Abstract
With an increasing interest in volatiles metabolic pathways within bacterial species, investigation into the role of volatile organic compounds (VOCs) produced by different bacteria and their potential application in diagnostics now follows. A significant body of work was accumulated over the past few decades to achieve such goal, mostly aided by the advances in volatiles analytical detection technologies. A handful of pathogenic bacterial species have been extensively investigated and potential VOCs biomarkers or profiles have been proposed to diagnose such pathogens during infection. However, it was found that develo** species-specific VOCs biomarkers is much more challenging than just VOCs profile characterization. Using VOCs profile fingerprinting for pathogen detection is promising without the need to identify exact VOCs. Studying VOCs produced in vivo and in vitro by the same species additionally showed discrepancy between the two experimental setups, which is a result of the different growth conditions, nutrients utilization, and background VOCs produced from the culture medium or the host. Such discrepancy has hindered the translation of numerous in vitro results to in vivo studies. Consequently, in this chapter we review results from in vitro versus in vivo experimental setups in the context of two major applications including bacterial VOCs diagnostics in agriculture and human diseases.
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Abbreviations
- APCI:
-
Atmospheric pressure chemical ionization
- CF:
-
Cystic fibrosis
- eNose:
-
Electronic nose
- GC:
-
Gas chromatography
- MS:
-
Mass spectrometry
- PGPR:
-
Plant growth-promoting rhizobacteria
- SIFT:
-
Selected ion flow tube
- SPME:
-
Headspace solid-phase microextraction
- VOCs:
-
Volatile organic compounds
References
Ashrafi M, Novak-Frazer L, Bates M, Baguneid M, Alonso-Rasgado T, **a G, Rautemaa-Richardson R, Bayat A (2018) Validation of biofilm formation on human skin wound models and demonstration of clinically translatable bacteria-specific volatile signatures. Sci Rep 8:9431. https://doi.org/10.1038/s41598-018-27504-z
Attinger C, Wolcott R (2012) Clinically addressing biofilm in chronic wounds. Adv Wound Care (New Rochelle) 1:127–132. https://doi.org/10.1089/wound.2011.0333
Audrain B, Farag MA, Ryu C-M, Ghigo J-M (2015) Role of bacterial volatile compounds in bacterial biology. FEMS Microbiol Rev 39:222–233. https://doi.org/10.1093/femsre/fuu013
Bailly A, Groenhagen U, Schulz S, Geisler M, Eberl L, Weisskopf L (2014) The inter-kingdom volatile signal indole promotes root development by interfering with auxin signalling. Plant J 80:758–771. https://doi.org/10.1111/tpj.12666
Bentlin MR, de Souza Rugolo LMS (2010) Late-onset sepsis: epidemiology, evaluation, and outcome. NeoReviews 11:e426–e435. https://doi.org/10.1542/neo.11-8-e426
Bergmann A, Trefz P, Fischer S, Klepik K, Walter G, Steffens M, Ziller M, Schubert JK, Reinhold P, Köhler H, Miekisch W (2015) In vivo volatile organic compound signatures of Mycobacterium avium subsp. paratuberculosis. PLoS One 10:e0123980. https://doi.org/10.1371/journal.pone.0123980
Berkhout DJC, Niemarkt HJ, Buijck M, van Weissenbruch MM, Brinkman P, Benninga MA, van Kaam AH, Kramer BW, Andriessen P, de Boer NKH, de Meij TGJ (2017) Detection of sepsis in preterm infants by fecal volatile organic compounds analysis: a proof of principle study. J Pediatr Gastroenterol Nutr 65:e47–e52. https://doi.org/10.1097/MPG.0000000000001471
Berkhout DJC, Niemarkt HJ, de Boer NKH, Benninga MA, de Meij TGJ (2018) The potential of gut microbiota and fecal volatile organic compounds analysis as early diagnostic biomarker for necrotizing enterocolitis and sepsis in preterm infants. Expert Rev Gastroenterol Hepatol 12:457–470. https://doi.org/10.1080/17474124.2018.1446826
Berrington JE, Hearn RI, Bythell M, Wright C, Embleton ND (2012) Deaths in preterm infants: changing pathology over 2 decades. J Pediatr 160:49–53.e1. https://doi.org/10.1016/j.jpeds.2011.06.046
Bitas V, Kim H-S, Bennett JW, Kang S (2013) Sniffing on microbes: diverse roles of microbial volatile organic compounds in plant health. Mol Plant-Microbe Interact 26:835–843. https://doi.org/10.1094/MPMI-10-12-0249-CR
Bizzarro MJ, Raskind C, Baltimore RS, Gallagher PG (2005) Seventy-five years of neonatal sepsis at Yale: 1928–2003. Pediatrics 116:595–602. https://doi.org/10.1542/peds.2005-0552
Blasioli S, Biondi E, Samudrala D, Spinelli F, Cellini A, Bertaccini A, Cristescu SM, Braschi I (2014) Identification of volatile markers in potato brown rot and ring rot by combined GC-MS and PTR-MS techniques: study on in vitro and in vivo samples. J Agric Food Chem 62:337–347. https://doi.org/10.1021/jf403436t
Bos LDJ, Sterk PJ, Schultz MJ (2013) Volatile metabolites of pathogens: a systematic review. PLoS Pathog 9:e1003311. https://doi.org/10.1371/journal.ppat.1003311
Brooks JB, Kellogg DS, Alley CC, Short HB, Handsfield HH, Huff B (1974) Gas chromatography as a potential means of diagnosing arthritis. I. Differentiation between staphylococcal, streptococcal, gonococcal, and traumatic arthritis. J Infect Dis 129:660–668. https://doi.org/10.1093/infdis/129.6.660
Callewaert C, Buysschaert B, Vossen E, Fievez V, Wiele T, Boon N (2014) Artificial sweat composition to grow and sustain a mixed human axillary microbiome. J Microbiol Methods 103:6–8. https://doi.org/10.1016/j.mimet.2014.05.005
Chingin K, Liang J, Hang Y, Hu L, Chen H (2015) Rapid recognition of bacteremia in humans using atmospheric pressure chemical ionization mass spectrometry of volatiles emitted by blood cultures. RSC Adv 5:13952–13957. https://doi.org/10.1039/C4RA16502K
Cordovez V, Schop S, Hordijk K, Dupré de Boulois H, Coppens F, Hanssen I, Raaijmakers JM, Carrión VJ (2018) Priming of plant growth promotion by volatiles of root-associated Microbacterium spp. Appl Environ Microbiol. https://doi.org/10.1128/AEM.01865-18
Cui S, Ling P, Zhu H, Keener HM (2018) Plant pest detection using an artificial nose system: a review. Sensors (Basel). https://doi.org/10.3390/s18020378
Dang NA, Janssen H-G, Kolk AHJ (2013) Rapid diagnosis of TB using GC-MS and chemometrics. Bioanalysis 5:3079–3097. https://doi.org/10.4155/bio.13.288
de Meij TGJ, van der Schee MPC, Berkhout DJC, van de Velde ME, Jansen AE, Kramer BW, van Weissenbruch MM, van Kaam AH, Andriessen P, van Goudoever JB, Niemarkt HJ, de Boer NKH (2015) Early detection of necrotizing enterocolitis by fecal volatile organic compounds analysis. J Pediatr 167:562–7.e1. https://doi.org/10.1016/j.jpeds.2015.05.044
Donlan RM (2002) Biofilms: microbial life on surfaces. Emerg Infect Dis 8:881–890. https://doi.org/10.3201/eid0809.020063
Edman DC, Brooks JB (1983) Gas—liquid chromatography—frequency pulse-modulated electron-capture detection in the diagnosis of infectious diseases. J Chromatogr B Biomed Sci Appl 274:1–25. https://doi.org/10.1016/S0378-4347(00)84404-7
Falagas ME, Rafailidis PI (2007) Attributable mortality of Acinetobacter baumannii: no longer a controversial issue. Crit Care 11:134. https://doi.org/10.1186/cc5911
Farag MA, Zhang H, Ryu C-M (2013) Dynamic chemical communication between plants and bacteria through airborne signals: induced resistance by bacterial volatiles. J Chem Ecol 39:1007–1018. https://doi.org/10.1007/s10886-013-0317-9
Fend R, Kolk AHJ, Bessant C, Buijtels P, Klatser PR, Woodman AC (2006) Prospects for clinical application of electronic-nose technology to early detection of Mycobacterium tuberculosis in culture and sputum. J Clin Microbiol 44:2039–2045. https://doi.org/10.1128/JCM.01591-05
Filipiak W, Beer R, Sponring A, Filipiak A, Ager C, Schiefecker A, Lanthaler S, Helbok R, Nagl M, Troppmair J, Amann A (2015) Breath analysis for in vivo detection of pathogens related to ventilator-associated pneumonia in intensive care patients: a prospective pilot study. J Breath Res 9:016004. https://doi.org/10.1088/1752-7155/9/1/016004
Fischer S, Bergmann A, Steffens M, Trefz P, Ziller M, Miekisch W, Schubert JS, Köhler H, Reinhold P (2015) Impact of food intake on in vivo VOC concentrations in exhaled breath assessed in a caprine animal model. J Breath Res 9:047113. https://doi.org/10.1088/1752-7155/9/4/047113
Gao J, Zou Y, Wang Y, Wang F, Lang L, Wang P, Zhou Y, Ying K (2016) Breath analysis for noninvasively differentiating Acinetobacter baumannii ventilator-associated pneumonia from its respiratory tract colonization of ventilated patients. J Breath Res 10:027102. https://doi.org/10.1088/1752-7155/10/2/027102
Garner CE, Ewer AK, Elasouad K, Power F, Greenwood R, Ratcliffe NM, de Lacy Costello B, Probert CS (2009) Analysis of faecal volatile organic compounds in preterm infants who develop necrotising enterocolitis: a pilot study. J Pediatr Gastroenterol Nutr 49:559–565. https://doi.org/10.1097/MPG.0b013e3181a3bfbc
Goeminne PC, Vandendriessche T, Van Eldere J, Nicolai BM, Hertog MLATM, Dupont LJ (2012) Detection of Pseudomonas aeruginosa in sputum headspace through volatile organic compound analysis. Respir Res 13:87. https://doi.org/10.1186/1465-9921-13-87
Hertel M, Preissner R, Gillissen B, Schmidt-Westhausen AM, Paris S, Preissner S (2016) Detection of signature volatiles for cariogenic microorganisms. Eur J Clin Microbiol Infect Dis 35:235–244. https://doi.org/10.1007/s10096-015-2536-1
Hong-Geller E, Adikari S (2018) Volatile organic compound and metabolite signatures as pathogen identifiers and biomarkers of infectious disease. In: Biosensing technologies for the detection of pathogens – a prospective way for rapid analysis. https://doi.org/10.5772/intechopen.72398
Huang J, Cardoza YJ, Schmelz EA, Raina R, Engelberth J, Tumlinson JH (2003) Differential volatile emissions and salicylic acid levels from tobacco plants in response to different strains of Pseudomonas syringae. Planta 217:767–775. https://doi.org/10.1007/s00425-003-1039-y
Human Microbiome Project Consortium (2012) Structure, function and diversity of the healthy human microbiome. Nature 486:207–214. https://doi.org/10.1038/nature11234
Kai M, Effmert U, Piechulla B (2016) Bacterial-plant-interactions: approaches to unravel the biological function of bacterial volatiles in the Rhizosphere. Front Microbiol 7:108. https://doi.org/10.3389/fmicb.2016.00108
Kapoor U, Sharma G, Juneja M, Nagpal A (2016) Halitosis: current concepts on etiology, diagnosis and management. Eur J Dent 10:292–300. https://doi.org/10.4103/1305-7456.178294
Khalil MNA, Fekry MI, Farag MA (2017) Metabolome based volatiles profiling in 13 date palm fruit varieties from Egypt via SPME GC-MS and chemometrics. Food Chem 217:171–181. https://doi.org/10.1016/j.foodchem.2016.08.089
Khatua S, Geltemeyer AM, Gourishankar A (2017) Tuberculosis: is the landscape changing? Pediatr Res 81:265–270. https://doi.org/10.1038/pr.2016.205
Kirwan JR (1982) Synovial fluid lactate in septic arthritis. Lancet 1:457. https://doi.org/10.1016/S0140-6736(82)90982-5
Kloepper JW, Leong J, Teintze M, Schroth MN (1980) Enhanced plant growth by siderophores produced by plant growth-promoting rhizobacteria. Nature 286:885–886. https://doi.org/10.1038/286885a0
Kramer R, Sauer-Heilborn A, Welte T, Guzman CA, Höfle MG, Abraham WR (2015) A rapid method for breath analysis in cystic fibrosis patients. Eur J Clin Microbiol Infect Dis 34:745–751. https://doi.org/10.1007/s10096-014-2286-5
Kunze-Szikszay N, Walliser K, Luther J, Cambiaghi B, Reupke V, Dullin C, Vautz W, Bremmer F, Telgheder U, Zscheppank C, Quintel M, Perl T (2019) Detecting early markers of ventilator-associated pneumonia by analysis of exhaled gas. Crit Care Med 47:e234–e240. https://doi.org/10.1097/CCM.0000000000003573
Lemfack MC, Gohlke B-O, Toguem SMT, Preissner S, Piechulla B, Preissner R (2018) mVOC 2.0: a database of microbial volatiles. Nucleic Acids Res 46:D1261–D1265. https://doi.org/10.1093/nar/gkx1016
Lynch SV, Pedersen O (2016) The human intestinal microbiome in health and disease. N Engl J Med 375:2369–2379. https://doi.org/10.1056/NEJMra1600266
McNerney R, Mallard K, Okolo PI, Turner C (2012) Production of volatile organic compounds by mycobacteria. FEMS Microbiol Lett 328:150–156. https://doi.org/10.1111/j.1574-6968.2011.02493.x
Meldau DG, Meldau S, Hoang LH, Underberg S, Wünsche H, Baldwin IT (2013) Dimethyl disulfide produced by the naturally associated bacterium Bacillus sp B55 promotes Nicotiana attenuata growth by enhancing sulfur nutrition. Plant Cell 25:2731–2747. https://doi.org/10.1105/tpc.113.114744
Mellors TR, Nasir M, Franchina FA, Smolinska A, Blanchet L, Flynn JL, Tomko J, O’Malley M, Scanga CA, Lin PL, Wagner J, Hill JE (2018) Identification of Mycobacterium tuberculosis using volatile biomarkers in culture and exhaled breath. J Breath Res 13:016004. https://doi.org/10.1088/1752-7163/aacd18
Nizio KD, Perrault KA, Troobnikoff AN, Ueland M, Shoma S, Iredell JR, Middleton PG, Forbes SL (2016) In vitro volatile organic compound profiling using GC×GC-TOFMS to differentiate bacteria associated with lung infections: a proof-of-concept study. J Breath Res 10:026008. https://doi.org/10.1088/1752-7155/10/2/026008
Patel RM, Denning PW (2015) Intestinal microbiota and its relationship with necrotizing enterocolitis. Pediatr Res 78:232–238. https://doi.org/10.1038/pr.2015.97
Patel RM, Kandefer S, Walsh MC, Bell EF, Carlo WA, Laptook AR, Sánchez PJ, Shankaran S, Van Meurs KP, Ball MB, Hale EC, Newman NS, Das A, Higgins RD, Stoll BJ, Eunice Kennedy Shriver National Institute of Child Health and Human Development Neonatal Research Network (2015) Causes and timing of death in extremely premature infants from 2000 through 2011. N Engl J Med 372:331–340. https://doi.org/10.1056/NEJMoa1403489
Payne RK, Labows JN, Liu X (2000) Released oral malodors measured by solid phase microextraction-gas chromatography mass spectrometry. In: Roberts DD, Taylor AJ (eds) Flavor release. American Chemical Society, Washington, DC, pp 73–86
Pereira J, Porto-Figueira P, Cavaco C, Taunk K, Rapole S, Dhakne R, Nagarajaram H, Câmara JS (2015) Breath analysis as a potential and non-invasive frontier in disease diagnosis: an overview. Meta 5:3–55. https://doi.org/10.3390/metabo5010003
Phillips M, Cataneo RN, Condos R, Ring Erickson GA, Greenberg J, La Bombardi V, Munawar MI, Tietje O (2007) Volatile biomarkers of pulmonary tuberculosis in the breath. Tuberculosis (Edinb) 87:44–52. https://doi.org/10.1016/j.tube.2006.03.004
Purcaro G, Nasir M, Franchina FA, Rees CA, Aliyeva M, Daphtary N, Wargo MJ, Lundblad LKA, Hill JE (2019) Breath metabolome of mice infected with Pseudomonas aeruginosa. Metabolomics 15:10. https://doi.org/10.1007/s11306-018-1461-6
Qiao W, Wang F, Xu X, Wang S, Regenstein JM, Bao B, Ma M (2018) Egg yolk immunoglobulin interactions with Porphyromonas gingivalis to impact periodontal inflammation and halitosis. AMB Express 8:176. https://doi.org/10.1186/s13568-018-0706-0
Rees CA, Burklund A, Stefanuto P-H, Schwartzman JD, Hill JE (2018) Comprehensive volatile metabolic fingerprinting of bacterial and fungal pathogen groups. J Breath Res 12:026001. https://doi.org/10.1088/1752-7163/aa8f7f
Rinninella E, Raoul P, Cintoni M, Franceschi F, Miggiano GAD, Gasbarrini A, Mele MC (2019) What is the healthy gut microbiota composition? A changing ecosystem across age, environment, diet, and diseases. Microorganisms. https://doi.org/10.3390/microorganisms7010014
Rösing CK, Jonski G, Rølla G (2002) Comparative analysis of some mouthrinses on the production of volatile sulfur-containing compounds. Acta Odontol Scand 60:10–12. https://doi.org/10.1080/000163502753471934
Ryu C-M, Farag MA, Hu C-H, Reddy MS, Wei H-X, Paré PW, Kloepper JW (2003) Bacterial volatiles promote growth in Arabidopsis. Proc Natl Acad Sci U S A 100:4927–4932. https://doi.org/10.1073/pnas.0730845100
Ryu C-M, Farag MA, Hu C-H, Reddy MS, Kloepper JW, Paré PW (2004) Bacterial volatiles induce systemic resistance in Arabidopsis. Plant Physiol 134:1017–1026. https://doi.org/10.1104/pp.103.026583
Schulz-Bohm K, Gerards S, Hundscheid M, Melenhorst J, de Boer W, Garbeva P (2018) Calling from distance: attraction of soil bacteria by plant root volatiles. ISME J 12:1252–1262. https://doi.org/10.1038/s41396-017-0035-3
Smith D, Spanel P (2005) Selected ion flow tube mass spectrometry (SIFT-MS) for on-line trace gas analysis. Mass Spectrom Rev 24:661–700. https://doi.org/10.1002/mas.20033
Smith D, Spaněl P, Gilchrist FJ, Lenney W (2013) Hydrogen cyanide, a volatile biomarker of Pseudomonas aeruginosa infection. J Breath Res 7:044001. https://doi.org/10.1088/1752-7155/7/4/044001
Spaněl P, Smith D (2011) Progress in SIFT-MS: breath analysis and other applications. Mass Spectrom Rev 30:236–267. https://doi.org/10.1002/mas.20303
Spinelli F, Noferini M, Vanneste JL, Costa G (2010) Potential of the electronic-nose for the diagnosis of bacterial and fungal diseases in fruit trees. EPPO Bull 40:59–67. https://doi.org/10.1111/j.1365-2338.2009.02355.x
Surette MG, Davies J (2008) A new look at secondary metabolites. In: Winans SC, Bassler BL (eds) Chemical communication among bacteria. American Society of Microbiology, pp 307–322
Syhre M, Chambers ST (2008) The scent of Mycobacterium tuberculosis. Tuberculosis (Edinb) 88:317–323. https://doi.org/10.1016/j.tube.2008.01.002
Tahir HAS, Gu Q, Wu H, Raza W, Hanif A, Wu L, Colman MV, Gao X (2017) Plant growth promotion by volatile organic compounds produced by Bacillus subtilis SYST2. Front Microbiol 8:171. https://doi.org/10.3389/fmicb.2017.00171
Tait E, Perry JD, Stanforth SP, Dean JR (2014) Identification of volatile organic compounds produced by bacteria using HS-SPME-GC-MS. J Chromatogr Sci 52:363–373. https://doi.org/10.1093/chromsci/bmt042
Takeshita T, Suzuki N, Nakano Y, Shimazaki Y, Yoneda M, Hirofuji T, Yamashita Y (2010) Relationship between oral malodor and the global composition of indigenous bacterial populations in saliva. Appl Environ Microbiol 76:2806–2814. https://doi.org/10.1128/AEM.02304-09
Tröger B, Göpel W, Faust K, Müller T, Jorch G, Felderhoff-Müser U, Gortner L, Heitmann F, Hoehn T, Kribs A, Laux R, Roll C, Emeis M, Mögel M, Siegel J, Vochem M, von der Wense A, Wieg C, Herting E, Härtel C, German Neonatal Network (2014) Risk for late-onset blood-culture proven sepsis in very-low-birth weight infants born small for gestational age: a large multicenter study from the German Neonatal Network. Pediatr Infect Dis J 33:238–243. https://doi.org/10.1097/INF.0000000000000031
van Dam NM, Weinhold A, Garbeva P (2016) Calling in the dark: the role of volatiles for communication in the rhizosphere. In: Blande JD, Glinwood R (eds) Deciphering chemical language of plant communication. Springer, Cham, pp 175–210
Vespermann A, Kai M, Piechulla B (2007) Rhizobacterial volatiles affect the growth of fungi and Arabidopsis thaliana. Appl Environ Microbiol 73:5639–5641. https://doi.org/10.1128/AEM.01078-07
Zhang H, Kim M-S, Krishnamachari V, Payton P, Sun Y, Grimson M, Farag MA, Ryu C-M, Allen R, Melo IS, Paré PW (2007) Rhizobacterial volatile emissions regulate auxin homeostasis and cell expansion in Arabidopsis. Planta 226:839–851. https://doi.org/10.1007/s00425-007-0530-2
Zhu J, Bean HD, Wargo MJ, Leclair LW, Hill JE (2013) Detecting bacterial lung infections: in vivo evaluation of in vitro volatile fingerprints. J Breath Res 7:016003. https://doi.org/10.1088/1752-7155/7/1/016003
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Dr. Mohamed Farag thanks the funding received to his laboratory supported by a grant from Jesour program, ASRT grant number 30, Cairo, Egypt and Cairo University research support grant.
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Elmassry, M.M., Farag, M.A. (2020). In Vivo and In Vitro Volatile Organic Compounds (VOCs) Analysis in Bacterial Diagnostics: Case Studies in Agriculture and Human Diseases. In: Ryu, CM., Weisskopf, L., Piechulla, B. (eds) Bacterial Volatile Compounds as Mediators of Airborne Interactions. Springer, Singapore. https://doi.org/10.1007/978-981-15-7293-7_4
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