For the first time, in the literature review we presents the molecular genetic structure of Salmonella Enteritidis populations in Russia, and particularly, in Siberia and the Far East of the country. Pathogen population in Russia has been compared with Salmonella populations circulating in different countries of the world. It has been shown that the microbial population is heterogeneous, but it is possible to identify the dominant and main genotypes, which determine up to 90% of the total population morbidity. The data were obtained as a result of a 30-year monitoring (1988 to 2018) by studying the microbial plasmid profiles. It was shown that the same S. Enteritidis clones circulate throughout Russia, however, their significance in the population morbidity may vary depending on geographic and temporal characteristics. Population is characterized by heterogeneity and relative stability of the plasmid types' structure. At the same time, the population is also specified by variability, reflected as a simple change of the annual number of constantly detected plasmid types, and the appearance of new ones that can play a significant role in the etiology of Salmonella infection.
Citation: Alexey V. Rakov, Natalya A. Kuznetsova, Anatoly A. Yakovlev. Genetic diversity of Salmonella enterica subsp. enterica serovar Enteritidis in the Siberia and Far East of Russia based on plasmid profiles[J]. AIMS Microbiology, 2020, 6(2): 106-120. doi: 10.3934/microbiol.2020007
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Abstract
For the first time, in the literature review we presents the molecular genetic structure of Salmonella Enteritidis populations in Russia, and particularly, in Siberia and the Far East of the country. Pathogen population in Russia has been compared with Salmonella populations circulating in different countries of the world. It has been shown that the microbial population is heterogeneous, but it is possible to identify the dominant and main genotypes, which determine up to 90% of the total population morbidity. The data were obtained as a result of a 30-year monitoring (1988 to 2018) by studying the microbial plasmid profiles. It was shown that the same S. Enteritidis clones circulate throughout Russia, however, their significance in the population morbidity may vary depending on geographic and temporal characteristics. Population is characterized by heterogeneity and relative stability of the plasmid types' structure. At the same time, the population is also specified by variability, reflected as a simple change of the annual number of constantly detected plasmid types, and the appearance of new ones that can play a significant role in the etiology of Salmonella infection.
1.
Introduction
In the past decade, many researchers have studied many fractional partial differential equations (FPDEs) types. Since the beginning of fractional calculus history in 1695, when L'Hospital raised the question: what is the meaning of dnydxn if n=12? That is, what if n is fractional? [1] Even for new researchers, the fractional derivatives were complicated-although it appears in many parts of sciences such as physics, engineering, bioengineering, COVID-19 studies, and many other branches of sciences [2,3,4,5,6,7,8,9]. In addition, many definitions of fractional derivatives have been given [10,11]. Fractional order derivatives of a given function involve the entire function history where the following state of a fractional order system is dependent on its current state and all its historical states [4,5,6,7,8,9,10,11].
There are several analytical and numerical techniques for handling fractional problems, B-spline functions, Bernoulli polynomials, Adomian decomposition, variational iteration, Homotopy analysis, and many others [12,13,14,15,16,17]. On top of that, some applicable analytical methods are developed to address nonlinear problems with fractional derivatives. One of these approaches is the Laplace residual power series method (LRPSM) [18,19,20,21,22,23,24,25,26,27,28,29], which shows its efficiency and applicability in solving nonlinear problems.
The LRPSM is a very modern technique, and it is a hybrid method of two approaches, the Laplace transform (LT) and the idea of the residual power series method (RPSM) [30,31,32,33]. In 2020, the authors in the article [18] were able to adapt the LT to solve nonlinear neutral fractional pantograph equations using the residual function and the RPSM idea. The LT, usually, is implemented to solve linear equations only, but the LRPSM can overcome this disadvantage and thus adapts it to solve nonlinear equations of different types. The LRPSM presents an approximate analytical solution with a series form using the concept of the Laurent series and the power series [18,19,20,21,22,23,24,25]. What distinguishes LRPSM from RPSM is the use of the idea of limit at infinity in getting the coefficients of a series solution rather than the concept of a fractional derivative as in RPSM. Many articles used the proposed method to treat several types of differential equations of fractional orders. In 2021, El-Ajou adapted LRPSM to establish solitary solutions of nonlinear dispersive FPDEs [19] and to present series solutions for systems of Caputo FPDEs with variable coefficients [20]. Newly, the LRPSM is used for solving Fuzzy Quadratic Riccati Differential Equations [21], time-fractional nonlinear water wave PDE [22], fractional Lane-Emden equations [23], Fisher's equation and logistic system model [24], and nonlinear fractional reaction-diffusion for bacteria growth model [25].
Claude Louis Navier and Gabriel Stokes have created the so-called Navier-Stokes equations (NSEs). A French mechanical engineer Claude was affiliated in continuum mechanics with a physicist specializing and the French government, whose main contribution was the Navier-Stokes equations (1822). This famous equation made his name among the several names incised on the Eiffel Tower. Moreover, Newton's second law for fluid substance, which is central to fluid mechanics has been used in describing many physical phenomena in many applied sciences [34,35,36,37]. For example, the study of airflow around a wing and water flow in pipes and used as one of the continuity equations needed to build microscopic models in 1985 and also as a special case considered to establish the relationship between external and pressure forces on the fluid to the responses of fluid flow [38].
The motivation of this work is to adapt the LRPSM to provide analytical solutions for a multi-dimensional time-fractional Navier-Stokes (M-DT-FNS) system which takes the following form [39]:
Dαtu+(u⋅∇)u=υ∇2u−1ρ∇p,0<α≤1,
(1.1)
where Dαt is the Caputo fractional-derivative operator of order α, p=p(χ,ς,ζ,t) is the pressure, ρ is the density, u is a vector field that represents the flow velocity vector, υ=μρ is the kinematic viscosity (μ is the dynamic viscosity), and ∇ & ∇2 are the gradient and Laplacian operators, respectively, subject to the initial conditions (ICs) at the initial velocity:
u=φ.
(1.2)
If the density is constant throughout the fluid domain, then the vector Eq (1.1) is an incompressible NSEs.
The vector Eqs (1.1) and (1.2) can be separated in a system form as follows [39,40]:
where u=⟨u1,u2,u3⟩ and φ=⟨f,h,g⟩ such that u1, u2, u3, and p are analytical functions of four variables χ,ς,ζ&t.
In this equation, the solution represents the fluid velocity and pressure. It is commonly used to describe the motion of fluids in models relevant to weather, ocean currents, water flow in pipes, etc.
The novelty of this study is obvious in the proposed method when dealing with the Navier-Stokes problem, we show the simplicity and the applicability of the method, and we mention also that the method needs no differentiation, linearization, or discretization, the only mathematical step we need after taking the LT and defining the residual functions, is taking the limit at infinity which is much easier compared to other analytical techniques. Moreover, in this research, we obtain a general formula of the solution that neither researcher has, allowing us to compute as many possible terms of the series solution directly.
This study is prepared as follows: After the introduction section, a few fundamental principles and theories are reviewed for constructing an analytic series solution to the M-DT-FNS system using LRPSM. In Section 3, we constructed a Laplace residual power series (LRPS) solution to the goal problem. Three interesting examples are presented to explain the technique's simplicity and accuracy, which are displayed in Section 4. Finally, some conclusions are made about the features of the method used and its applicability in solving other types of problems.
2.
Basic concepts
This part presents fundamental definitions and properties of fractional operators and power series.
Definition 2.1.[1] The time Caputo fractional-derivative of order α of the multivariable function u(χ,ς,ζ,t), is defined by
on 0≤s≤q,0<α≤1 and M=M(χ,ς,ζ) for some χ, ς, and ζ∈I. Then the remainder Rm(χ,ς,ζ,s) of the new fractional Laurent series (2.5) satisfies the following inequality
|Rm(χ,ς,ζ,s)|≤Ms(m+1)α+1.
It is known that the LT cannot be distributed in the case of multiplication. Therefore, the following Lemma is introduced to simplify the calculations at the application of LRPSM, based on the characteristics of the powers of the power series.
Lemma 2.3. Assume that U(χ,ς,ζ,s)=L[u(χ,ς,ζ,t)](s) and V(χ,ς,ζ,s)=L[v(χ,ς,ζ,t)](s). Assume that the functions U(χ,ς,ζ,s) and V(χ,ς,ζ,s) have Laurent expansions as:
which we will use extensively throughout our work on the next pages.
3.
The Laplace residual power series method
We employ the LRPSM to establish a series solution for the M-DT-FNS system (1.1) in this part of this article. This technique is mainly based on applying the LT on the target equations, assuming solutions of the generated equations have Laurent expansions, and then using the idea of the limit at infinity with the residual functions to get the unknown coefficients in expansions. Finally, we run the inverse LT to obtain the solution of the given equations in the original space.
To get the LRPS solution of the system (1.1), we first apply the LT to each equation in the system (1.1) and use the third part of Lemma 2.2 with the ICs (1.2). Then, after some simplification, we get the following algebraic system in Laplace:
To find the coefficients in the series expansions of Eq (3.4), we establish the Laplace residual functions (LRF) of the equations in the system (3.1) as follows:
Finally, to get the LRPS solution of the M-DT-FNS systems (1.1) and (1.2) in the original space, we apply the inverse LT on the solution in Eq (3.18), to get
In this section, we present some numerical examples that explain the working mechanism of the LRPSM. Comparisons and graphical illustrations are made to demonstrate the accuracy and efficiency of the technique.
Example 4.1.[35,36] Consider the following two-DT-FNSEs:
where υ∈R, and u1 and u2 are two functions of three variables χ,ς, and t.
Note that, when α=1 the exact solution of the systems (4.1) and (4.2) is
u1=−e−2υtsin(χ+ς),u2=e−2υtsin(χ+ς).
(4.3)
Based on the algorithm of the solution obtained in Section 3 and the result in Eq (3.19), we can obtain the LRPS solution of the systems (4.1) and (4.2) as follows:
This solution is the same as that obtained by the Laplace decomposition method [36] and the variational iteration transform method [35]. In a special case, taking α=1 gives the exact solution in terms of elementary functions as follows:
u1(χ,ς,t)=−e−2υtsin(χ+ς),u2(χ,ς,t)=e−2υtsin(χ+ς).
(4.7)
The behavior of the velocity field of the two-DT-FNSEs (4.1) and (4.2) is depicted in Figure 1 for various values of α at t=0.5 and υ=0.5. The 10th-truncated series of Eq (4.6) is plotted in Figure 1(a-c) for α=0.6, α=0.8, and α=1, respectively, whereas, the exact solution at α=1 is plotted in Figure 1(d). The graphics indicate consistency in the behavior of the solution at various values of α, as well as the convention of the exact solution with the obtained solution in Figure 1(c, d).
Figure 1.
The 3D surface plot of the 10th approximate solutions of u1 and u2 at different values of α and t=0.5 & υ=0.5 for the problem in Example 4.1. (a) α=0.6, (b) α=0.8, (c) α=1, (d) α=1 (Exact solutions).
Figure 2 shows the action of the 10th approximate analytical solution of the initial value problems (IVP) (4.1) and (4.2) along the line ς=χ and in the region D={(χ,t):−3≤χ≤3,0≤t<1} for distinct values of α, and at υ=0.5. The 10th approximate solution is plotted in Figure 2(a-c) for α=0.6, α=0.8, and α=1, respectively, whereas, the exact solution at α=1 is plotted in (d). Also, the graphics indicate consistency in the action of the solution at distinct values of α, the accord nation of the exact solution with the approximate solution in Figure 2(c, d) as well as the region of convergence of the series solution.
Figure 2.
The graph of the 3D surface of the 10th approximate solutions of u1 and u2 along the line ς=χ and at various values of α and υ=0.5 for the problem in Example 4.1. (a) α=0.6, (b) α=0.8, (c) α=1, (d) α=1(Exact).
where υ∈R and u1 and u2 are two functions of three variables χ,ς, and t.
The exact solution to problems (4.8) and (4.9) can be obtained, when putting α=1, to be u1=−e−2υt+χ+ς and u2=e−2υt+χ+ς. Applying the same procedure in Example 4.1, one can obtain the following recurrence relations:
Figure 3 shows the velocity field behavior of the two-DT-FNSEs (4.8) and (4.9) for distinct values of α at t=0.5 and υ=0.5. The 10th LRPS approximate analytical solution of the IVP (4.8) and (4.8) plotted in Figure 3(a-c) for α=0.6, α=0.8, and α=1 respectively, while the exact solution at α=1 is plotted in (d). The graphics indicate the consistency in the solution behavior at various values of α, as well as the exact solution agreement with the proposed analytical solution in Figure 3(c, d).
Figure 3.
The 3D surface plot of the 10th approximate solutions of u1 and u2 at distinct values of α and t=0.5 & υ=0.5 for the problem in Example 4.2. (a) α=0.6, (b) α=0.8, (c) α=1, (d) α=1 (Exact solutions).
Figure 4 illustrates the behavior of the 10th approximate solution of the IVP (4.8) and (4.9) along the line ς=χ and in the region D={(χ,t):−1≤χ≤1,0≤t<1} for different values of α, and at υ=0.5. The 10th approximate solution is plotted in Figure 4(a-c) for α=0.6, α=0.8, and α=1, respectively, whereas, the exact solution at α=1 is plotted in (d). Also, the graphics indicate consistency in the action of the solution at distinct values of α, the coordination between the exact solution and the approximate analytical solution as illustrated in Figure 4(c, d) as well as the determination of the region of convergence for the series solution, is clear.
Figure 4.u1 and u2 along the line ς=χ and at various of α and υ=0.5 for the problem in Example 4.2. (a) α=0.6, (b) α=0.8, (c) α=1, (d) α=1(Exact).
The behavior of the velocity field of the Three-DT-FNSEs (4.12) and (4.13) is depicted in Figure 5 for various values of at and. The th-truncated series of Eq (4.10) is plotted in Figure 5(a-c) for, and, respectively, whereas, the exact solution at is plotted in (d). The graphics indicate consistency in the behavior of the solution at various values of, as well as the agreement of the exact solution with the approximate solution in Figure 5(c, d).
Figure 5.
The 3D surfaces plot of the 10th approximate solutions of u1,u2, and u3 at various values of α and t=0.5 & ζ=3 for the problem in Example 4.3. (a) α=0.6, (b) α=0.8, (c) α=1, (d) α=1 (Exact solutions).
This article presents the LRPSM in a new scheme. We proposed the method and used it to solve the M-DT-FNS system. In the following, we state the advantages of using the presented method and the disadvantages of treating the M-DT-FNS.
5.1. Advantages of the method
1) The method is simple to apply to solve linear and non-linear FPDE compared to other techniques, other power series methods are based on finding derivatives and the calculations are usually complex, but LRPSM mainly depends on computing the limit at infinity which is much easier.
2) The proposed method is applicable in finding approximate solutions for physical applications, and in finding many terms of the analytical series solutions.
3) The method is accurate and gives approximate solutions close to the exact ones.
5.2. Disadvantages of the method
LRPSM needs first to find the LT of the target equations and finally to run the inverse LT to obtain the solution in the original space. So, if we have nonhomogeneous equations, the source functions need to be piecewise continuous and of exponential order, and after the computations, the inverse LT must exist.
6.
Conclusions
In this article, we have introduced the LRPSM in a new scheme and simplified the technique to present series solutions for the M-DT-FNS system in the sense of the Caputo derivative. It is worth noting here that we obtained a general formula for an analytic solution of M-DT-FN, which other researchers have not previously obtained by other methods. We tested three examples by solving them in the proposed technique and then analyzing the results. In the future, we will use LRPSM to solve more problems and make new modifications to address the flaws of the presented technique.
Acknowledgments
The authors express their gratitude to the dear referees, who wish to remain anonymous, and the editor for their helpful suggestions, which improved the final version of this paper.
Conflict of interest
The authors declare no conflicts of interest.
Acknowledgments
This work was supported by the Ministry of Science and Higher Education of the Russian Federation (2019/# 0545-2019-0011).
Conflict of interest
All authors declare no conflicts of interest in this paper.
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Alexey V. Rakov, Natalya A. Kuznetsova, Anatoly A. Yakovlev. Genetic diversity of Salmonella enterica subsp. enterica serovar Enteritidis in the Siberia and Far East of Russia based on plasmid profiles[J]. AIMS Microbiology, 2020, 6(2): 106-120. doi: 10.3934/microbiol.2020007
Alexey V. Rakov, Natalya A. Kuznetsova, Anatoly A. Yakovlev. Genetic diversity of Salmonella enterica subsp. enterica serovar Enteritidis in the Siberia and Far East of Russia based on plasmid profiles[J]. AIMS Microbiology, 2020, 6(2): 106-120. doi: 10.3934/microbiol.2020007
Figure 1. Pie chart showing the relative incidence of the S. Enteritidis population structure by plasmid types: (A) isolated from patients with Salmonella infection in Siberia and the Far East from 2000 to 2018; (B) isolated from food for the same period of time
Figure 2. The dynamics of S. Enteritidis plasmid types isolation from patients in Siberia and the Far East of Russia from 1995 to 2018
Figure 3. Relative share of dominant plasmid types in the etiology of S. Enteritidis infection in the human population of the southern and northern territories of the Far East and Siberia (of total percentage of strains isolated from 1995 to 2018)