Live cell imaging of genomic loci using dCas9-SunTag system and a bright fluorescent protein

Dear Editor,CRISPR-Cas9 （clustered regularly interspaced short palin- dromic repeats-CRISPR associated） systems have been harnessed for kinds of genome manipulation, including gene editing, transcription regulation, and chromosome loci imaging （Dominguez et al., 2016; Komor et al., 2017）. A typical engineered CRISPR-Cas9 system is composed of a Cas9 protein and a single guide RNA （sgRNA）, which could form a protein/RNA complex to recognize and cleave DNA sequence （Hsu et al., 2014; Wright et al., 2016）.

DNA tetrahedron-based split aptamer probes for reliable imaging of ATP in living cells

Accurate detection and imaging of adenosine triphosphate(ATP)expression levels in living cells is of great value for understanding cell metabolism,physiological activities,and pathologic mechanisms.Here,we developed a DNA tetrahedron-based split aptamer probe(TD probe)for ratiometric fluorescence imaging of ATP in living cells.The TD probe is constructed by hybridizing two split ATP aptamer probes(Apt-a and Apt-b)to a DNA tetrahedron assembled by four DNA oligonucleotides(T1,T2,T3 and T4).In the presence of ATP,the TD probe will alter its structure from the open to closed state,thus bringing the separated donor and acceptor fluorophores into close proximity for high fluorescence resonance energy transfer(FRET)signals.The TD probe exhibits low cytotoxicity,efficient cell internalization and good biological stability.Moreover,based on the FRET“off”to“on”signal output mode,the TD probe can effectively avoid false-positive signals from complex biological matrices,which is significant for long-term reliable imaging in living cells.In addition,by changing the split aptamers attached to DNA tetrahedron,the proposed strategy may be extended for detecting various intracellular targets.Collectively,this strategy provides a valuable sensing platform for biomarkers analysis in living cells,thus having great potential for early clinical diagnosis and therapeutic evaluation.

Effect of Probe Lifting Height in Jumping Mode AFM for Living Cell Imaging

Atomic force microscopy(AFM)is one of the effective methods for imaging the morphological and physical properties of living cells in a near-physiological environment.However,several problems caused by the adhesion of living cells and extension of the cell membranes seriously affect the image quality during living cell imaging,hindering the study of living cells.In this work,jumping mode AFM imaging was used to image living cells at varied probe lifting heights to meet image quality requirements,and image quality related to the probe lifting height is discussed in detail.The jumping mode was divided into three parts based on the varying heights of the lifted probe,namely near-contact mode,half-jumping mode,and full-jumping mode,and the causes of their imaging drawbacks were analyzed.At an appropriate lifting height,the probe can be completely free from the influence of cell adhesion and self-excited oscillation,thus avoiding the occurrence of“trail”phenomena and invalid points in the imaging of living cells and improving the image quality.Additionally,this work provides a new approach to calculating the lateral force through the adhesion of trace and retrace scanning at a low height,which is important for studying the extension characteristics of the cell membrane.

Cloning and Functional Analysis of Porcine Cycling A

Cyclin A is a key regulator of the cell cycle. Its expression may become disrupted in virusinfected cells, leading to deregulation of the cell cycle and increased cell proliferation. Here, we cloned the porcine cyclin A gene and verified its functionality in swine umbilicus vein endothelial cells （SUVEC）. The human cyclin A gene was used to probe databases to clone the pig cyclin A gene electronically. The identified porcine cDNA contained an open reading frame of 1,299 bp, encoding 432 amino acids, the same length as the human cyclin A protein. The porcine cyclin A gene comprises eight exons on chromosome 8. The sequence of the in silico clone and expression of this novel gene were confirmed in SUVEC by reverse transcription PCR. Western blotting of cell lysates from SUVEC transfected with a cyclin A enhanced green fluorescent protein （EGFP） fusion construct revealed a band at approximately 40 kDa. Confocal microscopy of CycA-EGFP-expressing cells showed that the fusion protein was expressed in the nucleus. Flow cytometry demonstrated that more stably expressing SUVEC-CycA-EGFP were in G1 phase （15% to 20% increase） and fewer were in S phase （18% decrease） compared with control ceils. MTS assays showed that the proliferative activity of SUVEC-Cy- cAG-EGFP was significantly higher than that of the control cells. In conclusion, we have cloned the pig cyclin A gene and demonstrated that its biological function is consistent with cyclin A in other mammali- an species. This provides a foundation for future research on the impact of virus infection on cyclin A.

Illuminating single genomic loci in live cells by reducing nuclear background fluorescence

The tagging of genomic loci in living cells provides visual evidence for the study of genomic spatial organization and gene interaction.CRISPR/dCas9(clustered regularly interspaced short palindromic repeats/deactivated Cas9)labeling system labels genes through binding of the dCas9/sgRNA/fluorescent protein complex to repeat sequences in the target genomic loci.However,the existence of numerous fluorescent proteins in the nucleus usually causes a high background fluorescent readout.This study aims to limit the number of fluorescent modules entering the nucleus by redesigning the current CRISPR/dCas9-SunTag labeling system consisting of dCas9-SunTag-NLS(target module)and scFv-sfGFP-NLS(signal module).We removed the nuclear location sequence(NLS)of the signal module and inserted two copies of EGFP into the signal module.The ratio of the fluorescent intensity of the nucleus to that of the cytoplasm(N/C ratio)was decreased by 71%,and the ratio of the signal to the background(S/B ratio)was increased by 1.6 times.The system can stably label randomly selected genomic loci with as few as 9 repeat sequences.

A selective and sensitive off–on probe for palladium and its application for living cell imaging

A new rhodamine B derivative T1 has been rationally synthesized and displayed selective Pd（Ⅱ）-amplified absorbance and fluorescence emission above 540 nm in methanol-water. Upon the addition of Pd（Ⅱ）, the spirolactam ring was unfolded and a 1：1 metal-ligand complex formed, which can be used for ＇＇naked-eyes＂ detection. In addition, fluorescence imaging experiments of Pd^（2＋） in HepG2 living cells showed its valuable application in biological systems.

Ratiometric and selective two-photon fluorescent probe based on PET-ICT for imaging Zn^(2+)in living cells and tissues

A two-photon fluorescent probe TPZn was developed for specific ratiometric imaging Zn2＋ in living cells and tissues. Significant ratiometric fluorescence change was based on photoinduced electron transfer and intramolecular charge transfer. The synthetic method of TPZn was simple. It was successfully used to selectively image Zn2＋ based on the higher binding affinity for Zn2＋ than for Cd2＋. TPZn was easily loaded into the living cell and tissues with high membrane permeability in a complex biological environment. TPZn could clearly visualize endogenous Zn2＋ by TP ratiometric imaging in hippocampal slices at a depth of 120 μm. Thus, TPZn is a useful tool to image of Zn2＋ in living cells and tissues without interference from Cd2＋.

A 1,8-naphthalimide-derived turn-on fluorescent probe for imaging lysosomal nitric oxide in living cells

Nitric oxide has played an important role in many physiological and pathological processes as a kind of important gas signal molecules. In this work, a new fluorescent probe LysoNO-Naph for detecting NO in lysosomes based on 1,8-naphthalimide was reported. LysoNO-Naph has sub-groups of o-phenylene- diamine as a NO reaction site and 4-（2-aminoethyl）-morpholine as a lysosome-targetable group. This probe exhibited good selectivity and high sensitivity （4.57 μmol/L） toward NO in a wide pH range from 4 to 12. Furthermore, LysoNO-Naph can be used for imaging NO in lysosomes in living cells.

Single Molecule Imaging in Living Cell with Optical Method

Significance, difficult, international developing actuality and our completed works for single molecules imaging in living cell with optical method are described respectively. Additionally we give out some suggestions for the technology development further.

The growth of B cell receptor microcluster is a universal response of B cells encountering antigens with different motion features

B lymphocyte cell senses and acquires foreign anti-gens through clonal distributed B cell receptors(BCRs)expressed on the surface of plasma membrane.The presentation formats of antigens are quite diverse.Based on their Brownian diffusion mobility,there are three forms:free mobile soluble antigens,lateral mobile membrane bound antigens,and fixed immobile anti-gens.Here,using high resolution high speed live cell imaging approaches,we provide evidence that BCR microclusters are formed on the surface of B cells shortly after B cell’s encountering of antigens with each format of motion features.Through high speed live cell imaging,we determine that these BCR microclusters show dynamic growth feature and by doing so function as the basic platforms for B cells to acquire the anti-gens.We propose that the formation and dynamic growth of BCR microcluster is a universal mechanism for B cell to response to antigens with diverse motion features.

Real-time in situ observation of P53-mediated cascade activation of apoptotic pathways with nucleic acid multicolor fluorescent probes based on symmetrical gold nanostars

T-2 toxin,one of the most dangerous natural pollutants,induces apoptosis through multiple pathways.Amongst,P53 mediated apoptosis pathway,an important collection of molecules,plays a key role in cell vital activity.Real-time monitoring of upstream and downstream activation relationships of P53 mRNA,Bax mRNA,and cytochrome c(Cyt c)in signaling pathways is of great significance for understanding the apoptotic machinery in human physiology.In this work,a novel nucleic acid multicolor fluorescent probe,based on silica-coated symmetric gold nanostars(S-AuNSs@SiO_(2)),was developed for highly sensitive in situ real-time imaging of P53 mRNA,Bax mRNA,and Cyt c during T-2 toxin-induced apoptosis.The nucleic acid chains modified with carboxyl groups were modified on the surface of S-AuNSs@SiO_(2)by amide reaction.The complementary chains of targeted mRNA and the aptamer of targeted Cyt c were modified with different fluorophores,respectively,and successfully hybridized on S-AuNSs@SiO_(2)surface.When targets were present,the fluorescent chains bound to the targets and detached from the material,resulting in the quenched fluorescence being revived.The probes based on S-AuNSs showed excellent performance is partly ascribed to the presence of 20 symmetric“hot spots”.Notably,the amide-bonded probe exhibited excellent anti-interference capability against biological agents(nucleases and biothiols).During the real-time fluorescence imaging of T-2 toxin-induced apoptosis,the corresponding fluorescence signals of P53 mRNA,Bax mRNA,and Cyt c were observed sequentially.Therefore,S-AuNSs@SiO_(2)probe not only provides a novel tool for real-time monitoring of apoptosis pathways cascade but also has considerable potential in disease diagnosis and pharmaceutical medical.