Live cell imaging of single genomic loci with quantum dot-labeled TALEs

Authors:
Yingxin Ma, Mingxiu Wang, Wei Li, Zhiping Zhang, Xiaowei Zhang, Tianwei Tan, Xian-En Zhang, Zongqiang Cui
In:
Source: Nat Commun.
Publication Date: (2017)
Issue: 15318:
Cells used in publication:
293T
Species: human
Tissue Origin: kidney
U1/HIV-1
Species: human
Tissue Origin:
Experiment

Cell culture and transfection

U1 (provided by Prof. Qinxue Hu, Wuhan Institute of Virology, Chinese Academy of Sciences) and OM10.1 cells (provided by Prof. Yongtang Zheng, Kunming Institute of Zoology, Chinese Academy of Sciences) were cultured in RPMI-1640 medium (Gibco) containing 10% heat inactivated FBS (Gibco). The HIV provirus DNA in U1 and OM10.1 was verified by PCR and sequencing. 293T cells (obtained from the Type Culture Collection of the Chinese Academy of Sciences, Shanghai) were maintained in DMEM (Gibco) with 10% FBS (Gibco). The cell lines have no mycoplasma contamination. Plasmids and Quantum Dots QDs were transfected using Nucleofector (Lonza) or TransIn EL Transfection Reagent (Transgene Biotech) in accordance with the manufacturer’s protocol. First, the plasmids pcDNA3-LplA (W37V) (1 µg, obtained from Addgene) and/or pcDNA3.1 (+)-BirA (3 µg) were transfected into 106 cells cultured in a confocal dish. After incubation overnight, the plasmids pcDNA3.1 (+)-TALE-N2-L (2 µg) and/or pcDNA3.1 (+)-TALE-N2-R (2 µg), and Tz1-QD625 (100 µM) and/or SA-QD525 (150 µM) were transfected into these cells. TCO2 (200 µM) and/or biotin (50 µM) were added into the culture medium after transfection. Following additional incubation for 6–12 h, the cells were cultured and imaged under a microscope equipped with a heated chamber at 37 °C with 5% CO2. TCO2 and Tz1 were synthesized following Liu et al.13

Abstract

Single genomic loci are often related to specific cellular functions, genetic diseases, or pathogenic infections. Visualization of single genomic loci in live human cells is currently of great interest, yet it remains challenging. Here, we describe a strategy for live cell imaging of single genomic loci by combining transcription activator-like effectors (TALEs) with a quantum dot labelling technique. We design and select a pair of TALEs that specifically target HIV-1 proviral DNA sequences, and use bioorthogonal ligation reactions to label them with different colour quantum dots (QDs). These QD-labelled TALEs are able to enter the cell nucleus to provide fluorescent signals to identify single gene loci. Based on the co-localization of the pair of different coloured QD-labelled TALEs, we determine and map single-copy HIV-1 provirus loci in human chromosomes in live host cells.