.21769/BioProtoc.4810 浏览次数: 1482

评审: Alessandro DidonnaSailendra SinghAnonymous reviewer(s)

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Cover of Horticultural Plant Journal, featuring study using the protocol.

May 2022

Special Issue on Protocols for Organoid Research

实验方案合集

Cell Imaging - A Special Collection for Cell Bio 2023

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Abstract

Since the genetic transformation of Chinese cabbage (Brassica rapa) has not been well developed, in situ RT-PCR is a valuable option for detecting guard cell–specific genes. We reported an optimized protocol of in situ RT-PCR by using a FAMA homologous gene Bra001929 in Brassica rapa. FAMA in Arabidopsis has been verified to be especially expressed in guard cells. We designed specific RT-PCR primers and optimized the protocol in terms of the (a) reverse transcription time, (b) blocking time, (c) antigen-antibody incubation time, and (d) washing temperature. Our approach provides a sensitive and effective in situ RT-PCR method that can detect low-abundance transcripts in cells by elevating their levels by RT-PCR in the guard cells in Brassica rapa.

Keywords: Brassica rapa (白菜)

In situ RT-PCR (原位 RT-PCR)

Guard cells (保卫细胞,)

Low abundance (低丰度,)

Quantitative analysis (定量分析)

Background

In situ RT-PCR combines RT-PCR and in situ hybridization technologies to amplify specific nucleic acid sequences in cells or tissue sections, enabling the localization of specific low-copy number sequences to be detected by immunohistochemistry (Nuovo, 2001). This technique identifies mRNA in the tissues; it was initially used to locate and detect viral gene expression in human and animal cells (Martinez, 1995; Bates et al., 1997; Hoyland et al., 1997; Kher and Bacallao, 2001; Cubas-Nuñez et al., 2017) and was then introduced into plant research. Thus far, this technology has been successfully applied in many plants including pea, Arabidopsis (Deeken and Kaldenhoff, 1997), cucumber (Urbańczyk-Wochniak et al., 2002), tomato (Portillo et al., 2013), barley (Ferdous et al., 2017), and barley and Arabidopsis (Athman et al., 2014); the protocol from Athman et al. (2014) has been widely used in plant research (Hocking et al., 2017; Olsen and Krause, 2019). Bra001929 is a homolog in Brassica rapa to the guard cell–specific gene FAMA in Arabidopsis, which has been identified and analyzed in a wide range of plant species. The Bra001929 gene can also be used as a marker gene for Chinese cabbage guard cells.

Materials and reagents

Leaf epidermis
Double-edged blade (Gillette)
RNaseZap^® solution (Ambion, catalog number: AM9786)
Formalin (Sigma, catalog number: F8775-25ML)
Acetic acid (Sigma, catalog number: 695092-500ML)
Ethanol absolute (Sangon Biotech, catalog number: A500737-0500)
DEPC (Sigma, catalog number: D5758-25ML)
Nuclease-free 10× PBS (Solarbio, catalog number: P1022)
RNaseOUT^TM recombinant ribonuclease inhibitor (Invitrogen, catalog number: 10777-019)
10× TURBO DNase^TM buffer (Invitrogen, TURBO DNAfree^TM kit, catalog number: AM1907)
DNase I, RNase-free (Invitrogen, catalog number: EN0521)
0.5 M EDTA, pH 8.0, RNase-free (Ambion, catalog number: AM9260G)
EasyScript One-Step gDNA Removal and cDNA Synthesis SuperMix (Transgen, catalog number: AE311-02)
DIG-11-dUTP (Roche, catalog number: 11093088910)
Bovine serum albumin (BSA) (Sigma, catalog number: A6003-100G)
BM Purple AP Substrate (Roche, catalog number: 11442074001)
Tris (Biotopped, catalog number: T6061)
NaCl (Solarbio, catalog number: S8210)
Glycerol (Sigma, catalog number: 56-81-5)
Dilute Anti-DIG-AP in 1% BSA blocking solution (see Recipes)
DNase/RNase free water (see Recipes)
FAA fixative (see Recipes)
Washing buffer I (see Recipes)
1× PBS (see Recipes)
1% BSA blocking solution (see Recipes)
40% glycerol solution (see Recipes)

Equipment

Pointed tweezers (AsOne, catalog number: CC-9820-01)
Super frost plus slides, 76 mm × 25 mm (Fisher Scientific, catalog number: 12-550-15)
Cover glass (CITOGLAS, catalog number: BZ1164)
Frame-Seal^TM incubation chambers (Bio-Rad, catalog number: SLF-0601)
15 mL centrifuge tube (Corning, catalog number: 433052)
2 mL centrifuge tube (Axygen, catalog number: MCT-060-A)
0.2 mL centrifuge tube (Axygen, catalog number: PCR-02-C)
Metal constant temperature incubator (Coyotebio, catalog number: H2O3-100C)
Water bath thermal cycler, an automated high throughput water bath thermal cycler with flexible modular design for rapid temperature change and precise control. Key technical parameters: three tanks, temperature controlled 40–97 °C (HC Scientific, catalog number: ID 156 B03)
Optical microscope (Zeiss, catalog number: 3150012307)

Software

ImageJ (https://imagej.net/software/imagej/)
Microsoft Excel (Microsoft Corp., Albuquerque, NM, USA)

Procedure

English

中文翻译

文章信息

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如何引用

Song, Y., Guo, X., Wu, J., Liang, J., Lin, R., Yan, Z. and Wang, X. (2023). An Optimized Protocol for Detecting Guard Cell–specific Gene Expression by in situ RT-PCR in Brassica rapa. Bio-protocol 13(17): e4810. DOI: 10.21769/BioProtoc.4810.