Notch and Delta are single-pass transmembrane protein families found in metazoan species. Delta in one cell can bind to, and transactivate, Notch in a neighboring cell. This interaction results in proteolytic release of the Notch intracellular domain (ICD), which translocates to the nucleus and activates target genes
6 (). Delta also plays a second role, inhibiting Notch activity in its own cell (cis-inhibition)
7,8,9,10. Cis-inhibition has been shown to involve direct interaction of the two proteins
11, but current understanding is incomplete
12.
In order to understand how levels of cis- and trans-Delta are integrated by the Notch pathway (), we constructed cell lines that allowed us to independently modulate the levels of cis- and trans-Delta, and quantitatively monitor the transcriptional response of a Notch reporter (,
S1, supplementary). These cell lines stably expressed Notch receptors and corresponding Citrine fluorescent protein (YFP) reporters of Notch activity (
Figs. S1, S2). These cell lines also contained a doxycycline-inducible chimeric Delta(rDll1)-mCherry fusion gene (
Fig. S3). In our main cell line, hN1G4
esn, the intracellular domain of hNotch1 was replaced with a minimal variant of the transcriptional activator Gal4, denoted Gal4
esn (ref.
13), to avoid activation of endogenous Notch targets
14,15,16. A second cell line, hN1, containing the full length hNotch1 was analyzed as a control (
Figure S1). Notch mRNA expression levels in these cells were comparable to those observed in early T-cell progenitors where Notch is active
17 (
supplementary).
We first asked how Notch activity depends on the level of trans-Delta. We adsorbed IgG-Delta
ext fusion proteins to the surface of plates at different concentrations, denoted
Dplate (,
S4)
18,19, and recorded time-lapse movies of Notch activation. Prior to the start of each movie (
t<0), we inhibited Notch activation using the γ-secretase inhibitor N-[N-(3,5-Difluorophenacetyl)-L-alanyl]-S-phenylglycine t-butyl ester (DAPT). At
t=0, DAPT was washed out, allowing the fluorescent reporter to accumulate at a rate determined by Notch activity (,
Movie S1). The YFP production rate showed a graded response to
Dplate well fit by Hill functions with modest Hill coefficients (). A similar response was observed in the hN1 cell line (
Figure S1). This graded response was not due to the use of plate-bound ligands: When cells expressing only Delta were co-cultured with cells expressing only Notch, we observed a similarly graded dependence of Notch activity on Delta expression level, but with greater variability (
Fig. S5).
We next set out to quantify the response of Notch to varying levels of cis-Delta in the hN1G4
esn cell line. We used a scheme in which Delta-mCherry was expressed in a pulse prior to the start of the movie and subsequently allowed to dilute, effectively titrating its concentration ()
20. These experiments were performed at low cell density, where relatively weak intercellular activation of Notch is observed (
Fig. S6), and trans-activation was induced predominantly by
Dplate. At the beginning of the movie Notch reporter expression was fully inhibited by high Delta-mCherry levels (,
Movie S2). Subsequently, Delta-mCherry levels gradually declined with a timescale of τ
D=32±2.5 hours, consistent with dilution by cell growth and division (). At
ton≈40 hours, we observed a sharp onset of reporter expression in the median response of the population (). Even sharper responses were evident in individual cell lineages (,
S13). Similar behavior was observed in the hN1 cell line (
Fig. S7).
To quantify the sharpness of cis-inhibition, we computed the rise time, denoted
τrise, required for Notch activity to increase by a factor of
e in individual cells (, inset). The distribution of
τrise showed a median of 2.6 hours, considerably shorter than τ
D (). For comparison, an equivalently sharp Hill function of cis-Delta would require a Hill coefficient

.
We repeated the experiment at varying levels of
Dplate, allowing us to directly measure the integrated response of Notch across the two-dimensional input space of cis- and trans-Delta levels (,
S14). Activation occurred at a similar
ton, and therefore cis-Delta level, regardless of
Dplate, as indicated by the fixed position of the transition from black to green points in . In addition, the activation remained sharp at all
Dplate values where it could be clearly measured.
Thus, an explanation for the observed cis and trans signal integration must simultaneously account for the three key features of the experimental data: (1) A graded response to trans-Delta (), (2) A sharp response to cis-Delta (), and (3) a fixed threshold for cis-inhibition across varying levels of trans-Delta (). We show here that a simple model can explain these observations in a unified way (
Box 1, ). The model’s key assumption is that Notch and Delta in the same cell mutually inactivate each other. As shown in
Box 1, strong enough mutual inactivation can produce an ultrasensitive switch between two mutually exclusive signaling states: Cells can be in a predominantly “sending” state, with high Delta and low Notch, or a “receiving” state, with high Notch / low Delta (“receiving”), but cannot be in both states at the same time. Alternative models that do not include mutual inactivation fail to account for the observed data (
Fig. S8).
Box 1: Model of mutual inactivation of Notch and DeltaHere we describe a simple model of Notch-Delta interactions that explains the experimental data and provides insight into developmental patterning processes. The model involves several reactions: First, during intercellular signaling Notch in one cell binds to extracellular Delta,
Dtrans, leading to release of the Notch intracellular domain and degradation of its extracellular domain
6. Similarly, Notch in a neighboring cell,
Ntrans, can bind to Delta. Second, Notch binds irreversibly to Delta in the same cell to form a stable, inactive, complex, which is effectively removed from the system
12. Finally, Notch and Delta are produced at constant rates, and degraded and/or diluted at a constant rate, in addition to their removal through the interactions described above.
These reactions can be expressed as a set of ordinary differential equations for free Notch,
N, and free Delta,
D, in an individual cell. An additional equation represents the intracellular domain of Notch, denoted
S, which activates expression of the fluorescent reporter gene:
Here,
Dtrans represents
Dplate in -, but could also represent Delta levels in one or more neighboring cells (
supplementary). Similarly,
D in these equations corresponds to
Dcis in the experiments.
βN and
βD denote the production rates of Notch and Delta, respectively. The combined degradation and dilution rate,
γ, is assumed for simplicity to be the same for Notch and Delta.
γS is the rate of decay for
S.
kc and
kt determine the strengths of cis-inhibition and trans-activation, respectively. See
supplementary for a more detailed description.
At steady-state, mutual inactivation leads to a switch between two qualitatively distinct behaviors, depending on the relative production rates of Delta and Notch. When βD > βN, excess Delta effectively inactivates most Notch, allowing cells to send, but not to efficiently receive, signals. Conversely, when βD < βN, excess Notch effectively inactivates Delta, allowing cells to receive, but not efficiently send. Thus, the system approaches two mutually exclusive signaling states: high Delta / low Notch (“sending,” pink shading in Box Fig.), and high Notch / low Delta (“receiving,” blue shading). Note that this switch is not bistable.
At steady-state the transition between the two regimes is ultrasensitive: Near the threshold, a small relative change in
βD (or
βN) can lead to a much larger change in signaling (
Fig. S11). Related biochemical kinetics occur in bacterial sRNA, and protein sequestration
27,28,29. In , ultrasensitivity occurs dynamically in response to the decay of the total Delta concentration (
supplementary).
The three features described above emerge naturally in this model. First, in the absence of cis-Delta, Notch activation is proportional to trans-Delta concentration, generating a graded response. Second, a sharp response to cis-Delta results from mutual inactivation, which causes an excess of either protein to strongly diminish the activity of the other. Finally, the switching point occurs when Notch and cis-Delta levels are comparable, and is therefore only weakly dependent on trans-Delta.
The mutual inactivation model predicts cis-inhibition, not just of Notch by Delta, but also of Delta by Notch. This interaction is supported by results in other systems
12,21,22. We tested this prediction in our system using a transactivation assay based on co-culture of Delta-expressing “sending” cells with Notch reporter cells. Expression of Notch in the Delta-expressing cells reduced their ability to transactivate, as predicted (
Fig. S9). While the exact biochemical mechanism of mutual inactivation remains unclear, we observed no sharp drop in total cellular Delta-mCherry fluorescence during switching, suggesting that the inactive complex may be stable in these conditions ().
What implications does the signaling switch have for multicellular patterning? Consider two neighboring cells which produce Notch and Delta at constant rates (). A slight excess of Notch production in one cell and a slight excess of Delta production in its neighbor can generate a strong signaling bias in one direction: the first cell becomes a receiver and the second becomes a sender. In this way, a small difference in production rates between cells is amplified into a much larger difference in Notch activity (). This amplification does not require transcriptional regulation or feedback.
The send-receive signaling switch can facilitate formation of sharp boundaries. For example, in
Drosophila, Notch and Delta sharply delineate wing vein boundaries
4,5. In this system, Delta production is initially expressed in a graded profile transverse to the vein. Eventually, Notch signaling is restricted to two sharp side bands on either side of the vein axis.
As a simplified model, we simulated the development of a field of cells with a graded rate of Delta production and a uniform rate of Notch production (). The mutual inactivation model generated sharply defined side-bands of Notch signaling at positions where the two production rates intersect, i.e. where ‘sender’ and ‘receiver’ cells are next to each other (). Moreover, this model explains a striking mutant behavior occurring in the
Drosophila wing vein system. While Notch and Delta are individually haploinsufficient (causing thicker veins), the Notch
+/- Delta
+/- double mutant restores the wild-type phenotype
23. This suppression of the single mutant phenotypes in the double mutant emerges automatically in the model because proportional rescaling of the Notch and Delta production rates does not move their intersection points (). This suppression is maintained across a broad range of parameter values and persists even with additional feedbacks (
Fig. S10f), but is difficult to explain in other models (
Fig. S10, supplementary).
The send-receive signaling switch can also facilitate lateral inhibition patterning. When Notch transcriptionally downregulates Delta expression, the resulting intercellular positive feedback loop can generate ‘checkerboard’ patterns of Notch activity ()
24,25. Without mutual inactivation, pattern formation requires a minimum Hill coefficient of
n > 2, or higher, in the regulatory feedback loop (, left,
supplementary). Although we cannot rule out such cooperativity, or additional feedback loops, no evidence for strongly cooperative trans-activation was observed here or previously (,
S1). In contrast, mutual inactivation enables patterning even without cooperativity, by introducing a sharp response to changes in Delta expression, (, right panel). In addition, for strong enough cis-inhibition, mutual inactivation allows cells with high Delta levels to co-exist next to one another at steady-state, leading to a broader range of possible patterns (
Fig. S17). Finally, we note that low levels of free Notch (Delta) exist in sender (receiver) cells at finite mutual inactivation strength (
Fig. S11). The resulting signaling between like cells (senders or receivers) can play a role in lateral inhibition patterning dynamics.
Different signal transduction pathways are optimized to encode and transmit information in different ways, depending on the tasks they perform in the organism. Our results show that mutual inactivation between Notch and Delta in the same cell forces cells into predominantly sending or receiving states (
Box 1 Figure). In a multicellular context, this mechanism amplifies small initial differences between neighboring cells, and facilitates pattern formation (). This signaling switch thus appears to optimize the Notch-Delta pathway for directional signaling, and may explain why it is employed in specific developmental processes. Moreover, this mechanism could also provide other advantages such as faster dynamics
26,27. We note that interactions between Notch and Delta are typically embedded in more complex dynamic regulatory networks that involve additional feedbacks. It will be important to explore how this signaling switch functions in the context of larger regulatory circuits.