Investigation of urine proteome of preterm newborns with respiratory pathologies

Journal of Proteomics

Volumn 149, Issue , 2016, Pages 31-37

  Starodubtseva, Natalia L ^a,b   Kononikhin, Alexey S ^a,b,e   Bugrova, Anna E ^a,c   Chagovets, Vitaliy ^a   Indeykina, Maria ^c,e   Krokhina, Ksenia N ^a   Nikitina, Irina V ^a   Kostyukevich, Yury I ^b,c,e   Popov, Igor A ^a,b,c,e   Larina, Irina M ^b,d   Timofeeva, Leila A ^a   Frankevich, Vladimir E ^a   Ionov, Oleg V ^a   Degtyarev, Dmitry N ^a   Nikolaev, Eugene N ^b,c,e   Sukhikh, Gennady T ^a  

^a RESEARCH CENTER OF OBSTETRICS   (Russian Federation)

^b MOSCOW INSTITUTE OF PHYSICS AND TECHNOLOGY   (Russian Federation)

^c EMANUEL INSTITUTE OF BIOCHEMICAL PHYSICS   (Russian Federation)

^d INSTITUTE OF BIOMEDICAL PROBLEMS   (Russian Federation)

^e SEMENOV INSTITUTE OF CHEMICAL PHYSICS   (Russian Federation)

Author keywords

Intensive care; Mass spectrometry; Preterm newborns; Respiratory tract disorders; Urine proteomics

Indexed keywords

APELIN RECEPTOR; DECAY ACCELERATING FACTOR; GLUTATHIONE PEROXIDASE 3; LYSOSOME ASSOCIATED MEMBRANE PROTEIN 1; NEUTROPHIL GELATINASE ASSOCIATED LIPOCALIN; PROTEIN DERIVATIVE; PROTEOME; SERINE PROTEINASE INHIBITOR; BIOLOGICAL MARKER;

ARTICLE; CLINICAL ARTICLE; CONTROLLED STUDY; FEMALE; HUMAN; LIQUID CHROMATOGRAPHY; MALE; NEWBORN; PREMATURITY; PRIORITY JOURNAL; PROTEOMICS; RESPIRATORY TRACT DISEASE; TANDEM MASS SPECTROMETRY; URINALYSIS; URINE LEVEL; ADULT; APNEA; INTENSIVE CARE; NEONATAL RESPIRATORY DISTRESS SYNDROME; NONPARAMETRIC TEST; PREGNANCY; PROCEDURES; TRANSIENT TACHYPNEA OF THE NEWBORN; URINE;

ADULT; APNEA; BIOMARKERS; CHROMATOGRAPHY, LIQUID; CRITICAL CARE; FEMALE; HUMANS; INFANT, NEWBORN; INFANT, PREMATURE; MALE; PREGNANCY; PROTEOME; PROTEOMICS; RESPIRATORY DISTRESS SYNDROME, NEWBORN; STATISTICS, NONPARAMETRIC; TANDEM MASS SPECTROMETRY; TRANSIENT TACHYPNEA OF THE NEWBORN;

EID: 84994023895     PISSN: 18743919     EISSN: 18767737     Source Type: Journal    
DOI: 10.1016/j.jprot.2016.06.012     Document Type: Article

References (42)

1. [1] Liu, L., Oza, S., Hogan, D., et al. Global, Regional, and National Causes of Child Mortality in 2000–13, with Projections to Inform Post-2015 Priorities: An Updated Systematic Analysis. 2014 (Lancet).
2. [2] Muller, B., Becker, K.L., Procalcitonin: how a hormone became a marker and mediator of sepsis. Swiss Med. Wkly. 131 (2001), 595–602.
3. [3] Guerti, K., Devos, H., Ieven, M.M., Mahieu, L.M., Time to positivity of neonatal blood cultures: fast and furious?. J. Med. Microbiol. 60 (2011), 446–453.
4. [4] Pammi, M., Flores, A., Leeflang, M., Versalovic, J., Molecular assays in the diagnosis of neonatal sepsis: a systematic review and meta-analysis. Pediatrics 128 (2011), E973–E985.
5. [5] Torrazza, R.M., Li, N., Young, C., et al. Pilot study using proteomics to identify predictive biomarkers of necrotizing enterocolitis from buccal swabs in very low birth weight infants. Neonatology 104 (2013), 234–242.
6. [6] Hitka, P., Cerny, M., Vizek, M., et al. Assessment of exhaled gases in ventilated preterm infants. Physiol. Res. 53 (2004), 561–564.
7. [7] Charlton, J.R., Norwood, V.F., Kiley, S.C., et al. Evolution of the urinary proteome during human renal development and maturation: variations with gestational and postnatal age. Pediatr. Res. 72 (2012), 179–185.
8. [8] Froehlich, J.W., Vaezzadeh, A.R., Kirchner, M., et al. An in-depth comparison of the male pediatric and adult urinary proteomes. Biochim. Biophys. Acta 1844 (2014), 1044–1050.
9. [9] Kentsis, A., Lin, Y.Y., Kurek, K., et al. Discovery and validation of urine markers of acute pediatric appendicitis using high accuracy mass spectrometry. Ann. Emerg. Med. 55:1 (2010), 62–70 (e4).
10. [10] Kentsis, A., Shulman, A., Ahmed, S., et al. Urine proteomics for discovery of improved diagnostic markers of Kawasaki disease. EMBO Mol. Med. 5:2 (2013), 210–220 2013 Feb.
11. [11] Decramer, S., Zurbig, P., Wittke, S., et al. Identification of urinary biomarkers by proteomics in newborns: use in obstructive nephropathy. Proteomics Nephrol. Clin. Appl. 160 (2008), 127–141.
12. [12] Lacroix, C., Caubet, C., Gonzalez-de-Peredo, A., et al. Label-free quantitative urinary proteomics identifies the arginase pathway as a new player in congenital obstructive nephropathy. Mol. Cell. Proteomics 13 (2014), 3421–3434.
13. [13] Sylvester, K.G., Ling, X.F.B., Liu, G.Y.G., et al. Urine protein biomarkers for the diagnosis and prognosis of necrotizing enterocolitis in infants. J. Pediatr. 164 (2014), 607–614.
14. [14] Nagaraj, N., Mann, M., Quantitative analysis of the intra- and inter-individual variability of the normal urinary proteome. J. Proteome Res. 10 (2011), 637–645.
15. [15] Marimuthu, A., O'Meally, R.N., Chaerkady, R., et al. A comprehensive map of the human urinary proteome. J. Proteome Res. 10 (2011), 2734–2743.
16. [16] Percy, A.J., Yang, J., Hardie, D.B., et al. Precise quantitation of 136 urinary proteins by LC/MRM-MS using stable isotope labeled peptides as internal standards for biomarker discovery and/or verification studies. Methods 81 (2015), 24–33.
17. [17] Selevsek, N., Matondo, M., Carbayo, M.S., et al. Systematic quantification of peptides/proteins in urine using selected reaction monitoring. Proteomics 11 (2011), 1135–1147.
18. [18] Adachi, J1., Kumar, C., Zhang, Y., JV, O., Mann, M., The human urinary proteome contains more than 1500 proteins, including a large proportion of membrane proteins. Genome Biol., 7(9), 2006, R80.
19. [19] Caubet, C., Lacroix, C., Decramer, S., Drube, J., Ehrich, J.H.H., et al. Advances in urinary proteome analysis and biomarker discovery in pediatric renal disease. Pediatr. Nephrol. 25 (2010), 27–35.
20. [20] Klein, J., Buffin-Meyer, B., Mullen, W., Carty, D.M., Delles, C., et al. Clinical proteomics in obstetrics and neonatology. Expert Rev. Proteomics 11 (2014), 75–89.
21. [21] Vaidyanathan, K., Urinary proteomics and metabolomics in the diagnosis of pediatric disorders. Proteomics Clin. Appl. 9:5–6 (2015), 482–489.
22. [22] Oh, W., Guignard, J.P., Baumgart, S., Nephrology and Fluid/Electrolyte Physiology: Neonatology Questions and Controversies. 2012, Saunders/Elsevier, Philadelphia, PA (xiv, 377 pp).
23. [23] Agron, I.A., Avtonomov, D.M., Kononikhin, A.S., Popov, I.A., Moshkovskii, S.A., et al. Accurate mass tag retention time database for urine proteome analysis by chromatography–mass spectrometry. Biochemistry (Mosc) 75 (2010), 636–641.
24. [24] Larina, I.M., Pastushkova, L., Tiys, E.S., Kireev, K.S., Kononikhin, A.S., et al. Permanent proteins in the urine of healthy humans during the Mars-500 experiment. J. Bioinforma. Comput. Biol., 13, 2015, 1540001.
25. [25] Pastushkova, L.K., Kireev, K.S., Kononikhin, A.S., Tiys, E.S., Popov, I.A., et al. Detection of renal tissue and urinary tract proteins in the human urine after space flight. PLoS One, 8, 2013.
26. [26] Laemmli, U.K., Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature 227:5259 (1970), 680–685.
27. [27] Cox, J., Mann, M., MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nat. Biotechnol. 26 (2008), 1367–1372.
28. [28] Cox, J., Matic, I., Hilger, M., Nagaraj, N., et al. A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics. Nat. Protoc. 4 (2009), 698–705.
29. [29] Vizcaino, J.A., Deutsch, E.W., Wang, R., et al. ProteomeXchange provides globally coordinated proteomics data submission and dissemination. Nat. Biotechnol. 32 (2014), 223–226.
30. [30] Thevenot, E.A., Roux, A., Xu, Y., et al. Analysis of the human adult urinary metabolome variations with age, body mass index and gender by implementing a comprehensive workflow for univariate and OPLS statistical analyses. J. Proteome Res. 14 (2015), 3322–3335.
31. [31] Sparks, M.A., Crowley, S.D., Gurley, S.B., et al. Classical renin-angiotensin system in kidney physiology. Compr. Physiol. 4 (2014), 1201–1228.
32. [32] Suzue, M., Urushihara, M., Nakagawa, R., et al. Urinary angiotensinogen level is increased in preterm neonates. Clin. Exp. Nephrol. 19:2 (2014), 293–297.
33. [33] Allegaert, K., Mekahli, D., van den Anker, J., Cystatin C in newborns: a promising renal biomarker in search for standardization and validation. J. Matern. Fetal Neonatal Med., 2014, 1–6.
34. [34] Conti, M., Moutereau, S., Zater, M., et al. Urinary cystatin C as a specific marker of tubular dysfunction. Clin. Chem. Lab. Med. 44 (2006), 288–291.
35. [35] Giacomozzi, C., Ghirri, P., Lapolla, R., et al. Retinol-binding protein 4 in neonates born small for gestational age. J. Endocrinol. Investig. 33 (2010), 218–221.
36. [36] Herrero-Morin, J.D., Malaga, S., Fernandez, N., et al. Cystatin C and beta2-microglobulin: markers of glomerular filtration in critically ill children. Pediatr. Nephrol. 23 (2008), 1377–1378.
37. [37] Kirsztajn, G.M., Nishida, S.K., Silva, M.S., et al. Urinary retinol-binding protein as a prognostic marker in glomerulopathies. Nephron 90 (2002), 424–431.
38. [38] Tsau, Y.K., Sheu, J.N., Chen, C.H., et al. Decreased urinary epidermal growth factor in children with acute renal failure: epidermal growth factor creatinine ratio not a reliable parameter for urinary epidermal growth factor excretion. Pediatr. Res. 39 (1996), 20–24.
39. [39] Madsen, M.G., Norregaard, R., Palmfeldt, J., et al. Urinary NGAL, cystatin C, beta2-microglobulin, and osteopontin significance in hydronephrotic children. Pediatr. Nephrol. 27 (2012), 2099–2106.
40. [40] Karlo, J., Bhat, B.V., Koner, B.C., Adhisivam, B., Evaluation of renal function in term babies with perinatal asphyxia. Indian J. Pediatr. 81 (2014), 243–247.
41. [41] Lin, M.X., Huang, Y.H., Mai, J., et al. [Relationship Between the Changes of Beta2-Microglobulin in Blood and Urine and Kidney Involvement in Children With Pneumonia]. Zhongguo Wei Zhong Bing Ji Jiu Yi Xue 15, 2003, 100–102.
42. [42] Facco, M., Nespeca, M., Simonato, M., et al. In vivo effect of pneumonia on surfactant disaturated-phosphatidylcholine kinetics in newborn infants. PLoS One, 9, 2014, e93612.