Within-host influenza dynamics: A small-scale mathematical modeling approach

BioSystems

Volumn 118, Issue 1, 2014, Pages 51-59

  Manchanda, Himanshu ^a,b   Seidel, Nora ^b   Krumbholz, Andi ^b,c   Sauerbrei, Andreas ^b   Schmidtke, Michaela ^b   Guthke, Reinhard ^a  

^a HANS KNÖLL INSTITUTE   (Germany)

^b JENA UNIVERSITY HOSPITAL   (Germany)

^c UNIVERSITY OF KIEL   (Germany)

Author keywords

Immune response; Infection; Inflammation; Influenza virus; Modeling; Virus replication

Indexed keywords

CHEMOKINE; CYTOKINE;

DISEASE TREATMENT; EMERGENCE; HOST QUALITY; IMMUNE SYSTEM; INFLUENZA; NUMERICAL MODEL; PARAMETERIZATION; PATHOGENICITY; RODENT; VIRUS;

ADAPTIVE IMMUNITY; ANIMAL CELL; ANIMAL EXPERIMENT; ANIMAL MODEL; ARTICLE; CALCULATION; CONTROLLED STUDY; FEMALE; INFECTION RATE; INFLAMMATION; INFLUENZA; INFLUENZA VIRUS A H1N1; INFLUENZA VIRUS A H1N2; INNATE IMMUNITY; MATHEMATICAL MODEL; MDCK CELL; MOUSE; NONHUMAN; QUANTITATIVE ANALYSIS; SENSITIVITY ANALYSIS; SWINE INFLUENZA VIRUS; VIRUS REPLICATION; VIRUS STRAIN; VIRUS VIRULENCE; WEIGHT CHANGE; ANIMAL; BIOLOGICAL MODEL; COMPLICATION; COMPUTER SIMULATION; DOG; IMMUNOLOGY; INFLUENZA VIRUS A; KINETICS; MDCK CELL LINE; ORTHOMYXOVIRUS INFECTION; PATHOGENICITY; PATHOPHYSIOLOGY; PHYSIOLOGY; SPECIES DIFFERENCE; SYSTEMS BIOLOGY;

EUROPE;

ANIMALS; COMPUTER SIMULATION; DOGS; INFLAMMATION; INFLUENZA A VIRUS; KINETICS; MADIN DARBY CANINE KIDNEY CELLS; MICE; MODELS, BIOLOGICAL; ORTHOMYXOVIRIDAE INFECTIONS; SPECIES SPECIFICITY; SYSTEMS BIOLOGY;

EID: 84896480445     PISSN: 03032647     EISSN: 18728324     Source Type: Journal    
DOI: 10.1016/j.biosystems.2014.02.004     Document Type: Article

References (40)

1. Arankalle V.A., Lole K.S., Arya R.P., Tripathy A.S., Ramdasi A.Y., Chadha M.S., Sangle S.A., Kadam D.B. Role of host immune response and viral load in the differential outcome of pandemic H1N1 (2009) influenza virus infection in Indian patients. PLoS ONE 2010, 5(10):e13099.
2. Baccam P., Beauchemin C., Macken C.A., Hayden F.G., Perelson A.S. Kinetics of influenza A virus infection in Human. J. Virol. 2009, 80(15):7509-7590.
3. Barnard D.L. Animal models for the study of influenza pathogenesis and therapy. Antiviral. Res. 2009, 82(2):A110-A122.
4. Bauer K., Durrwald R., Schlegel M., Pfarr K., Topf D., Wiesener N., Dahse H.M., Wutzler P., Schmidtke M. Neuraminidase inhibitor susceptibility of swine influenza A viruses isolated in Germany between 1981 and 2008. Med. Microbiol. Immunol. 2012, 201:61-72.
5. Brun R., Reichert P., Kunsch H. Practical identifiability analysis of large environmental simulation models. Water Resour. Res. 2001, 37(4):1015-1030.
6. Canini L., Carrat F. Population modeling of influenza A/H1N1 virus kinetics and symptoms dynamics. J. Virol. 2011, 85:2764-2770.
7. Dawood F.S., Jain S., Finelli L., Shaw M.W., Lindstrom S., Garten R.J., Gubareva L.V., Xu X., Bridges C.B., Uyeki T.M., Novel Swine-Origin Influenza A (H1N1) Virus Investigation Team Emergence of a Novel Swine-Origin Influenza A (H1N1) virus in humans. N. Engl. J. Med. 2009, 360(25):2605-2615.
8. de Castro I.F., Guzmán-Fulgencio M., García-Alvarez M., Resino S. First evidence of a pro-inflammatory response to severe infection with influenza virus H1N1. Crit. Care 2010, 14:115.
9. Durrwald R., Krumbholz A., Baumgarte S., Schlegel M., Vahlenkamp T.W., Selbitz H.J., Wutzler P., Zell R. Swine influenza A vaccines, pandemic (H1N1) 2009 virus, and cross-reactivity. Emerg. Infect. Dis. 2010, 16:1029-1030.
10. Ginsberg M., Hopkins J., Maroufi A., Dunne G., Sunega D.R. Swine influenza A (H1N1) infection in two children - Southern California, March-April 2009. MMWR Morb. Mortal Wkly. Rep. 2009, 58(15):400-402.
11. Goris R.J., te Boekhorst T.P., Nuytinck J.K., Gimbrere J.S. Multiple-organ failure: generalized autodestructive inflammation?. Arch. Surg. 1985, 120:1109-1115.
12. Gubareva L., Okomo-Adhiambo M., et al. Update: drug susceptibility of swine-origin influenza A (H1N1) viruses, April 2009. MMWR Morb. Mortal Wkly. Rep. 2009, 58(16):433-435.
13. Hao L., Jiang G., Liu S., Ling L. Global dynamics of SIRS epidemic model with saturation incidence. Biosystems 2013, 114(1):56-63.
14. Hancioglu B., Swigon D., Clermont G. A dynamical model of human immune response to influenza A virus infection. J. Theor. Biol. 2006, 246(1):70-86.
15. Handel A., Longini I.M., Antia R. Towards a quantitative understanding of the within-host dynamics of influeza A infections. J. R. Soc. Interface 2010, 7(42):35-47.
16. Haario H., Laine M., Mira A., Saksamn E. DRAM: efficient adaptive MCMC. Stat. Comput. 2006, 16:339-354.
17. Kao R.Y., Yang D., Lau L.S., Tsui W.H., Hu L., Dai J., Chan M.P., Chan C.M., Wang P., Zheng B.J., Sun J., Huang J.D., Madar J., Chen G., Chen H., Guan Y., Yuen K.Y. Identification of influenza A nucleoprotein as an antiviral target. Nat. Biotechnol. 2010, 28(6):600-605.
18. Kirchmair J., Rollinger J.M., Liedl K.R., Seidel N., Krumbholz A., Schmidtke M. Novel neuraminidase inhibitors: identification, biological evaluation and investigations of the binding mode. Future Med. Chem. 2011, 3(4):437-450.
19. Kumar R., Clermont G., Vodovotz Y., Chow C.C. The dynamics of acute inflammation. J. Theor. Biol. 2004, 230:145-155.
20. Lee H.Y., Topham D.J., Park S.Y., Hollenbaugh J., Treanor J., Mosmann T.R., Jin X., Ward B.M., Miao H., Holden-Wiltse J., Perelson A.S., Zand M., 414 Wu H. Simulation and prediction of the adaptive immune response to influenza A virus infection. J. Virol. 2009, 83:7151-7165.
21. Li Q., Qi J., Zhang W., Vavricka C.J., Shi Y., Wie J., Feng E., Shen J., Chen J., Liu D., He J., Yan J., Liu H., Jiang H., Teng M., Li X., Gao G.F. The 2009 pandemic H1N1 neuraminidase N1 lacks the 150-cavity in its active site. Nat. Struct. Mol. Biol. 2010, 17(10):1266-1268.
22. Moré J.J. The Levenberg-Marquardt algorithm: implementation and theory. Lecture Notes Math. 1978, 630:105-116.
23. Miao H., Hollenbaugh J.A., Zand M.S., Holden-Wiltse J., Mosmann T.R., Perelson A.S., Wu H., Topham D.J. Quantifying the early immune response and adaptive immune response kinetics in mice infected with influenza A virus. J. Virol. 2010, 84(13):6687-6698.
24. Nguyen H.T., Fry A.M., Gubareva L.V. Neuraminidase inhibitor resistance in influenza viruses and laboratory testing methods. Antivir. Ther. 2012, 17(1 Pt B):159-173.
25. Pawelek K.A., Huynh G.T., Quinlivan M., Cullinane A., Rong L., Perelson A.S. Modeling within-host dynamics of influenza virus infection including immune responses. PLoS Comput. Biol. 2012, 8(6):e1002588.
26. Petzold L.R. Automatic selection of methods for solving Sti and Nonsti systems of ordinary differential equations. SIAM J. Sci. Stat. Comput. 1983, 4:136-148.
27. Pitchaimani M., Monica C., Divya M. Stability analysis for HIV infection delay model with protease inhibitor. Biosystems 2013, 114:118-124.
28. Pommerenke C., Wilk E., Srivastava B., Schulze A., Novoselova N., Geffers R., Schughart K. Global transcriptome analysis in influenza-infected mouse lungs reveals the kinetics of innate and adaptive host immune responses. PLoS ONE 2012, 7(7):e41169.
29. Raue A., Kreutz C., Maiwald T., Bachmann J., Schilling M., Klingmüller U., Timmer J. Structural and practical identifiability analysis of partially observed dynamical models by exploiting the profile likelihood. Bioinformatics 2009, 25:1923-1929.
30. Reed L.J., Muench H. A simple method of estimating fifty percent endpoints. Am. J. Hyg. 1938, 27(3):493-497.
31. Saenz R.A., Quinlivan M., Elton D., Macrae S., Blunden A.S., Mumford J.A., Daly J.M., Digard P., Cullinane A., Grenfell B.T., McCauley J.W., Wood J.L., Gog J.R. Dynamics of influenza virus infection and pathology. J. Virol. 2010, 84(8):3974-3983.
32. Schrader C., Suss J. Genetic characterization of a porcine H1N2 influenza virus strain isolated in Germany. Intervirology 2003, 46:66-70.
33. Smith A.M., Adler F.R., McAuley J.L., Gutenkunst R.N., Ribeiro R.M., McCullers J.A., Perelson A.S. Effect of 1918 PB1-F2 expression on influenza A virus infection kinetics. PLoS Comput. Biol. 2011, 7(2):e1001081.
34. Smith A.M., Perelson A.S. Influenza A virus infection kinetics: quantitative data and models. Syst. Biol. Med. 2011, 3:429-445.
35. Soetaert K., Petzoldt T., Woodrow R., Setzer R.W. Solving differential equations in R: package deSolve. J. Stat Softw. 2010, 33(9):1-25.
36. Soetaert K., Petzoldt T. Inverse modeling, sensitivity and Monte Carlo analysis in R using FME package. J. Stat. Softw. 2010, 33(3):1-28.
37. Takala A., Jousela I., Jansson S.E., Olkkola K.T., Takkunen O., Orpana A., Karonen S.L., Repo H. Markers of systemic inflammation predicting organ failure in community-acquired septic shock. Clin. Sci. (Lond.) 1999, 97:529-538.
38. Tscherne D.M., Garcia-Sastre A. Virulence determinants of pandemic influenza viruses. J. Clin. Invest. 2011, 121(1):6-13.
39. Wattrang E., Jessett D.M., Yates P., Fuxler L., Hannant D. Experimental infection of ponies with equine influenza A2 (H3N8) virus strains of different pathogenicity elicits varying interferon and interleukin-6 responses. Viral Immunol. 2003, 16(1):57-67.
40. WHO Influenza Update No. 184 2013.