Nucleus/Nucleolus Structure

The nucleus of the cell is a membrane-bound organelle that includes the nuclear envelope, nucleoli, and nuclear lamina and is the site of gene expression. Nuclear structure can be selectively visualized by staining nuclear proteins or directly staining nucleic acids. Cell-permeant nucleic acid stains make it possible to stain live cells or tissues with minimal processing to reveal the natural location of cells in tissues and provide a means to follow nuclear changes throughout cellular processes, from mitosis to apoptosis.

ReadyProbes nuclear dyes

CellLight reagents for nuclear proteins

A choice of CellLight reagents for labeling the nucleus allows you to label histone proteins using a histone 2B sequence (13.7 kDa) to follow the dynamics of chromosomal behavior, or localize fluorescent protein to the nucleus using an SV40 nuclear localization sequence (1.0 kDa). CellLight proteins can be multiplexed with other fluorescent probes for analysis in live cells, or after fixation for colocalization studies. These ready-to-use constructs express fluorescent fusion proteins after a simple transfection step, and they work like cell stains with minimal toxicity or chemical disruption.

High-performance nuclear dyes

Ideal nuclear dyes should exhibit affinity for both DNA and RNA and display enhanced fluorescence upon binding. For live-cell staining they should be permeant to eukaryotic and prokaryotic membranes and result in minimal toxicity to the cell. For fixed-cell staining, they should be stable and selective. Some of the highest-affinity DNA stains used with fixed cells are also used as dead-cell stains because they are impermeant to eukaryotic or prokaryotic cell membranes

We offer a selection of Molecular Probes nucleic acid stains with a choice of wavelengths for multiplexing and colocalization in either live or fixed cells.

Staining the nucleolus

High-content screening (HCS)

Selection guides

 
Readout
Fluorescent staining of nucleic acids
Target
 Membrane-permeable dyes targeting RNA and DNA
Membrane impermeable dye targeting RNA and DNA
 
Common filter set
DAPI
Cy5
DAPI
Labels
Hoechst 33342
NucRed Live
DAPI
Ex/Em (nm)
360/460
638/686
360/460
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
Yes
Yes
No
Fixed cells
No
No
Yes
Fixable
Yes
No
No
Platform
Imaging 
Imaging 
Imaging 
Protocol Microscopy protocol Microscopy protocol Microscopy protocol
Format
6 x dropper bottles
6 x dropper bottles
6 x dropper bottles
Cat. No.
 
Readout
 Expression of fluorescent fusion protein
Expression of fluorescent fusion protein
Target
 Labels histone proteins within the chromosome
 Localizes flruorescent protein in the nucleus
Common filter set
FITC
TRITC
DAPI
FITC
TRITC
Labels
GFP
RFP
CFP
GFP
RFP
Ex/Em (nm)
488/520
555/584
435/485
488/520
555/584
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Yes
Yes
Live cells
Yes
Yes
Yes
Yes
Yes
Fixed cells
No
No
No
No
No
Fixable
Yes
Yes
Yes
Yes
Yes
Platform
 Imaging
 Imaging
Imaging 
Imaging 
 Imaging
Format
1 mL
1 mL
1 mL
1 mL
1 mL
Cat. No.
 
Readout
Fluorescent staining of nucleic acids
Target
 Membrane-permeable dyes targeting RNA and DNA
Common filter set
FITC
TRITC
Labels
SYTO 9
SYTO 82
Ex/Em (nm)
483/503
541/560
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Live cells
Yes
Yes
Fixed cells
No
No
Fixable
Yes
Yes
Platform
 Imaging
Imaging 
Protocol   Imaging protocol
Format
100 μL
250 μL
Cat. No.
  SYTOX Green Nucleic Acid Stain TO-PRO-3 Iodide SYTOX Deep Red Nucleic Acid Stain
Readout Fluorescent staining of nucleic acids
Target Membrane-permeable dyes targeting RNA and DNA
Common filter set
FITC
Cy5
Cy5
Labels
SYTOX Green
TO-PRO-3
SYTOX Deep Red
Ex/Em (nm)
483/503
642/661
660/682
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
No
No
No
Fixed cells
Yes
Yes
Yes
Fixable
Yes
No
Yes
Platform
Imaging 
Imaging 
Imaging
Protocol Imaging protocol Imaging protocol  
Format
250 μL
1 mL
5 x 50 μL
Cat. No. S11381
 
Readout
 Fluorescent staining
Target
 Selective for RNA
Common filter set
FITC
Labels
SYTO RNASelect
Ex/Em (nm)
490/530
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Live cells
No
Fixed cells
Yes
Fixable
Yes
Platform
Imaging 
Format
100 μL
Cat. No.
 
Readout
Stains nucleus for demarcation
Common filter set
DAPI
Texas Red
Cy5
Ex/Em (nm)
350⁄451
622⁄645
638⁄686
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
Yes
Yes
Yes
Fixed cells
Yes
Yes
No
Fixable
Yes
Yes
Yes
Platform
HCS
HCS
HCS
Protocol
HCS protocol HCS protocol
HCS protocol
Format
65 µL
125 µL
400 µL
Cat. No.
 
Readout
Fluorescent staining of nucleic acids
Target
 Membrane-permeable dyes targeting RNA and DNA
Membrane impermeable dye targeting RNA and DNA
 
Common filter set
DAPI
Cy5
DAPI
Labels
Hoechst 33342
NucRed Live
DAPI
Ex/Em (nm)
360/460
638/686
360/460
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
Yes
Yes
No
Fixed cells
No
No
Yes
Fixable
Yes
No
No
Platform
Imaging 
Imaging 
Imaging 
Protocol Microscopy protocol Microscopy protocol Microscopy protocol
Format
6 x dropper bottles
6 x dropper bottles
6 x dropper bottles
Cat. No.
 
Readout
 Expression of fluorescent fusion protein
Expression of fluorescent fusion protein
Target
 Labels histone proteins within the chromosome
 Localizes flruorescent protein in the nucleus
Common filter set
FITC
TRITC
DAPI
FITC
TRITC
Labels
GFP
RFP
CFP
GFP
RFP
Ex/Em (nm)
488/520
555/584
435/485
488/520
555/584
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Yes
Yes
Live cells
Yes
Yes
Yes
Yes
Yes
Fixed cells
No
No
No
No
No
Fixable
Yes
Yes
Yes
Yes
Yes
Platform
 Imaging
 Imaging
Imaging 
Imaging 
 Imaging
Format
1 mL
1 mL
1 mL
1 mL
1 mL
Cat. No.
 
Readout
Fluorescent staining of nucleic acids
Target
 Membrane-permeable dyes targeting RNA and DNA
Common filter set
FITC
TRITC
Labels
SYTO 9
SYTO 82
Ex/Em (nm)
483/503
541/560
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Live cells
Yes
Yes
Fixed cells
No
No
Fixable
Yes
Yes
Platform
 Imaging
Imaging 
Protocol   Imaging protocol
Format
100 μL
250 μL
Cat. No.
  SYTOX Green Nucleic Acid Stain TO-PRO-3 Iodide SYTOX Deep Red Nucleic Acid Stain
Readout Fluorescent staining of nucleic acids
Target Membrane-permeable dyes targeting RNA and DNA
Common filter set
FITC
Cy5
Cy5
Labels
SYTOX Green
TO-PRO-3
SYTOX Deep Red
Ex/Em (nm)
483/503
642/661
660/682
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
No
No
No
Fixed cells
Yes
Yes
Yes
Fixable
Yes
No
Yes
Platform
Imaging 
Imaging 
Imaging
Protocol Imaging protocol Imaging protocol  
Format
250 μL
1 mL
5 x 50 μL
Cat. No. S11381
 
Readout
 Fluorescent staining
Target
 Selective for RNA
Common filter set
FITC
Labels
SYTO RNASelect
Ex/Em (nm)
490/530
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Live cells
No
Fixed cells
Yes
Fixable
Yes
Platform
Imaging 
Format
100 μL
Cat. No.
 
Readout
Stains nucleus for demarcation
Common filter set
DAPI
Texas Red
Cy5
Ex/Em (nm)
350⁄451
622⁄645
638⁄686
Signal-to-noise ratio
Photostability
Multiplexing
Yes
Yes
Yes
Live cells
Yes
Yes
Yes
Fixed cells
Yes
Yes
No
Fixable
Yes
Yes
Yes
Platform
HCS
HCS
HCS
Protocol
HCS protocol HCS protocol
HCS protocol
Format
65 µL
125 µL
400 µL
Cat. No.
For Research Use Only. Not for use in diagnostic procedures.