
Citation: Ling Wang, Shunbin Ning. “Toll-free” pathways for production of type I interferons[J]. AIMS Allergy and Immunology, 2017, 1(3): 143-163. doi: 10.3934/Allergy.2017.3.143
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The study of population dynamics is an important branch of ecosystem models and has attracted the special interest of ecologists and applied mathematics at historical and contemporary stages [1,2]. Mathematical models play a key role in understanding changes in biological systems [3,4] and the effect of control measures [5]. In ecosystems, predation is an important way for species to interact and depend on each other. The pioneer work in mathematics that describes the interplay or dynamics between predator and prey belongs to the Lotka [6] and Volterra [7], which is well known as the Lotka-Voterra model. Subsequently, scholars have refined and enhanced the model in the application of different scenarios and proposed different kinds of uptake functions to characterize the predator's hunting ability [8,9,10,11]. The uptake function with a Holling type is representative and applicable to predation phenomena of different species, ranging from lower organisms such as algae and unicellular organisms to invertebrates and vertebrates, such as Holling-Ⅰ [12], Holling-Ⅱ [13], Holling-Ⅲ [14], Holling-(n+1) [15] and so on. The Holling-Ⅲ functional response showed that the predator's predation reached saturation when the number of prey reached a certain level [14], which is consistent with most of the actual situations. Therefore, it is of a great significance to study the dynamics of a predator-prey model with a Holling-Ⅲ functional response function.
Over the long period of evolution, prey have evolved with a series of anti-predator behaviors. The anti-predator behaviors of prey can be classified into two categories: (ⅰ) defensive counterattacks [16] and (ⅱ) morphological or behavioral changes, including camouflage [17], seeking refuge [18,19], and so on. The benefit of anti-predator behaviors is that they reduce the risk of predation. Red colobus monkeys show siege when they are threatened by chimpanzees [16], cuttlefish choose to camouflage by matching background features [17], northern pigtailed macaques select trees with abundant branches and elevated sleeping locations in order to minimize the threat of predation [18], and white-headed langurs opt for cliff edges or caves as their nocturnal habitats, thus seeking refuge from predators such as leopard cats [19]. Anti-predator behaviors are widespread in nature and are essential to consider in the modeling process. Tang and Xiao [20] proposed a model of the first type of anti-predation behaviors by adding anti-predation terms to reduce the rate of predator growth. It was demonstrated that anti-predator behaviors inhibit predator-prey oscillations and decreased the likelihood of the coexistence between prey and predator [21]. However, many animals lack strong defenses against attacks and they often exhibit the second type anti-predation behavior. An anti-predator model for habitat selection or vigilance was proposed by Ives and Dobson [22], which takes the form:
{dxdt=x[r(1−xK)−v−e−εvqy1+ax],dydt=ce−εvqxy1+ax−my. | (1.1) |
The existence of the anti-predator effect modulates the reproductive capacity of prey through the factor vx. For example, yellow-eyed juncos exhibit a heightened vigilance by dedicating more time to scanning for predators upon the release of a trained Harris hawk in their vicinity, thus resulting in a reduced time spent foraging for food [23]. It is hypothesized that the diminished feeding rates will ultimately either heighten the likelihood of starvation or hinder the ability to successfully rear offspring. Werner et al. discovered that when bass are present, bluegills will select not rich in resources but more hidden habitats, moreover, bluegills reared in the presence of bass attain only approximately 80% of the mass compared to those raised without the bass present [24]. Additionally, predators pay a price for the anti-predator effect, which is defined by the term e−εv on the predator's hunting ability. Based on this consideration, a prey-predator model with a prey habitat selection is considered in this study.
In reality, population systems are typically subjected to a wide range of random disturbances. May has pointed out that the rate of growth, environmental carrying capacity, coefficient of competition, and other pertinent system parameters are all impacted by environmental noise to differing degrees [25]. The deterministic model has certain limitations, in some situations, frequently yields disappointing results. To more accurately characterize and predict the population ecosystems, it is necessary to investigate population models with stochastic disturbances. In natural system, the stochastic disturbances can be described by white noise [26], colored noise [27], Levy jumps [28], Markov switching [29], and others. Population systems are often subject to environmental fluctuations. Generally speaking, such fluctuations could be modeled by a colored noise. Moreover, if the colored noise is not strongly correlated, then it can be approximately modeled by a white noise, and the approximation works quite well [30]. Mao et al. observed that even the smallest white noise can suppress the population explosion and provided a classical method for the uniqueness of the solution [31]. Ji and Jiang [32] explored a stochastic predatory system that incorporated Beddington-DeAngelis uptake function and discussed the asymptotic property of the system model. Liu et al. [33] put forward a prey-predator system model which followed the Holling type-Ⅱ uptake function in an environment that involved stochastic disturbances. Zhang et al. [34] analyzed a prey-predator system model by considering the Holling type-Ⅱ uptake function and hyperbolic mortality in an environment subject to stochastic disturbances. Liu [35] analyzed the dynamics of a stochastic regime-switching predator-prey model with modified Leslie-Gower Holling-type Ⅱ schemes and prey harvesting. Li et al. [36] proposed a Melnikov-type method for chaos in a class of hybrid piecewise-smooth systems with impact and noise excitation under unilateral rigid constraint. In the present investigation, it is assumed that the environment is influenced by white noise in the modeling process.
The structure of this paper is organized as follows: in Section 2, a prey-predator system model with prey habitat selection and stochastic disturbances is formulated, which is followed by a presentation of some basic notations, definitions, and crucial lemmas used in this study; in Sections 3 and 4, the basic properties and dynamic behavior of the system model with or without stochastic disturbances are investigated; in Section 5, numerical simulations with discussions are presented to illustrate the main results; and finally, the work is summarized and further research directions are put forward.
When prey habitat selection is considered, the prey-predator model can be described as follows:
{dx(t)dt=x(t)[r(1−x(t)K)−v−e−(vm+m0)x(t)y(t)1+ax(t)2]:=xF1(x,y),dy(t)dt=y(t)[ce−(vm+m0)x(t)21+ax(t)2−by(t)−d]:=yF2(x,y), | (2.1) |
where
● x — prey's densities;
● y — predator's densities;
● r — prey's intrinsic growth rate;
● K — prey's environmental carrying capacity;
● v — intensity of anti-predator effect;
● c — conversion efficiency;
● b — interspecific competition coefficient;
● d — natural mortality rate;
● m — efficiency of anti-predator behavior;
● e−m0 — maximum predation rate.
Considering the changes in the natural environment and the universality of random disturbances, we introduce white noise into the Model (2.1) in order to analyze the effect of random disturbances on the Model (2.1). Let
r→r+σ1˙B1(t),−d→−d+σ2˙B2(t), |
where σi represents the white noise intensity, which describes the strength of random disturbance in the environment. Bi(t) stands for a Brownian motion, i=1,2. Then, the model subject to stochastic disturbances is represented as follows:
{dx(t)=x(t)[r(1−x(t)K)−v−e−(vm+m0)x(t)y(t)1+ax(t)2]dt+σ1x(t)dB1(t),dy(t)=y(t)[ce−(vm+m0)x(t)21+ax(t)2−by(t)−d]dt+σ2y(t)dB2(t). | (2.2) |
All the parameters in Model (2.1) and Model (2.2) are positive. In addition, it is assumed that v≤r and c≥c_≜adevm+m0 in Model (2.1) for biological restriction.
Let us denote the following:
⟨u(t)⟩≜limt→+∞∫t0t−1u(s)ds,⟨u(t)⟩∗≜limt→+∞sup∫t0t−1u(s)ds,⟨u(t)⟩∗≜limt→+∞inf∫t0t−1u(s)ds. |
Consider the following:
dU(t)=F(U(t),t)dt+G(U(t),t)dB(t), | (2.3) |
where B(t) is a standard Brownian motion defined on (Ω,F,{Ft}t≥0,P) equipped with {Ft}t≥0, where F(U(t),t)∈Rl×[0,+∞), G(U(t),t)l×q is a matrix. Define L as follows:
L=∂∂t+l∑i=1Fi(U(t),t)∂∂Ui+12l∑i,j=1[GT(U(t),t)G(U(t),t)]i,j∂2∂Ui∂Uj. |
For V(U(t),t)∈C2,1(Rl×[0,+∞),R+), there is
LV(U(t),t)=12trace[GT(U(t),t)VUU(U(t),t)G(U(t),t)]+Vt(U(t),t)+VU(U(t),t)F(U(t),t), |
where Vt=∂V∂t, VU=(∂V∂U1,∂V∂U2,⋯,∂V∂Ul), VUU=(∂2V∂Ui∂Uj)l×l. Then,
dV(U(t),t)=VU(U(t),t)G(U(t),t)dB(t)+LV(U(t),t)dt. |
Definition 1 (Stochastically ultimate boundedness[31]). The solution (u(t),v(t)) is defined as having the property of stochastically ultimate boundedness if for any ε∈(0,1), there exists a constant χ>0 such that
lim supt→+∞P{||(u(t),v(t))||2>χ}<ε,∀(u0,v0)∈R2+. |
Definition 2 (Extinction and persistence[26]). The species u is defined as extinction when limt→+∞u(t)=0, weakly persistence (in the mean) when ⟨u(t)⟩∗>0, strong persistence (in the mean) when ⟨u(t)⟩∗>0, persistence (in the mean) when ⟨u(t)⟩>0, and weak persistence when limt→+∞supu(t)>0.
Assume that U(t)∈El is a regular time-homogeneous Markov process characterized by the following stochastic differential equation:
dU(t)=b(U)dt+q∑k=1gr(U)dBr(t). |
The diffusion matrix of the process U(t) is denoted as follows:
Λ(U)=(λij(U))l×l,λij(U)=q∑k=1gir(U)gjr(U). |
Lemma 1 (Ergodic stationary distribution [37]). For a given Markov process U(t)∈El, it is called possessing a unique ergodic stationary distribution μ(⋅) if ∃I⊂El with boundary Γ such that i) min(eig(Λ(U))) is bounded in I and some neighborhood of I; ii) For u∈El∖I, if a path originating from u can reach I in a finite average time τ and supu∈SEuτ<∞, ∀S⊂El, where S is a compact subset.
Remark 1. To establish the condition i), it is sufficient to demonstrate that ∃θ>0 such that
l∑i,j=1aij(u)ξiξj≥θ||ξ||2,u∈I,ξ∈Rl; |
To establish the condition ii), it is crucial to demonstrate the existence of a neighborhood I along with V∈C2 such that LV(u)<0, ∀u∈El∖I.
Lemma 2 ([26]). For a given u(t)∈C[Ω×[0,+∞),R+]:
(1) If ∃ρ0,T>0 with
u(t)≤exp(ρt−ρ0∫t0u(s)ds+n∑i=1αiBi(t)) |
for t≥T, then
{⟨u⟩∗≤ρρ0,ρ≥0limt→+∞u(t)=0,ρ<0 |
(2) If ∃ρ0, T and ρ with
lnu(t)≥ρt−ρ0∫t0u(s)ds+n∑i=1αiBi(t) |
for t≥T, then ⟨u⟩∗≥ρρ0.
Lemma 3 ([37]). For T0>0, α1>0 and α2>0, it has
P{sup0≤t≤T0[∫t0g(s)dB(s)−α12∫t0|g(s)|2ds]>α2}≤e−α1α2. |
As the population densities are non-negative, the discussion on Model (2.1) is restricted in the region R2/R2−. The equilibrium of Model (2.1) satisfies the following:
{x[r(1−xK)−v−e−(vm+m0)xy1+ax2]=0,y[ce−(vm+m0)x21+ax2−by−d]=0. |
Obviously, Model (2.1) always has two equilibria: O(0,0) and EB(¯K,0), where ¯K≜(1−v/r)K. O(0,0) is a saddle and constantly unstable.
Define the following:
ψ(x)≜(r−v)evm+m0(1+ax2)(1x−1¯K),ϕ(x)≜1b(ce−vm−m0x21+ax2−d). |
Then, x=0 and y=ψ(x) are two x-isolines, y=0 and y=ϕ(x) are two y-isolines.
Since
ψ′(x)=(r−v)evm+m0x2(−2a¯Kx3+ax2−1), |
then it has ψ′(x)→−∞ as x→0. Denote ¯v≜r(1−3√3/a¯K−2). For v≥¯v, there is ψ′(x)≤0 for x∈(0,¯K]; for 0≤v<¯v, it has ψ′(¯K/3)>0. Then, there exists x1∈(0,¯K/3) and x2∈(¯K/3,¯K) such that ψ(x1)=ψ(x2)=0.
Similarly, it has ϕ(0)=−d/b, ϕ′(x)>0 for x∈[0,¯K] and ϕ(x)=0 if and only if x=¯x≜√devm+m0c−adevm+m0. Obviously, ¯x<¯K if and only if c>¯c≜devm+m0(a+¯K−2).
Theorem 1. The boundary equilibrium EB(¯K,0) is globally asymptotically stable for c_≤c≤¯c.
Proof. At EB(¯K,0), the Jacobian matrix is as follows:
JEB(¯K,0)=(v−r−e−(vm+m0)¯K21+a¯K20ce−(vm+m0)¯K21+a¯K2−d), |
and its characteristic roots are as follows:
λ1=v−r<0,λ2=d(c¯c−1). |
If c<¯c, then there is λ2<0, then EB(¯K,0) is a node and locally asymptotically stable. If c=¯c, there is λ2=0, then EB(¯K,0) is a saddle-node. Since for c≤¯c, there is ϕ(x)<0, i.e., dy/dt<0 for x∈[0,¯K), then y(t)→0 as t→∞. While dx/dt>0 for x∈[0,K) and y=0, then x(t)→K, i.e., EB(¯K,0) is globally asymptotically stable.
For c>¯c, there is ¯x<¯K. In such case, EB(¯K,0) is unstable.
Theorem 2. For c>¯c, Model (2.1) has at least one and no more than three interior equilibria. Moreover, if ¯v≤v<r, then the interior equilibrium is unique. In addition, the interior equilibrium ˆE(ˆx,ˆy) is locally asymptotically stable if and only if ϕ(ˆx)<ψ′(ˆx)<bcˆy/(bˆy+d).
Proof. Since there are ψ(¯x)>0 and ψ(¯K)=0 for c>¯c, ϕ(¯x)=0, ϕ(¯K)>0, according to the mediocrity theorem, there exists at least one x∗∈(¯x,¯K) such that ψ(x∗)=ϕ(x∗), i.e., Model (2.1) has at least one interior equilibrium E∗(x∗,y∗), where y∗=ψ(x∗), as illustrated in Figure 1.
For ¯v≤v<r, y=ψ(x) is monotonically decreasing on (¯x,¯K) and y=ϕ(x) is monotonically increasing on (¯x,¯K); therefore, y=ψ(x) and y=ϕ(x) have a unique intersection point, i.e., the interior equilibrium E(x∗,ψ(x∗)) is unique (Figure 1(d)).
For 0<v<¯v, y=ϕ(x) is monotonically increasing and tends to saturation y=ysup≜ce−vm−m0−adab. Alternatively, y=ψ(x) is monotonically decreasing on (0,x1), monotonically increasing on (x1,x2), and monotonically decreasing on (x2,¯K), which forms a S-type on (0,¯K). Thus, y=ψ(x) and y=ϕ(x) have no more than three intersections, i.e., Model (2.1) has no more than three interior equilibria (Figure 1(b)).
For the given interior equilibrium ˆE(ˆx,ˆy), the Jacobian matrix is as follows:
JˆE(ˆx,ˆy)=(ˆx∂F1∂x(ˆx,ˆy)ˆx∂F1∂y(ˆx,ˆy)ˆy∂F2∂x(ˆx,ˆy)ˆy∂F2∂y(ˆx,ˆy))=(e−vm−m0ˆx1+aˆx2ψ′(ˆx)−e−vm−m0ˆx1+aˆx2bˆyϕ′(ˆx)−bˆy). |
Since
Trace(JˆE(ˆx,ˆy))=ˆxevm+m0(1+aˆx2)ψ′(ˆx)−bˆy=ˆy[bˆy+dcˆyψ′(ˆx)−b], |
Det(JˆE(ˆx,ˆy))=bˆxˆyevm+m0(1+aˆx2)[ϕ′(ˆx)−ψ′(ˆx)], |
if ϕ(ˆx)<ψ′(ˆx)<bcˆy/(bˆy+d), then there are Trace(JˆE(ˆx,ˆy))<0 and Det(JˆE(ˆx,ˆy)) (i.e., the interior equilibrium ˆE(ˆx,ˆy) is locally asymptotically stable).
In this segment, we will examine various characteristics of the stochastic prey-predator model.
Theorem 3. For ∀(x0,y0)∈R2+, Model (2.2) possesses a unique, global solution (x(t),y(t)) for t>0, which keeps positive with a probability with one.
Proof. Denote x(t)=ep(t), y(t)=eq(t). Consider the following:
{dp(t)=[r(1−ep(t)K)−v−e−(vm+m0)ep(t)+q(t)1+ae2p(t)]dt+σ1dB1(t),dq(t)=[ce−(vm+m0)e2p(t)1+ae2p(t)−beq(t)−d]dt+σ2dB2(t). | (4.1) |
It can be verified that Model (4.1) fulfills the Local Lipschitz Condition; then, for given p0=lnx0,q0=lny0, it guarantees the existence of a unique, locally positive solution (p(t),q(t)) on the interval [0,τe), where τe is the time of explosion. The Itˆo formula implies that (x(t),y(t))=(ep(t),eq(t)) is exactly the solution of Model (2.2).
Next, it is sufficient to demonstrate that τe=∞. Let n0 be an integer satisfy (x0,y0)⊂[1n0,n0]. For n≥n0, define the following:
τn=inf{t∈[0,τe):min{x(t),y(t)}≤1normax{x(t),y(t)}≥n}. |
For an empty set ϕ, define infϕ=∞. It is evident that τn increases with n→∞. Define τ∞=limn→∞τn. Then, τ∞≤τe. It is only necessary to prove that τ∞=∞.
By contradiction, it is assumed that τ∞<∞. Then, there exist ε∞∈(0,1) and T∞>0 satisfying P{τ∞≤T∞}>ε∞. Thus, ∃n∞≥n0 such that
P{τn≤T∞}>ε∞,n≥n∞. | (4.2) |
Define the following:
V(x,y)≜(x−1−lnx)+1c(y−1−lny). |
Clearly, V(x,y) is nonnegative because s−1−lns≥0 when s>0. Then,
dV(x,y)=LVdt+(x−1)σ1dB1(t)+1c(y−1)σ2dB2(t), |
where
LV=(x−1)[r(1−xK)−v−e−(vm+m0)xy1+ax2]+σ212+1c(y−1)[ce−(vm+m0)x21+ax2−by−d]+σ222c=rx−rx2K−vx+rxK+e−(vm+m0)xy1+ax2−dyc−by2c+byc−e−(vm+m0)x21+ax2+(v+dc−r)+σ212+σ222c≤rx−vx−rx2K+rxK+e−(vm+m0)yax+y(bc−dc−byc)+v+dc−r+σ212+σ222c≤Θ. |
Thus, it can be concluded that
dV≤Θdt+(x−1)σ1dB1(t)+1c(y−1)σ2dB2(t). |
By taking expectations after integrating over the interval (0,τn∧T∞), we have the following:
EV(x(τn∧T∞),y(τn∧T∞))≤V(x0,y0)+ΘE(τn∧T∞)≤V(x0,y0)+ΘT∞. | (4.3) |
Denote Ωn={w∈Ω|τn=τn(w)≤T∞}. Then, P(Ωn)>ε by Eq (4.2). It can be obtained that x(τn,w) and y(τn,w) equal to either 1n or n for all w∈Ωn. From Eq (4.3), we obtain the following:
V(x0,y0)+ΘT∞≥E(1ΩnV(x(τn),y(τn)))≥ε∞min{1n−1−ln1n,n−1−lnn}, |
which implies
∞>V(x0,y0)+ΘT∞=∞asn→∞. |
Therefore, we can obtain the following:
P{τ∞=∞}=1. |
Define the following:
λ≜r−v−d−σ212−σ222−δe−(vm+m0)−(rK+r−v−2e−(vm+m0)√δc)24(rK−δae−(vm+m0))−(b−d)24b, |
where δ∈(0,rKa).
Theorem 4. For ∀(x0,y0)∈R2+, Model (2.2) possesses a unique, ergodic stationary distribution for t≥0 if λ>0.
Proof. Since
d(xy)=(x[r(1−xK)−v−e−(vm+m0)xy1+ax2]y[ce−(vm+m0)x21+ax2−by−d])dt+(σ1x0)dB1(t)+(0σ2y)dB2(t), |
its diffusion matrix is given by the following
Λ(x,y)=(σ21x200σ22y2). |
Let θ≜min{σ21x2,σ22y2}. Then, it has
2∑i,j=1λij(xy)ξiξj=σ21x2ξ21+σ22y2ξ22≥θ|ξ|2, |
so Lemma 1 condition (i) holds.
To show Lemma 1 condition (ⅱ) holds, set the following:
H(x,y)=−M1(lnx+lny−x−y)+12(cx+y)2=H1(x,y)+H2(x,y), |
where H1(x)=−M1(lnx+lny−x−y), H2(y)=12(cx+y)2, M1=2λmax{2,sup(x,y)∈R2+{−b12x3+b2x2−b32y3+b4y2}}>0, and bi>0 (for i=1,2,3,4), will be specified lately. H(x,y) tends to infinity when (x,y) tends to the boundary of R2+, so H(x,y) has a lower bound at (x′,y′)∈R2+. Define
W(x,y)=H(x,y)−H(x′,y′). |
For ∀δ∈(0,rka), there are xy1+ax2≤xy, −cx21+ax2≤−2√δcx+δ(1+ax2) and cx2y1+ax2≤cxy2√a.
By the Itˆo formula, it has the following:
LH1=−M1[(1−x)(r−rxK−v−e−(vm+m0)xy1+ax2)−σ212+(1−y)(ce−(vm+m0)x21+ax2−by−d)−σ222]=−M1[r−rxK−v−e−(vm+m0)xy1+ax2−rx+rx2K+vx+e−(vm+m0)x2y1+ax2+ce−(vm+m0)x21+ax2−by−d−ce−(vm+m0)x2y1+ax2+by2+dy−σ212−σ222]≤M1(e−(vm+m0)+ce−(vm+m0)2√a)xy−M1(r−v−d−σ212−σ222−δe−(vm+m0))−M1(−rxK−rx+vx+rx2K+2e−(vm+m0)√δcx−δae−(vm+m0)x2−by+by2+dy)≤M1(e−(vm+m0)+ce−(vm+m0)2√a)xy−M1(r−v−d−σ212−σ222−δe−(vm+m0)−(rK+r−v−2e−(vm+m0)√δc)24(rK−δae−(vm+m0))−(b−d)24b)=M1(e−(vm+m0)+ce−(vm+m0)2√a)xy−M1λ, | (4.4) |
where λ=r−v−d−σ212−σ222−δe−(vm+m0)−[rK+r−v−2e−(vm+m0)√δc]24[rK−δae−(vm+m0)]−(b−d)24b.
Similarly,
LH2=(cx+y)[cx(r−rxK−v−e−(vm+m0)xy1+ax2)+y(ce−(vm+m0)x21+ax2−by−d)]+σ212c2x2+σ222y2=(cx+y)(rcx−rcx2K−vcx−by2−dy)+σ212c2x2+σ222y2≤rc2x2−rc2Kx3+rcxy−by3+σ212c2x2+σ222y2=−rc2Kx3+c2(r+σ212)x2−by3+σ222y2+crxy. | (4.5) |
Combining (4.4) and (4.5), we have the following:
LW≤−M1λ−rc2Kx3+c2(r+σ212)x2−by3+σ222y2+[cr+M1(e−(vm+m0)+ce−(vm+m0)2√a)]xy=−M1λ−b1x3+b2x2−b3y3+b4y2+b5xy, | (4.6) |
where b1=rc2K, b2=c2(r+σ212), b3=b, b4=σ222, and b5=cr+M1[e−(vm+m0)+ce−(vm+m0)2√a].
Denote U=[ε,1/ε]×[ε,1/ε] for the given
0<ε<min{M1λ4b5,b32b5,b12b5}, | (4.7) |
1−M1λ+M2≤min{b12ε3,b32ε3}, | (4.8) |
where M2=sup(x,y)∈R2+{−b12x3+b2x2−b32y3+b4y2+b52(x2+y2)}. Then, R2+∖U can be divided into four regions, R2+∖U=Ω1⋃Ω2⋃Ω3⋃Ω4, in which
Ω1={(x,y)∈R2+|0<x<ε},Ω2={(x,y)∈R2+|0<y<ε}, |
Ω3={(x,y)∈R2+|x>1ε},Ω4={(x,y)∈R2+|y>1ε}. |
Next, we will prove that LW≤−1 on each Ωi (i=1,2,3,4), respectively.
1) For ∀(x,y)∈Ω1, there is xy≤εy≤ε(1+y3). By (4.6) and (4.7), we obtain the following:
LW≤−M1λ−b1x3+b2x2−b3y3+b4y2+εb5+εb5y3≤−M1λ4−(M1λ4−εb5)−(b32−εb5)y3−M1λ2−b12x3+b2x2−b32y3+b4y2≤−M1λ4≤−1. |
2) For ∀(x,y)∈Ω2, there is xy≤εx≤ε(1+x3). By (4.6) and (4.7), we obtain the following:
LW≤−M1λ−b1x3+b2x2−b3y3+b4y2+εb5+εb5x3≤−M1λ4−(M1λ4−εb5)−(b12−εb5)x3−M1λ2−b12x3+b2x2−b32y3+b4y2≤−M1λ4≤−1. |
3) For ∀(x,y)∈Ω3, by (4.6)–(4.8), we obtain the following:
LW≤−M1λ−b1x3+b2x2−b3y3+b4y2+b52(x2+y2)≤−M1λ−b12x3−b12x3+b2x2−b32y3+b4y2+b52(x2+y2)≤−M1λ−b12ε3+M2≤−1. |
4) For ∀(x,y)∈Ω4, by (4.6)–(4.8), we obtain the following:
LW≤−M1λ−b1x3+b2x2−b3y3+b4y2+b52(x2+y2)≤−M1λ−b32y3−b32y3+b2x2−b12x3+b4y2+b52(x2+y2)≤−M1λ−b32ε3+M2≤−1. |
To sum up, condition (ⅱ) in Lemma 1 holds. Thus the Model (2.2) possesses a unique, ergodic stationary distribution.
In this section, we will go into more detail on whether the solution is always bounded.
Theorem 5. Model (2.2)'s solutions are stochastically ultimate bounded.
Proof. Let V1(x,y)=x12+y12. Then,
dV1(x,y)=LV1dt+σ12x12dB1(t)+σ22y12dB2(t), |
where
LV1=12x12[r(1−xK)−v−e−(vm+m0)xy1+ax2]−σ218x12+12y12[ce−(vm+m0)x21+ax2−by−d]−σ228y12≤12(r−rxK−σ214)x12+12(cae−(vm+m0)−by−d−σ224)y12=12(2+r−rxK−σ214)x12+12(2+cae−(vm+m0)−by−d−σ224)y12−V1(x,y)≤P0−V1(x,y), |
where P0 represents a positive constant, expressed as
P0=sup(x,y)∈R2+{12(2+r−rxK−σ214)x12+12(2+cae−(vm+m0)−by−d−σ224)y12}. |
Then,
dV1(x,y)≤(P0−V1(x,y))dt+σ12x12dB1(t)+σ22y12dB2(t), |
so
d(etV1(x,y))=et[V1(x,y)dt+dV1(x,y)]≤etP0dt+σ12x12etdB1(t)+σ22y12etdB2(t). |
Thus,
E(etV1(x,y))=etE(V1(x,y))≤V1(x0,y0)+P0(et−1) |
and
lim supt→+∞E(V1(x,y))≤P0⇒lim supt→+∞E|(x,y)|12≤P0. |
Therefore, for any normal number ε, set χ=P20ε2. Utilizing Chebyshev's inequality[31,37], there is the following:
P{|(x,y)|>χ}≤E|(x,y)|12√χ⇒supP{|(x(t),y(t))|>χ}≤εast→+∞. |
The objective of this section is to explore the extinction and persistence for the populations.
Lemma 4. For Model (2.2), there are limt→+∞sup{t−1lnx(t)}≤0 and limt→+∞sup{t−1lny(t)}≤0.
Proof. Since
d(etlnx(t))=et(lnx+r−rxK−v−e−(vm+m0)xy1+ax2−σ212)dt+etσ1dB1(t), | (4.9) |
then
etlnx(t)=∫t0es(lnx(s)+r−rx(s)k−v−e−(vm+m0)x(s)y(s)1+ax2(s)−σ212)ds+∫t0esσ1dB1(s)+lnx0. |
Let M(t)=σ1∫t0esdB1(s). M(t) can be regarded as a localized harness that exhibits the following quadratic variance function:
⟨M(t),M(t)⟩=σ21∫t0e2sds. |
Take μ>1 and γ>1. For k∈N, denote α=e−γk, β=μeγklnk, T=γk. Then, according to the Exponential Martingale Inequality, it has the following:
P(sup0≤t≤T{[M−α2⟨M(t),M(t)⟩]>β})≤1kμ. |
Since ∑1kμ<∞, then by the Borel-Cantelli lemma[31,37], there exists Ω∈F with P(Ω)=1 and the integer-valued random variable k0(w) such that for any ω∈Ω and k≥k0(ω), there is the following:
M(t)≤μeγklnk+12e−γk⟨M(t),M(t)⟩,0≤t≤γk. |
Hence,
etlnx(t)≤∫t0es(lnx(s)+r−rx(s)K−v−e−(vm+m0)x(s)y(s)1+ax2(s)−σ212)ds+12e−γk⟨M(t),M(t)⟩+μeγklnk+lnx0≤∫t0esQ(x(s))ds+μeγklnk+lnx0, |
where Q(x(s))=r−rx(s)K−v−σ212+σ212es−γk+lnx(s). For any s that satisfies 0≤s≤γk, x(s)>0, a k-independent positive constant Φ0 can be found such that Q(x(s))≤Φ0, then, etlnx(t)−lnx0≤Φ0(et−1)+μeγklnk and lnx(t)≤Φ0(1−e−t)+μeγk−tlnk+e−tlnx0. Then,
lnx(t)t≤Φ0(1−e−t)t+μeγk−γ(k−1)tlnk+e−tlnx0t. |
Let t→∞; we obtain limt→∞suplnx(t)t≤0. In a similar way, one can establish limt→∞suplny(t)t≤0.
Denote η≜limt→+∞supx(t) and define the following:
Δ1≜Kr(r−v−σ212),Δ2≜ce−(vm+m0)a−d−σ222,Δ3≜ce−(vm+m0)aη21+aη2−d−σ222. |
Theorem 6. For Model (2.2)'s solution with a given (x0,y0)∈R2+, when Δ1<0, both species x and y will eventually go extinct; when Δ1>0, species x can keep weakly persistent; when Δ1>0 and Δ2<0, species x can keep persistent ⟨x(t)⟩=Δ1 and species y will eventually go extinct; and when Δ1>0 and Δ3>0, both species x and y can keep weakly persistent.
Proof. 1) Since
dlnx=[r(1−xK)−v−e−(vm+m0)xy1+ax2−σ212]dt+σ1dB1(t), |
then
lnx(t)=∫t0(r−rxK−v−e−(vm+m0)xy1+ax2−σ212)ds+σ1B1(t)+lnx0. |
Subsequently, it has
lnx(t)t≤r−v−σ212+lnx0t+σ1B1(t)t, |
then
lim supt→+∞lnx(t)t≤r−v−σ212=rKΔ1<0. |
Therefore, limt→+∞x(t)=0.
When Δ2<0, it has the following:
dlny=(ce−(vm+m0)x21+ax2−by−d−σ222)dt+σ2dB2(t). |
Then,
lny(t)−lny0=∫t0(ce−(vm+m0)x21+ax2−by−d−σ222)ds+σ2B2(t). |
Thus,
lny(t)t≤lny0t+cae−(vm+m0)−d−σ222+σ2B2(t)t, |
i.e.,
lim supt→+∞lny(t)t≤cae−(vm+m0)−d−σ222<0. |
Therefore, limt→∞y(t)=0.
When Δ2>0, then for ∀ε1 and ε2>0, ∃T1 such that
ce−(vm+m0)x21+ax2≤ε1,lny0t≤ε2 |
hold for t≥T1. Thus,
lny(t)≤∫t0(ε1−by−d−σ222)ds+ε2t+σ2B2(t)=(ε1+ε2−d−σ222)t−b∫t0y(s)ds+σ2B2(t). |
By the arbitrariness of ε1 and ε2 and Lemma 2, there is limt→∞y(t)=0.
2) By contradiction. Assume Σ={limt→∞supx(t)=0} with P(Σ)>0. Thus,
lnx(t)t=lnx0t+1t∫t0(r−rxK−v−e−(vm+m0)xy1+ax2−σ212)ds+σ1B1(t)t. |
Therefore, limt→∞supt−1lnx(t)=r−v−σ212=rKΔ1>0. That means that limt→∞supt−1lnx(t)>0 holds for any w∈Σ. There is an inclusion relation Σ⊆{w:limt→∞supt−1lnx(t)>0}, then P{w:limt→∞supt−1lnx(t)>0}≥P(Σ)>0, which contradicts to limt→∞supt−1lnx(t)≤0. Therefore, species x is weakly persistent.
3) It is known that y(t) is extinct as limt→∞y(t)=0 when Δ2<0. From limt→+∞lnx0t=0, it is known that for ∀ε3,ε4>0, ∃T2 such that −ε3≤−e−(vm+m0)xy1+ax2≤ε3 and −ε4≤lnx0t≤ε4 hold for t≥T2. Obviously,
lnx(t)≤tε4+∫t0(r−rxK−v+ε3−σ212)ds+σ1B1(t)=(r−v+ε3+ε4−σ212)t−rK∫t0x(s)ds+σ1B1(t), |
lnx(t)≥−tε4+∫t0(r−rxK−v−ε3−σ212)ds+σ1B1(t)=(r−v−ε3−ε4−σ212)t−rK∫t0x(s)ds+σ1B1(t). |
Based on Lemma 2, it can be deduced that ⟨x(t)⟩∗≤Kr(r−v+ε3+ε4−σ212) and ⟨x(t)⟩∗≥Kr(r−v−ε3−ε4−σ212). Therefore, ⟨x(t)⟩=Kr(r−v−σ212)=Δ1>0 (i.e., species x keeps in persistence (in the mean)).
4) Similarly, by using the converse method, one can show that y is also weakly persistent.
This section presents numerical simulations to illustrate the theoretical consequences presented in the study.
For Model (2.1) with the model parameters r=0.4, K=100, v=0.36, m=0.5, m0=0.1, a=15, c=0.8, b=0.02 and d=0.01, there exist three interior equilibria: E∗1(0.26,0.46), E∗2(2.5,1.5) and E∗3(7.5,1.5), where E∗1 is a locally asymptotically stable focus, E∗2 is a saddle and unstable, and E∗3 is a locally asymptotically stable nodel, as illustrated in Figure 2.
For Model (2.2), let consider the following discrete form [38]:
{xj+1=xj+xj(r−rxjK−e−(vm+m0)xjyj1+a(xj)2)Δt+σ1xj√Δtε1j+12σ21xj(ε21j−1)Δt,yj+1=yj+yj(ce−(vm+m0)(xj)21+a(xj)2−byj−d)Δt+σ2yj√Δtε2j+12σ22yj(ε22j−1)Δt, |
where ε1j, ε2j follow N(0,1), j=1,2,⋯,n. Take σ1=0.02, σ2=0.01, δ=0.0001. For the above model parameters, there is λ=−0.00286<0, and the condition in Theorem 4 does not hold. When v increases (e.g. v=0.38), Model (2.1) has a unique interior equilibrium E∗(0.193,0.213), which is a globally asymptotically stable focus, as presented in Figure 3(a). In such case, the condition in Theorem 4 does not hold due to λ=−0.00136. For a=8, Model (2.1) has a globally asymptotically stable focus E∗(0.155,0.2), as presented in Figure 3(b). In such case, there is λ=0.000144>0, and the condition in Theorem 4 holds. As depicted in Figure 4, for Model (2.2), there exists an ergodic stationary distribution. It is observed that (x(t),y(t)) is stable at (0.155,0.2) without white noise. x(t) varies around 0.155 and y(t) fluctuates around 0.2 when the white noise is presented.
For Model (2.1) with the model parameters r=0.6, K=100, a=2, v=0.3, m=0.5, m0=0.01, c=0.8, b=0.01 and d=0.05, there is a unique interior equilibrium E∗(0.1914,0.208), which is locally asymptotically stable.
Different levels of white noise are set to illustrate how white noise affects Model (2.2)'s dynamics. Taking σ1=0.2, σ2=0.1, it has Δ1>0, Δ3>0. Then, species x and species y can keep in a weak persistence, as shown in Figure 5(a), (b). This means that the white noise will have little impact on the populations. Let σ2→0.8; it has Δ1>0, Δ2<0. Therefore, species x can keep in persistence (in the mean), while species y will eventually go extinct, as shown in Figure 5(c), (d). It is evident that a larger white noise induces the predator to be eventually extinct. Let σ1→0.8; it has Δ1<0. Then, species x and species y will eventually go to extinction, as shown in Figure 5(e), (f). Make it clear that the higher the noise level, the more significant the impact on the species of prey.
The predator's hunting ability is affected by a term e−vm, which decreases when m or v increases. For the parameter m, we select a range of diverse values and take σ1=0.2, σ2=0.1. The solution is presented in Figure 6. It is evident that x(t) greatly increases while y(t) increases to be a lesser extent when m rises from 0.5 to 5. There is little change in x(t) when m increases from 5 to 10, while y(t) will change from weakly persistent to eventually extinct. As a result, a modest increase in m benefits y, a large increase in m leads to the extinction of y, and an increase in m promotes the growth of x.
By varying the parameter v, the solutions are presented in Figure 7. Obviously, for a smaller v, species x and species y are both persistent; species y becomes extinct when v increases, and when the anti-predator level becomes excessively strong, species x and species y will eventually go extinct.
The current work explored a Holling-Ⅲ prey-predator model by incorporating prey habitat selection in an environment with stochastic disturbances. For the model without stochastic disturbances, it was shown that O(0,0) is constantly unstable, while E(¯K,0) is stable when c≤¯c≜devm+m0(a+¯K−2). Additionally, it was shown that Model (2.1) possesses not more than three interior equilibria, and the interior equilibrium ˆE(ˆx,ˆy) is locally asymptotically stable if and only if ϕ(ˆx)<ψ′(ˆx)<bcˆy/(bˆy+d).
Additionally, we investigated the dynamics of Model (2.2). By devising an appropriate Lyapunov function, it obtained the conditions for an ergodic stationary distribution. Furthermore, it was demonstrated that Model (2.2)'s solutions are stochastically, eventually bounded. The results suggest that white noise will eventually cause the extinction of prey and predators when it has a large impact on the prey x(t) (Δ1<0). When the white noise has more impact on the predators and less disturbance to the prey, the prey can persist (in the mean), and the predators become extinct (Δ1>0, Δ2<0). The prey and the predator are weakly persistent when white noise has a small effect on them.
Compared to deterministic models, it is well known that sometimes less intense white noise contributes to the survival of prey; however, white noise with a high intensity is unfavorable to the survival of the population. When the hunting ability of the predator is affected by the e−vm term, an increase in m favors the growth of x, a small increase in m would benefit y, while a large increase in m would lead to the demise of y. The population survival is significantly impacted by anti-predatory behavior. It indicated that x(t) and y(t) can persistently survive when the anti-predator level is small. The population y(t) becomes extinct with an increase of the anti-predator level. The prey and predator eventually go extinct when the anti-predator level becomes excessively strong. Incorporating habitat selection and white noise interference into predator-prey models allows for more accurate estimates of changes in natural populations and a deeper understanding of the mechanisms of species interactions and ecological balance. The results suggest that populations may tend to go extinct when the white noise is high or the habitat selection behavior is strong. Therefore, we can carry out an early warning and take effective intervention and protection measures, such as establishing protected areas, improving the habitat environment, controlling the intensity of the white noise interference, and so on.
The authors declare they have not used Artificial Intelligence (AI) tools in the creation of this article.
The work was supported by the National Natural Science Foundation of China (No. 11401068).
The authors declare there is no conflicts of interest.
[1] |
Takaoka A, Wang Z, Choi MK, et al. (2007) DAI (DLM-1/ZBP1) is a cytosolic DNA sensor and an activator of innate immune response. Nature 448: 501–505. doi: 10.1038/nature06013
![]() |
[2] |
Kim T, Pazhoor S, Bao M, et al. (2010) Aspartate-glutamate-alanine-histidine box motif (DEAH)/RNA helicase A helicases sense microbial DNA in human plasmacytoid dendritic cells. Proc Natl Acad Sci USA 107: 15181–15186. doi: 10.1073/pnas.1006539107
![]() |
[3] |
Parvatiyar K, Zhang Z, Teles RM, et al. (2012) The helicase DDX41 recognizes the bacterial secondary messengers cyclic di-GMP and cyclic di-AMP to activate a type I interferon immune response. Nat Immunol 13: 1155–1161. doi: 10.1038/ni.2460
![]() |
[4] |
Zhang Z, Yuan B, Bao M, et al. (2011) The helicase DDX41 senses intracellular DNA mediated by the adaptor STING in dendritic cells. Nat Immunol 12: 959–965. doi: 10.1038/ni.2091
![]() |
[5] |
Chiu YH, MacMillan JB, Chen ZJ (2009) RNA polymerase III detects cytosolic DNA and induces type I interferons through the RIG-I pathway. Cell 138: 576–591. doi: 10.1016/j.cell.2009.06.015
![]() |
[6] |
Zhang X, Brann TW, Zhou M, et al. (2011) Ku70 is a novel cytosolic DNA sensor that induces type-III rather than type-I IFN. J Immunol 186: 4541–4545. doi: 10.4049/jimmunol.1003389
![]() |
[7] |
Kondo T, Kobayashi J, Saitoh T, et al. (2013) DNA damage sensor MRE11 recognizes cytosolic double-stranded DNA and induces type I interferon by regulating STING trafficking. Proc Natl Acad Sci USA 110: 2969–2974. doi: 10.1073/pnas.1222694110
![]() |
[8] |
Xia P, Wang S, Ye B, et al. (2015) Sox2 functions as a sequence-specific DNA sensor in neutrophils to initiate innate immunity against microbial infection. Nat Immunol 16: 366–375. doi: 10.1038/ni.3117
![]() |
[9] |
Yang P, An H, Liu X, et al. (2010) The cytosolic nucleic acid sensor LRRFIP1 mediates the production of type I interferon via a beta-catenin-dependent pathway. Nat Immunol 11: 487–494. doi: 10.1038/ni.1876
![]() |
[10] | Pichlmair A, Lassnig C, Eberle CA, et al. (2011) IFIT1 is an antiviral protein that recognizes 5'-triphosphate RNA. Nat Immunol 12: 624–630. |
[11] |
Hornung V, Hartmann R, Ablasser A, et al. (2014) OAS proteins and cGAS: unifying concepts in sensing and responding to cytosolic nucleic acids. Nat Rev Immunol 14: 521–528. doi: 10.1038/nri3719
![]() |
[12] |
Ori D, Murase M, Kawai T (2017) Cytosolic nucleic acid sensors and innate immune regulation. Int Rev Immunol 36: 74–88. doi: 10.1080/08830185.2017.1298749
![]() |
[13] |
Xia P, Wang S, Gao P, et al. (2016) DNA sensor cGAS-mediated immune recognition. Protein Cell 7: 777–791. doi: 10.1007/s13238-016-0320-3
![]() |
[14] |
Schlee M, Hartmann G (2016) Discriminating self from non-self in nucleic acid sensing. Nat Rev Immunol 16: 566–580. doi: 10.1038/nri.2016.78
![]() |
[15] |
Ning S, Pagano J, Barber G (2011) IRF7: activation, regulation, modification, and function. Genes Immun 12: 399–414. doi: 10.1038/gene.2011.21
![]() |
[16] |
Chen Q, Sun L, Chen ZJ (2016) Regulation and function of the cGAS-STING pathway of cytosolic DNA sensing. Nat Immunol 17: 1142–1149. doi: 10.1038/ni.3558
![]() |
[17] |
Wilson EB, Yamada DH, Elsaesser H, et al. (2013) Blockade of chronic type I interferon signaling to control persistent LCMV infection. Science 340: 202–207. doi: 10.1126/science.1235208
![]() |
[18] |
Teijaro JR, Ng C, Lee AM, et al. (2013) Persistent LCMV infection is controlled by blockade of type I interferon signaling. Science 340: 207–211. doi: 10.1126/science.1235214
![]() |
[19] |
Cha L, Berry CM, Nolan D, et al. (2014) Interferon-alpha, immune activation and immune dysfunction in treated HIV infection. Clin Trans Immunol 3: e10. doi: 10.1038/cti.2014.1
![]() |
[20] |
Catalfamo M, Wilhelm C, Tcheung L, et al. (2011) CD4 and CD8 T cell immune activation during chronic HIV infection: roles of homeostasis, HIV, type I IFN, and IL-7. J Immunol 186: 2106–2116. doi: 10.4049/jimmunol.1002000
![]() |
[21] |
Crouse J, Kalinke U, Oxenius A (2015) Regulation of antiviral T cell responses by type I interferons. Nat Rev Immunol 15: 231–242. doi: 10.1038/nri3806
![]() |
[22] |
Bosque A, Planelles V (2009) Induction of HIV-1 latency and reactivation in primary memory CD4+ T cells. Blood 113: 58–65. doi: 10.1182/blood-2008-07-168393
![]() |
[23] |
Härtlova A, Erttmann SF, Raffi FAM, et al. (2015) DNA damage primes the type i interferon system via the cytosolic DNA sensor STING to promote anti-microbial innate immunity. Immunity 42: 332–343. doi: 10.1016/j.immuni.2015.01.012
![]() |
[24] |
White MJ, McArthur K, Metcalf D, et al. (2014) Apoptotic caspases suppress mtDNA-induced STING-mediated type I IFN production. Cell 159: 1549–1562. doi: 10.1016/j.cell.2014.11.036
![]() |
[25] |
Vilenchik MM, Knudson AG (2003) Endogenous DNA double-strand breaks: production, fidelity of repair, and induction of cancer. Proc Natl Acad Sci USA 100: 12871–12876. doi: 10.1073/pnas.2135498100
![]() |
[26] |
de Galarreta MR, Lujambio A (2017) DNA sensing in senescence. Nat Cell Biol 19: 1008–1009. doi: 10.1038/ncb3603
![]() |
[27] | Gluck S, Guey B, Gulen MF, et al. (2017) Innate immune sensing of cytosolic chromatin fragments through cGAS promotes senescence. Nat Cell Biol 19: In press. |
[28] | Ng KW, Marshall EA, Bell JC, et al. (2017) cGAS-STING and cancer: dichotomous roles in tumor immunity and development. Trends Immunol: In press. |
[29] |
Yang H, Wang H, Ren J, et al. (2017) cGAS is essential for cellular senescence. Proc Natl Acad Sci USA 114: E4612–E4620. doi: 10.1073/pnas.1705499114
![]() |
[30] |
Baccala R, Hoebe K, Kono DH, et al. (2007) TLR-dependent and TLR-independent pathways of type I interferon induction in systemic autoimmunity. Nat Med 13: 543–551. doi: 10.1038/nm1590
![]() |
[31] |
Shibutani ST, Saitoh T, Nowag H, et al. (2015) Autophagy and autophagy-related proteins in the immune system. Nat Immunol 16: 1014–1024. doi: 10.1038/ni.3273
![]() |
[32] |
Agod Z, Fekete T, Budai MM, et al. (2017) Regulation of type I interferon responses by mitochondria-derived reactive oxygen species in plasmacytoid dendritic cells. Redox Biol 13: 633–645. doi: 10.1016/j.redox.2017.07.016
![]() |
[33] |
McNab F, Mayer-Barber K, Sher A, et al. (2015) Type I interferons in infectious disease. Nat Rev Immunol 15: 87–103. doi: 10.1038/nri3787
![]() |
[34] |
Forster S (2012) Interferon signatures in immune disorders and disease. Immunol Cell Biol 90: 520–527. doi: 10.1038/icb.2012.12
![]() |
[35] |
Elkon KB, Wiedeman A (2012) Type I IFN system in the development and manifestations of SLE. Curr Opin Rheumatol 24: 499–505. doi: 10.1097/BOR.0b013e3283562c3e
![]() |
[36] |
Sandler NG, Bosinger SE, Estes JD, et al. (2014) Type I interferon responses in rhesus macaques prevent SIV infection and slow disease progression. Nature 511: 601–605. doi: 10.1038/nature13554
![]() |
[37] |
Mogensen T, Melchjorsen J, Larsen C, et al. (2010) Innate immune recognition and activation during HIV infection. Retrovirology 7: 54. doi: 10.1186/1742-4690-7-54
![]() |
[38] |
Tough DF (2012) Modulation of T-cell function by type I interferon. Immunol Cell Biol 90: 492–497. doi: 10.1038/icb.2012.7
![]() |
[39] |
Zitvogel L, Galluzzi L, Kepp O, et al. (2015) Type I interferons in anticancer immunity. Nat Rev Immunol 15: 405–414. doi: 10.1038/nri3845
![]() |
[40] |
Gajewski TF, Corrales L (2015) New perspectives on type I IFNs in cancer. Cytokine Growth F R 26: 175–178. doi: 10.1016/j.cytogfr.2015.01.001
![]() |
[41] | Dominguez-Villar M, Gautron AS, de Marcken M, et al. (2015) TLR7 induces anergy in human CD4+ T cells. Nat Immunol 16: 118–128. |
[42] | Andreeva L, Hiller B, Kostrewa D, et al. (2017) cGAS senses long and HMGB/TFAM-bound U-turn DNA by forming protein-DNA ladders. Nature: In press. |
[43] |
Cordaux R, Batzer MA (2009) The impact of retrotransposons on human genome evolution. Nat Rev Genet 10: 691–703. doi: 10.1038/nrg2640
![]() |
[44] | Liu S, Cai X, Wu J, et al. (2015) Phosphorylation of innate immune adaptor proteins MAVS, STING, and TRIF induces IRF3 activation. Science 347. |
[45] |
Wang Q, Liu X, Cui Y, et al. (2014) The E3 ubiquitin ligase AMFR and INSIG1 bridge the activation of TBK1 kinase by modifying the adaptor STING. Immunity 41: 919–933. doi: 10.1016/j.immuni.2014.11.011
![]() |
[46] |
Man SM, Karki R, Kanneganti TD (2016) AIM2 inflammasome in infection, cancer, and autoimmunity: role in DNA sensing, inflammation, and innate immunity. Eur J Immunol 46: 269–280. doi: 10.1002/eji.201545839
![]() |
[47] |
Diner BA, Lum KK, Cristea IM (2015) The emerging role of nuclear viral DNA sensors. J Biol Chem 290: 26412–26421. doi: 10.1074/jbc.R115.652289
![]() |
[48] |
West AP, Khoury-Hanold W, Staron M, et al. (2015) Mitochondrial DNA stress primes the antiviral innate immune response. Nature 520: 553–557. doi: 10.1038/nature14156
![]() |
[49] |
Ansari MA, Singh VV, Dutta S, et al. (2013) Constitutive interferon-inducible protein 16-inflammasome activation during Epstein-Barr virus latency I, II, and III in B and epithelial cells. J Virol 87: 8606–8623. doi: 10.1128/JVI.00805-13
![]() |
[50] |
Christensen MH, Paludan SR (2017) Viral evasion of DNA-stimulated innate immune responses. Cell Mol Immunol 14: 4–13. doi: 10.1038/cmi.2016.06
![]() |
[51] |
Zevini A, Olagnier D, Hiscott J (2017) Crosstalk between cytoplasmic RIG-I and STING sensing pathways. Trends Immunol 38: 194–205. doi: 10.1016/j.it.2016.12.004
![]() |
[52] |
Satoh T, Kato H, Kumagai Y, et al. (2010) LGP2 is a positive regulator of RIG-I- and MDA5-mediated antiviral responses. Proc Natl Acad Sci USA 107: 1512–1517. doi: 10.1073/pnas.0912986107
![]() |
[53] |
Kato K, Omura H, Ishitani R, et al. (2017) Cyclic GMP-AMP as an endogenous second messenger in innate immune signaling by cytosolic DNA. Annu Rev Biochem 86: 541–566. doi: 10.1146/annurev-biochem-061516-044813
![]() |
[54] |
Wu JJ, Li W, Shao Y, et al. (2015) Inhibition of cGAS DNA sensing by a herpesvirus virion protein. Cell Host Microbe 18: 333–344. doi: 10.1016/j.chom.2015.07.015
![]() |
[55] |
Li W, Avey D, Fu B, et al. (2016) Kaposi's sarcoma-associated herpesvirus inhibitor of cGAS (KicGAS), encoded by orf52, is an abundant tegument protein and is required for production of infectious progeny viruses. J Virol 90: 5329–5342. doi: 10.1128/JVI.02675-15
![]() |
[56] |
Ma Z, Jacobs SR, West JA, et al. (2015) Modulation of the cGAS-STING DNA sensing pathway by gammaherpesviruses. Proc Natl Acad Sci USA 112: E4306–E4315. doi: 10.1073/pnas.1503831112
![]() |
[57] |
Hwang SW, Kim D, Jung JU, et al. (2017) KSHV-encoded viral interferon regulatory factor 4 (vIRF4) interacts with IRF7 and inhibits interferon alpha production. Biochem Bioph Res Co 486: 700–705. doi: 10.1016/j.bbrc.2017.03.101
![]() |
[58] |
Lau L, Gray EE, Brunette RL, et al. (2015) DNA tumor virus oncogenes antagonize the cGAS-STING DNA-sensing pathway. Science 350: 568–571. doi: 10.1126/science.aab3291
![]() |
[59] | de Souza RF, Iyer LM, Aravind L (2010) Diversity and evolution of chromatin proteins encoded by DNA viruses. BBA-Gene Regul Mech 1799: 302–318. |
[60] |
Towers GJ, Noursadeghi M (2014) Interactions between HIV-1 and the cell-autonomous innate immune system. Cell Host Microbe 16: 10–18. doi: 10.1016/j.chom.2014.06.009
![]() |
[61] | Sandstrom TS, Ranganath N, Angel JB (2017) Impairment of the type I interferon response by HIV-1: potential targets for HIV eradication. Cytokine Growth F R: In press. |
[62] |
Rongvaux A, Jackson R, Harman CCD, et al. (2014) Apoptotic caspases prevent the induction of type I interferons by mitochondrial DNA. Cell 159: 1563–1577. doi: 10.1016/j.cell.2014.11.037
![]() |
[63] |
Zheng Q, Hou J, Zhou Y, et al. (2017) The RNA helicase DDX46 inhibits innate immunity by entrapping m6A-demethylated antiviral transcripts in the nucleus. Nat Immunol 18: 1094–1103. doi: 10.1038/ni.3830
![]() |
[64] | Boss IW, Renne R (2011) Viral miRNAs and immune evasion. BBA-Gene Regul Mech 1809: 708–714. |
[65] |
Cullen BR (2013) MicroRNAs as mediators of viral evasion of the immune system. Nat Immunol 14: 205–210. doi: 10.1038/ni.2537
![]() |
[66] |
Wang L, Li G, Yao ZQ, et al. (2015) MicroRNA regulation of viral immunity, latency, and carcinogenesis of selected tumor viruses and HIV. Rev Med Virol 25: 320–341. doi: 10.1002/rmv.1850
![]() |
[67] |
Ding L, Huang XF, Dong GJ, et al. (2015) Activated STING enhances Tregs infiltration in the HPV-related carcinogenesis of tongue squamous cells via the c-jun/CCL22 signal. BBA-Mol Basis Dis 1852: 2494–2503. doi: 10.1016/j.bbadis.2015.08.011
![]() |
[68] |
Yarbrough ML, Zhang K, Sakthivel R, et al. (2014) Primate-specific miR-576-3p sets host defense signaling threshold. Nat Commun 5: 4963–4963. doi: 10.1038/ncomms5963
![]() |
[69] |
Wu MZ, Cheng WC, Chen SF, et al. (2017) miR-25/93 mediates hypoxia-induced immunosuppression by repressing cGAS. Nat Cell Biol 19: 1286–1296. doi: 10.1038/ncb3615
![]() |
[70] |
Yuan F, Dutta T, Wang L, et al. (2015) Human DNA exonuclease TREX1 is also an exoribonuclease that acts on single-stranded RNA. J Biol Chem 290: 13344–13353. doi: 10.1074/jbc.M115.653915
![]() |
[71] |
Samuel CE (2011) Adenosine deaminases acting on RNA (ADARs) are both antiviral and proviral dependent upon the virus. Virology 411: 180–193. doi: 10.1016/j.virol.2010.12.004
![]() |
[72] |
Liddicoat BJ, Piskol R, Chalk AM, et al. (2015) RNA editing by ADAR1 prevents MDA5 sensing of endogenous dsRNA as nonself. Science 349: 1115–1120. doi: 10.1126/science.aac7049
![]() |
[73] |
Yang S, Deng P, Zhu Z, et al. (2014) ADAR1 Limits RIG-I RNA detection and suppresses IFN production responding to viral and endogenous RNAs. J Immunol 193: 3436–3445. doi: 10.4049/jimmunol.1401136
![]() |
[74] |
Wang Q, Li X, Qi R, et al. (2017) RNA Editing, ADAR1, and the innate immune response. Genes 8: 41. doi: 10.3390/genes8010041
![]() |
[75] |
Gandy SZ, Linnstaedt SD, Muralidhar S, et al. (2007) RNA editing of the human herpesvirus 8 kaposin transcript eliminates its transforming activity and is induced during lytic replication. J Virol 81: 13544–13551. doi: 10.1128/JVI.01521-07
![]() |
[76] |
Iizasa H, Wulff BE, Alla NR, et al. (2010) Editing of Epstein-Barr virus-encoded BART6 microRNAs controls their dicer targeting and consequently affects viral latency. J Biol Chem 285: 33358–33370. doi: 10.1074/jbc.M110.138362
![]() |
[77] |
Rebhandl S, Huemer M, Greil R, et al. (2015) AID/APOBEC deaminases and cancer. Oncoscience 2: 320–333. doi: 10.18632/oncoscience.155
![]() |
[78] |
Konno H, Konno K, Barber GN (2013) Cyclic dinucleotides trigger ULK1 (ATG1) phosphorylation of STING to prevent sustained innate immune signaling. Cell 155: 688–698. doi: 10.1016/j.cell.2013.09.049
![]() |
[79] |
Seo GJ, Yang A, Tan B, et al. (2015) Akt kinase-mediated checkpoint of cGAS DNA sensing pathway. Cell Rep 13: 440–449. doi: 10.1016/j.celrep.2015.09.007
![]() |
[80] | Li S, Zhu M, Pan R, et al. (2016) The tumor suppressor PTEN has a critical role in antiviral innate immunity. Nat Immunol 17: 241–249. |
[81] | Nekhai S, Jerebtsova M, Jackson A, et al. (2007) Regulation of HIV-1 transcription by protein phosphatase 1. Curr Hiv Res 5: 3–9. |
[82] |
Wies E, Wang MK, Maharaj NP, et al. (2013) Dephosphorylation of the RNA sensors RIG-I and MDA5 by the phosphatase PP1 is essential for innate immune signaling. Immunity 38: 437–449. doi: 10.1016/j.immuni.2012.11.018
![]() |
[83] |
Davis ME, Wang MK, Rennick LJ, et al. (2014) Antagonism of the phosphatase PP1 by the measles virus V protein is required for innate immune escape of MDA5. Cell Host Microbe 16: 19–30. doi: 10.1016/j.chom.2014.06.007
![]() |
[84] |
Opaluch AM, Schneider M, Chiang CY, et al. (2014) Positive regulation of TRAF6-dependent innate immune responses by protein phosphatase PP1-gamma. Plos One 9: e89284. doi: 10.1371/journal.pone.0089284
![]() |
[85] |
Ilinykh PA, Tigabu B, Ivanov A, et al. (2014) Role of protein phosphatase 1 in dephosphorylation of Ebola virus VP30 protein and its targeting for the inhibition of viral transcription. J Biol Chem 289: 22723–22738. doi: 10.1074/jbc.M114.575050
![]() |
[86] | Cougot D, Allemand E, Rivière L, et al. (2012) Inhibition of PP1 phosphatase activity by HBx: a mechanism for the activation of hepatitis B virus transcription. Sci Signal 5: ra1. |
[87] | Gu M, Zhang T, Lin W, et al. (2014) Protein phosphatase PP1 negatively regulates the Toll-like receptor- and RIG-I-like receptor-triggered production of type I interferon by inhibiting IRF3 phosphorylation at serines 396 and 385 in macrophage. Sci Signal: In press. |
[88] |
Gu M, Ouyang C, Lin W, et al. (2014) Phosphatase holoenzyme PP1/GADD34 negatively regulates TLR response by inhibiting TAK1 serine 412 phosphorylation. J Immunol 192: 2846–2856. doi: 10.4049/jimmunol.1302537
![]() |
[89] | Clavarino G, Claudio N, Dalet A, et al. (2012) Protein phosphatase 1 subunit Ppp1r15a/GADD34 regulates cytokine production in polyinosinic: polycytidylic acid-stimulated dendritic cells. Proc Natl Acad Sci USA: In press. |
[90] |
Peng D, Wang Z, Huang A, et al. (2017) A novel function of F-Box protein FBXO17 in negative regulation of type I IFN signaling by recruiting PP2A for IFN regulatory factor 3 deactivation. J Immunol 198: 808–819. doi: 10.4049/jimmunol.1601009
![]() |
[91] |
Shanker V, Trincucci G, Heim HM, et al. (2013) Protein phosphatase 2A impairs IFNα-induced antiviral activity against the hepatitis C virus through the inhibition of STAT1 tyrosine phosphorylation. J Viral Hepatitis 20: 612–621. doi: 10.1111/jvh.12083
![]() |
[92] |
Wang L, Zhao J, Ren J, et al. (2016) Protein phosphatase 1 abrogates IRF7-mediated type I IFN response in antiviral immunity. Eur J Immunol 46: 2409–2419. doi: 10.1002/eji.201646491
![]() |
[93] | Davis ME, Gack MU (2015) Ubiquitination in the antiviral immune response. Virology 479–480: 52–65. |
[94] |
Lin D, Zhong B (2015) Regulation of cellular innate antiviral signaling by ubiquitin modification. Acta Biochim Biophys Sin (Shanghai) 47: 149–155. doi: 10.1093/abbs/gmu133
![]() |
[95] |
Heaton SM, Borg NA, Dixit VM (2016) Ubiquitin in the activation and attenuation of innate antiviral immunity. J Exp Med 213: 1–13. doi: 10.1084/jem.20151531
![]() |
[96] |
Zhou Y, He C, Lin W, et al. (2017) Post-translational regulation of antiviral innate signaling. Eur J Immunol 47: 1414–1426. doi: 10.1002/eji.201746959
![]() |
[97] |
van Tol S, Hage A, Giraldo M, et al. (2017) The TRIMendous role of TRIMs in virus-host interactions. Vaccines 5: 23. doi: 10.3390/vaccines5030023
![]() |
[98] |
Damgaard RB, Nachbur U, Yabal M, et al. (2012) The ubiquitin ligase XIAP recruits LUBAC for NOD2 signaling in inflammation and innate immunity. Mol Cell 46: 746–758. doi: 10.1016/j.molcel.2012.04.014
![]() |
[99] |
Keusekotten K, Elliott PR, Glockner L, et al. (2013) OTULIN antagonizes LUBAC signaling by specifically hydrolyzing Met1-linked polyubiquitin. Cell 153: 1312–1326. doi: 10.1016/j.cell.2013.05.014
![]() |
[100] |
Rivkin E, Almeida SM, Ceccarelli DF, et al. (2013) The linear ubiquitin-specific deubiquitinase gumby regulates angiogenesis. Nature 498: 318–324. doi: 10.1038/nature12296
![]() |
[101] |
Takiuchi T, Nakagawa T, Tamiya H, et al. (2014) Suppression of LUBAC-mediated linear ubiquitination by a specific interaction between LUBAC and the deubiquitinases CYLD and OTULIN. Genes Cells 19: 254–272. doi: 10.1111/gtc.12128
![]() |
[102] |
Tokunaga F, Nishimasu H, Ishitani R, et al. (2012) Specific recognition of linear polyubiquitin by A20 zinc finger 7 is involved in NFκB regulation. Embo J 31: 3856–3870. doi: 10.1038/emboj.2012.241
![]() |
[103] |
Hrdinka M, Fiil BK, Zucca M, et al. (2016) CYLD Limits Lys63- and Met1-Linked Ubiquitin at receptor complexes to regulate innate immune signaling. Cell Rep 14: 2846–2858. doi: 10.1016/j.celrep.2016.02.062
![]() |
[104] |
Damgaard RB, Walker JA, Marco-Casanova P, et al. (2016) The deubiquitinase OTULIN is an essential negative regulator of inflammation and autoimmunity. Cell 166: 1215–1230. doi: 10.1016/j.cell.2016.07.019
![]() |
[105] |
Wang Q, Huang L, Hong Z, et al. (2017) The E3 ubiquitin ligase RNF185 facilitates the cGAS-mediated innate immune response. Plos Pathog 13: e1006264. doi: 10.1371/journal.ppat.1006264
![]() |
[106] | Ni G, Konno H, Barber GN (2017) Ubiquitination of STING at lysine 224 controls IRF3 activation. Sci Immunol 2: In Press. |
[107] |
Zhang J, Hu MM, Wang YY, et al. (2012) TRIM32 protein modulates type I interferon induction and cellular antiviral response by targeting MITA/STING protein for K63-linked ubiquitination. J Biol Chem 287: 28646–28655. doi: 10.1074/jbc.M112.362608
![]() |
[108] |
Tsuchida T, Zou J, Saitoh T, et al. (2010) The ubiquitin ligase TRIM56 regulates innate immune responses to intracellular double-stranded DNA. Immunity 33: 765–776. doi: 10.1016/j.immuni.2010.10.013
![]() |
[109] |
Wang J, Yang S, Liu L, et al. (2017) HTLV-1 Tax impairs K63-linked ubiquitination of STING to evade host innate immunity. Virus Res 232: 13–21. doi: 10.1016/j.virusres.2017.01.016
![]() |
[110] |
Liu Y, Li J, Chen J, et al. (2015) Hepatitis B virus polymerase disrupts K63-linked ubiquitination of STING to block innate cytosolic DNA-sensing pathways. J Virol 89: 2287–2300. doi: 10.1128/JVI.02760-14
![]() |
[111] |
Zhong B, Zhang L, Lei C, et al. (2009) The ubiquitin ligase RNF5 regulates antiviral responses by mediating degradation of the adaptor protein MITA. Immunity 30: 397–407. doi: 10.1016/j.immuni.2009.01.008
![]() |
[112] |
Wang Y, Lian Q, Yang B, et al. (2015) TRIM30α is a negative-feedback regulator of the intracellular DNA and DNA virus-triggered response by targeting STING. Plos Pathog 11: e1005012. doi: 10.1371/journal.ppat.1005012
![]() |
[113] |
Qin Y, Zhou MT, Hu MM, et al. (2014) RNF26 temporally regulates virus-triggered type I interferon induction by two distinct mechanisms. Plos Pathog 10: e1004358. doi: 10.1371/journal.ppat.1004358
![]() |
[114] |
Chen Y, Wang L, Jin J, et al. (2017) p38 inhibition provides anti-DNA virus immunity by regulation of USP21 phosphorylation and STING activation. J Exp Med 214: 991–1010. doi: 10.1084/jem.20161387
![]() |
[115] |
Lang X, Tang T, Jin T, et al. (2017) TRIM65-catalized ubiquitination is essential for MDA5-mediated antiviral innate immunity. J Exp Med 214: 459–473. doi: 10.1084/jem.20160592
![]() |
[116] | Liu B, Zhang M, Chu H, et al. (2017) The ubiquitin E3 ligase TRIM31 promotes aggregation and activation of the signaling adaptor MAVS through Lys63-linked polyubiquitination. Nat Immunol 18: 214–224. |
[117] |
Narayan K, Waggoner L, Pham ST, et al. (2014) TRIM13 is a negative regulator of MDA5-mediated type I interferon production. J Virol 88: 10748–10757. doi: 10.1128/JVI.02593-13
![]() |
[118] |
Gao D, Yang YK, Wang RP, et al. (2009) REUL is a novel E3 ubiquitin ligase and stimulator of retinoic-acid-inducible gene-I. Plos One 4: e5760. doi: 10.1371/journal.pone.0005760
![]() |
[119] |
Oshiumi H, Matsumoto M, Hatakeyama S, et al. (2009) Riplet/RNF135, a RING-finger protein, ubiquitinates RIG-I to promote interferon-beta induction during the early phase of viral infection. J Biol Chem 284: 807–817. doi: 10.1074/jbc.M804259200
![]() |
[120] |
Gack MU, Shin YC, Joo CH, et al. (2007) TRIM25 RING-finger E3 ubiquitin ligase is essential for RIG-I-mediated antiviral activity. Nature 446: 916–920. doi: 10.1038/nature05732
![]() |
[121] |
Jiang J, Li J, Fan W, et al. (2016) Robust Lys63-linked ubiquitination of RIG-I promotes cytokine eruption in early influenza B virus infection. J Virol 90: 6263–6275. doi: 10.1128/JVI.00549-16
![]() |
[122] |
Yan J, Li Q, Mao AP, et al. (2014) TRIM4 modulates type I interferon induction and cellular antiviral response by targeting RIG-I for K63-linked ubiquitination. J Mol Cell Biol 6: 154–163. doi: 10.1093/jmcb/mju005
![]() |
[123] |
Wang W, Jiang M, Liu S, et al. (2016) RNF122 suppresses antiviral type I interferon production by targeting RIG-I CARDs to mediate RIG-I degradation. Proc Natl Acad Sci USA 113: 9581–9586. doi: 10.1073/pnas.1604277113
![]() |
[124] |
Arimoto K, Takahashi H, Hishiki T, et al. (2007) Negative regulation of the RIG-I signaling by the ubiquitin ligase RNF125. Proc Natl Acad Sci USA 104: 7500–7505. doi: 10.1073/pnas.0611551104
![]() |
[125] |
Ning S, Campos AD, Darnay B, et al. (2008) TRAF6 and the three C-terminal lysine sites on IRF7 are required for its ubiquitination-mediated activation by the tumor necrosis factor receptor family member latent membrane protein 1. Mol Cell Biol 28: 6536–6546. doi: 10.1128/MCB.00785-08
![]() |
[126] |
Ning S, Pagano J (2010) The A20 deubiquitinase activity negatively regulates LMP1 activation of IRF7. J Virol 84: 6130–6138. doi: 10.1128/JVI.00364-10
![]() |
[127] |
Iwai K, Fujita H, Sasaki Y (2014) Linear ubiquitin chains: NF-kappaB signalling, cell death and beyond. Nat Rev Mol Cell Bio 15: 503–508. doi: 10.1038/nrm3836
![]() |
[128] |
Rieser E, Cordier SM, Walczak H (2013) Linear ubiquitination: a newly discovered regulator of cell signalling. Trends Biochem Sci 38: 94–102. doi: 10.1016/j.tibs.2012.11.007
![]() |
[129] |
Tokunaga F (2013) Linear ubiquitination-mediated NF-kappaB regulation and its related disorders. J Biochem 154: 313–323. doi: 10.1093/jb/mvt079
![]() |
[130] |
Tokunaga F, Iwai K (2012) Linear ubiquitination: a novel NF-kappaB regulatory mechanism for inflammatory and immune responses by the LUBAC ubiquitin ligase complex. Endocr J 59: 641–652. doi: 10.1507/endocrj.EJ12-0148
![]() |
[131] |
Shimizu Y, Taraborrelli L, Walczak H (2015) Linear ubiquitination in immunity. Immunol Rev 266: 190–207. doi: 10.1111/imr.12309
![]() |
[132] |
Ikeda F (2015) Linear ubiquitination signals in adaptive immune responses. Immunol Rev 266: 222–236. doi: 10.1111/imr.12300
![]() |
[133] |
Ikeda F, Deribe YL, Skanland SS, et al. (2011) SHARPIN forms a linear ubiquitin ligase complex regulating NF-kappaB activity and apoptosis. Nature 471: 637–641. doi: 10.1038/nature09814
![]() |
[134] |
Tokunaga F, Nakagawa T, Nakahara M, et al. (2011) SHARPIN is a component of the NF-kappaB-activating linear ubiquitin chain assembly complex. Nature 471: 633–636. doi: 10.1038/nature09815
![]() |
[135] |
Tian Y, Zhang Y, Zhong B, et al. (2007) RBCK1 negatively regulates tumor necrosis factor- and interleukin-1-triggered NF-kappaB activation by targeting TAB2/3 for degradation. J Biol Chem 282: 16776–16782. doi: 10.1074/jbc.M701913200
![]() |
[136] |
Niu J, Shi Y, Iwai K, et al. (2011) LUBAC regulates NF-kappaB activation upon genotoxic stress by promoting linear ubiquitination of NEMO. EMBO J 30: 3741–3753. doi: 10.1038/emboj.2011.264
![]() |
[137] |
Hostager BS, Kashiwada M, Colgan JD, et al. (2011) HOIL-1L interacting protein (HOIP) is essential for CD40 signaling. Plos One 6: e23061. doi: 10.1371/journal.pone.0023061
![]() |
[138] |
Zak DE, Schmitz F, Gold ES, et al. (2011) Systems analysis identifies an essential role for SHANK-associated RH domain-interacting protein (SHARPIN) in macrophage Toll-like receptor 2 (TLR2) responses. Proc Natl Acad Sci USA 108: 11536–11541. doi: 10.1073/pnas.1107577108
![]() |
[139] |
Rodgers MA, Bowman JW, Fujita H, et al. (2014) The linear ubiquitin assembly complex (LUBAC) is essential for NLRP3 inflammasome activation. J Exp Med 211: 1333–1347. doi: 10.1084/jem.20132486
![]() |
[140] |
Kirisako T, Kamei K, Murata S, et al. (2006) A ubiquitin ligase complex assembles linear polyubiquitin chains. EMBO J 25: 4877–4887. doi: 10.1038/sj.emboj.7601360
![]() |
[141] |
Emmerich CH, Schmukle AC, Walczak H (2011) The emerging role of linear ubiquitination in cell signaling. Sci Signal 4: re5. doi: 10.1126/scisignal.2001798
![]() |
[142] |
Tokunaga F, Sakata Si, Saeki Y, et al. (2009) Involvement of linear polyubiquitylation of NEMO in NF-kappa B activation. Nat Cell Biol 11: 123–132. doi: 10.1038/ncb1821
![]() |
[143] |
Inn KS, Gack MU, Tokunaga F, et al. (2011) Linear ubiquitin assembly complex negatively regulates RIG-I- and TRIM25-mediated type I interferon induction. Mol Cell 41: 354–365. doi: 10.1016/j.molcel.2010.12.029
![]() |
[144] |
Zhang M, Tian Y, Wang RP, et al. (2008) Negative feedback regulation of cellular antiviral signaling by RBCK1-mediated degradation of IRF3. Cell Res 18: 1096–1104. doi: 10.1038/cr.2008.277
![]() |
[145] |
Belgnaoui SM, Paz S, Samuel S, et al. (2012) Linear ubiquitination of NEMO negatively regulates the interferon antiviral response through disruption of the MAVS-TRAF3 complex. Cell Host Microbe 12: 211–222. doi: 10.1016/j.chom.2012.06.009
![]() |
[146] | Wang L, Wang Y, Zhao J, et al. (2017) LUBAC modulates LMP1 activation of NFκB and IRF7. J Virol 91: e1138–e1116. |
[147] |
Orzalli MH, DeLuca NA, Knipe DM (2012) Nuclear IFI16 induction of IRF-3 signaling during herpesviral infection and degradation of IFI16 by the viral ICP0 protein. Proc Natl Acad Sci USA 109: E3008–E3017. doi: 10.1073/pnas.1211302109
![]() |
[148] |
Li T, Chen J, Cristea IM (2013) Human cytomegalovirus tegument protein pUL83 inhibits IFI16-mediated DNA sensing for immune evasion. Cell Host Microbe 14: 591–599. doi: 10.1016/j.chom.2013.10.007
![]() |
[149] |
Yu Y, Wang SE, Hayward GS (2005) The KSHV immediate-early transcription factor RTA encodes ubiquitin E3 ligase activity that targets IRF7 for proteosome-mediated degradation. Immunity 22: 59–70. doi: 10.1016/j.immuni.2004.11.011
![]() |
[150] |
van Gent M, Braem SGE, de Jong A, et al. (2014) Epstein-Barr virus large tegument protein BPLF1 contributes to innate immune evasion through interference with Toll-like receptor signaling. Plos Pathog 10: e1003960. doi: 10.1371/journal.ppat.1003960
![]() |
[151] |
Hu MM, Yang Q, Xie XQ, et al. (2016) Sumoylation promotes the stability of the DNA sensor cGAS and the adaptor STING to regulate the kinetics of response to DNA virus. Immunity 45: 555–569. doi: 10.1016/j.immuni.2016.08.014
![]() |
[152] |
Liang Q, Deng H, Li X, et al. (2011) Tripartite motif-containing protein 28 is a small ubiquitin-related modifier E3 ligase and negative regulator of IFN Regulatory Factor 7. J Immunol 187: 4754–4763. doi: 10.4049/jimmunol.1101704
![]() |
[153] |
Yang WL, Zhang X, Lin HK (2010) Emerging role of Lys-63 ubiquitination in protein kinase and phosphatase activation and cancer development. Oncogene 29: 4493–4503. doi: 10.1038/onc.2010.190
![]() |
[154] |
Yang Y, Kelly P, Schmitz R, et al. (2016) Targeting non-proteolytic protein ubiquitination for the treatment of diffuse large B cell lymphoma. Cancer Cell 29: 494–507. doi: 10.1016/j.ccell.2016.03.006
![]() |
1. | Jawdat Alebraheem, A review in stability of stochastic prey–predator models, 2025, 1436-3240, 10.1007/s00477-025-03021-0 |