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Biomarkers of bacterial spore germination

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Abstract

Exposure to specific germinant can induce germination in dormant bacterial spores converting them into vegetative cells which are metabolically active and fragile. This phenomenon of conversion of spores from one phase to another could be a keynote potential strategy for development of different type of techniques ranging from spore detection to their eradication and spore-based biosensing. To extend this biphasic spore germination-based approach in order to facilitate development of detection systems, mechanistic details of markers that signals the process of germination initiation in bacterial spores are required. These markers possess a high level of specificity for differentiation in germinating and dormant spores. In this line, present review underscores the structural properties, sporulation and germination in bacterial spores, and covers a detailed description on various biomarkers namely absorbance (600 nm), dipicolinic acid (DPA), refractility of spores, nucleic acid, ATP, spore’s heat resistance, and enzymes which could be valuable in perceiving germination in bacterial spores. Assaying germination using these markers can further explore the efficient use of spores in development of detection devices for food and environment safety.

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References

  • Barlass PJ, Houston CW, Clements MO, Moir A (2002) Germination of Bacillus cereus spores in response to L-alanine and to inosine: the roles of gerL and gerQ operons. Microbiology 148:2089–2095

    Article  PubMed  CAS  Google Scholar 

  • Bhattacharjee D, McAllister KN, Joseph A, Sorg JA (2016) Germinants and their receptors in Clostridia. J Bacteriol 198:2767–2775

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Black EP, Koziol-Dube K, Guan DS, Wei H, Setlow B, Cortezzo DE, Hoover DG, Setlow P (2005) Factors influencing germination of Bacillus subtilis spores via activation of nutrient receptors by high pressure. Appl Environ Microbiol 71:5879–5887

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Boyd V, Cholewa OM, Papas KK (2008) Limitations in the use of fluorescein diacetate/propidium iodide (FDA/PI) and cell permeable nucleic acid stains for viability measurements of isolated islets of Langerhans. Curr Trends Biotechnol Pharm 2:66

    PubMed  PubMed Central  Google Scholar 

  • Broussolle V, Alberto F, Shearman CA, Mason DR, Botella L, Nguyen-The C, Peck MW, Carlin F (2002) Molecular and physiological characterisation of spore germination in Clostridium botulinum and C. sporogenes. Anaerobe 8:89–100

    Article  CAS  Google Scholar 

  • Cabrera-Martinez RM, Tovar-Rojo F, Vepachedu VR, Setlow P (2003) Effects of overexpression of nutrient receptors on germination of spores of Bacillus subtilis. J Bacteriol 185:2457–2464

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Caipo ML, Duffy S, Zhao L, Schaffner DW (2002) Bacillus megaterium spore germination is influenced by inoculum size. J Appl Microbiol 92:879–884

    Article  PubMed  CAS  Google Scholar 

  • Carr KA, Lybarger SR, Anderson EC, Janes BK, Hanna PC (2010) The role of Bacillus anthracis germinant receptors in germination and virulence. Mol Microbiol 75:365–375

    Article  PubMed  CAS  Google Scholar 

  • Chollet R, Ribault S (2012) Use of ATP bioluminescence for rapid detection and enumeration of contaminants: the Milliflex rapid microbiology detection and enumeration system. In: Lapota D (ed) Bioluminescence. IntechOpen. https://doi.org/10.5772/37055

  • Christie G, Lowe CR (2007) Role of chromosomal and plasmid-borne receptor homologues in the response of Bacillus megaterium QM B1551 spores to germinants. J Bacteriol 189:4375–4383

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Clear KJ, Sarah Stroud S, Smith BD (2013) Dual colorimetric and luminescent assay for dipicolinate, a biomarker of bacterial spores. Analyst 138:1–9

    Article  CAS  Google Scholar 

  • Coleman WH, Zhang P, Yq L, Setlow P (2010) Mechanism of killing of spores of Bacillus cereus and Bacillus megaterium by wet heat. Lett Appl Microbiol 50:507–514

    Article  PubMed  CAS  Google Scholar 

  • Errington J (1993) Bacillus subtilis sporulation: regulation of gene expression and control of morphogenesis. Microbiol Rev 57:1–33

    PubMed  PubMed Central  CAS  Google Scholar 

  • Ferencko L, Cote MA, Rotman B (2004) Esterase activity as a novel parameter of spore germination in Bacillus anthracis. Biochem Biophys Res Commun 319:854–858

    Article  PubMed  CAS  Google Scholar 

  • Fisher N, Hanna P (2005) Characterization of Bacillus anthracis germinant receptors in vitro. J Bacteriol 187:8055–8062

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Foster SJ, Johnstone K (1990) Pulling the trigger: the mechanism of bacterial spore germination. Mol Microbiol 4:137–141

    Article  PubMed  CAS  Google Scholar 

  • Fujinami Y, Kataoka M, Matsushita K, Sekigushi H, Itoi T, Tsuge K, Seto Y (2004) Sensitive detection of bacteria and spores using a portable bioluminescence ATP measurement. Assay System Distinguishing from White Powder Materials. J Health Sci 50:126–132

    Article  CAS  Google Scholar 

  • Gerhardt P, Marquis RE (1989) Spore thermoresistance mechanisms. In: Smith I, Slepecky RA, Setlow P (eds) Regulation of prokaryotic development: structural and functional analysis of bacterial sporulation and germination. American Society for Microbiology, Washington

    Google Scholar 

  • Ghosh S (2013) Understanding the mechanism of Bacillus subtilis spore germination. Doctoral Thesis. Submitted to University of Connecticut Graduate School

  • Gould GW (1969) Germination. In: Gould GW, Hurst A (eds) The bacterial spore. Academic Press, London

    Google Scholar 

  • Griffiths KK, Zhang J, Cowan AE, Yu J, Setlow P (2011) Germination proteins in the inner membrane of dormant Bacillus subtilis spores colocalize in a discrete cluster. Mol Microbiol 81:1061–1077

    Article  PubMed  CAS  Google Scholar 

  • Gupta S, U¨stok FI, Johnson CL, DMD B, Lowe CR, Christie G (2013) Investigating the functional hierarchy of Bacillus megaterium PV361 spore germinant receptors. J Bacteriol 195:3045–3053

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Hausenbauer JM, Waites WM, Setlow P (1977) Biochemical properties of Clostridium bifermentans spores. J Bacteriol 129:1148–1150

    PubMed  PubMed Central  CAS  Google Scholar 

  • Henriques AO, Moran J, Charles P (2007) Structure, assembly, and function of the spore surface layers. Annu Rev Microbiol 61:555–588

    Article  PubMed  CAS  Google Scholar 

  • Hornstra LM, de Vries YP, Wells-Bennik MHJ, de Vos WM, Abee T (2006) Characterization of germination receptors of Bacillus cereus ATCC 14579. Appl Environ Microbiol 72:44–53

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Katherine AC (2010) Early events of spore germination and their role in Bacillus anthracis virulence. Doctoral Thesis.University of Michigan

  • Kodaka H, Fukuda K, Mizuochi S, Horigome K (1996) Adenosine triphosphate content of microorganisms related with food spoilage. Jpn J Food Microbiol 13:29–34

    Article  Google Scholar 

  • Kong L, Zhang P, Yu J, Setlow P, Li Y (2010) Monitoring the kinetics of uptake of a nucleic acid dye during the germination of single spores of Bacillus species. Anal Chem 82:8717–8724

    Article  PubMed  CAS  Google Scholar 

  • Kristin CSR (2012) Diversity in germination response among Bacillus licheniformis strains. Master Thesis. Submitted to Norwegian University of Life Sciences

  • Laaberki MH, Dworkin J (2008) Role of spore coat proteins in the resistance of Bacillus subtilis spores to Caenorhabditis elegans predation. J Bacteriol 190:6197–6203

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Leach FR, Webster JJ (1986) Commercially available firefly luciferase reagents. Methods Enzymol 133:51–70

    Article  PubMed  CAS  Google Scholar 

  • Levinson HS, Hyatt MT (1966) Sequence of events during Bacillus megaterium spore germination. J Bacteriol 91:811–818

    Google Scholar 

  • Li Y, Ma X, Zhao M, Qi P, Zhong J (2014) Quick and label-free detection for coumaphos by using surface plasmon resonance biochip. PLoS One 9:1–7

    Google Scholar 

  • Løvdal IS, From C, Madslien EH, Romundset KCS, Klufterud E, Rosnes JT, Granum PE (2012) Role of the gerA operon in L-alanine germination of Bacillus licheniformis spores. BMC Microbiol 34:1–12

    Google Scholar 

  • Luu S, Setlow P (2014) Analysis of the loss in heat and acid resistance during germination of spores of Bacillus species. J Bacteriol 196:1733–1740

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Luu S, Cruz-Mora J, Setlow B, Feeherry FE, Doona CJ, Setlow P (2015) The effects of heat activation on Bacillus spore germination, with nutrients or under high pressure, with or without various germination proteins. Appl Environ Microbiol 81:2927–2938

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Madslien EH, Granum PE, Blatny JM, Lindbäck T (2014) L-alanine-induced germination in Bacillus licheniformis the impact of native gerA sequences. BMC Microbiol 14:101–110

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Magge A, Setlow B, Cowan AE, Setlow P (2009) Analysis of dye binding by and membrane potential in spores of Bacillus species. J Appl Microbiol 106:814–824

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • McCormick NG (1965) Kinetics of spore germination. J Bacteriol 89:1180–1185

    PubMed  PubMed Central  CAS  Google Scholar 

  • McKenney PT, Driks A, Eskandarian HA, Grabowski P, Guberman J, Wang KH, Gitai Z, Eichenberger P (2010) A distance-weighted interaction map reveals a previously uncharacterized layer of the Bacillus subtilis spore coat. Curr Biol 20:934–938

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Moir A (2006) How do spores germinate? J Appl Microbiol 101:526–530

    Article  PubMed  CAS  Google Scholar 

  • Moir A, Corfe BM, Behravan J (2002) Spore germination. Cell Mol Life Sci 59:403–409

    Article  PubMed  CAS  Google Scholar 

  • Nicholson W (2002) Roles of Bacillus endospores in the environment. Cell Mol Life Sci 59:410–416

    Article  PubMed  CAS  Google Scholar 

  • Nicholson WL, Munakata N, Horneck G, Melosh HJ, Setlow P (2000) Resistance of Bacillus endospores to extreme terrestrial and extra-terrestrial environments. Microbiol Mol Biol Rev 64:548–572

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Paidhungat M, Setlow P (2002) Spore germination and outgrowth. In: Sonenshein AL, Hoch JA, Losick R (eds) Bacillus subtilis and its closest relatives: from genes to cells. American Society for Microbiology, Washington

    Google Scholar 

  • Paidhungat M, Setlow B, Driks A, Setlow P (2000) Characterization of spores of Bacillus subtilis which lack dipicolinic acid. J Bacteriol 182:5505–5512

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Pandey R, Ter Beek A, Vischer NO, Smelt JP, Brul S, Manders EM (2013) Live cell imaging of germination and outgrowth of individual Bacillus subtilis spores; the effect of heat stress quantitatively analyzed with SporeTracker. PLoS One 8:e58972

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Paredes-Sabja D, Setlow B, Setlow P, Sarker MR (2008) Characterization of Clostridium perfringens spores that lack SpoVA proteins and dipicolinic acid. J Bacteriol 190:4648–4659

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Paredes-Sabja D, Setlow P, Sarker MR (2010) Germination of spores of Bacillales and Clostridiales species: mechanisms and proteins involved. Trends Microbiol 19:85–94

    Article  PubMed  CAS  Google Scholar 

  • Peng L, Chen D, Setlow P, Y-q L (2009) Elastic and inelastic light scattering from single bacterial spores in an optical trap allows the monitoring of spore germination dynamics. Anal Chem 81:4035–4042

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Piggot PJ, Hilbert DW (2004) Sporulation of Bacillus subtilis. Curr Opin Microbiol 7:579–586

    Article  PubMed  CAS  Google Scholar 

  • Powell JF (1950) Factors affecting the germination of thick suspension of Bacillus subtilis spores in L-alanine solution. J Gen Microbiol 4:330–339

    Article  PubMed  CAS  Google Scholar 

  • Ragkousi K, Cowan AE, Ross MA, Setlow P (2000) Analysis of nucleoid morphology during germination and outgrowth of spores of Bacillus species. J Bacteriol 182:5556–5562

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Ross C, Abel-Santos E (2010) The Ger receptor family from sporulating bacteria. Curr Issues Mol Biol 12:147–158

    PubMed  PubMed Central  CAS  Google Scholar 

  • Santo LY, Doi RH (1974) Ultrastructural analysis during germination and outgrowth of Bacillus subtilis spores. J Bacteriol 120:475–481

    PubMed  PubMed Central  CAS  Google Scholar 

  • Seliger HH (1989) Some reflections on McElroy and bioluminescence. J Biolumin Chemilumin 4:26–28

    Article  PubMed  CAS  Google Scholar 

  • Setlow P (1983) Germination and outgrowth. In: Gould GW, Hurst A (eds) The bacterial spore. Academic Press, London

    Google Scholar 

  • Setlow P (1994) Mechanisms which contribute to the long term survival of spores of bacillus species. J Appl Bacteriol 76:49S–60S

    Article  Google Scholar 

  • Setlow P (2003) Spore germination- review article. Curr Opin Microbiol 6:550–556

    Article  PubMed  CAS  Google Scholar 

  • Setlow P (2006) Spores of Bacillus subtilis: their resistance to and killing by radiation, heat and chemicals. J Appl Microbiol 101:514–525

    Article  PubMed  CAS  Google Scholar 

  • Setlow P (2007) I will survive: DNA protection in bacterial spores. Trends Microbiol 15:172–180

    Article  PubMed  CAS  Google Scholar 

  • Setlow P (2013) When the sleepers wake: the germination of spores of Bacillus species. J Appl Microbiol 115:1251–1268

    Article  PubMed  CAS  Google Scholar 

  • Setlow P (2014) Germination of spores of Bacillus species: what we know and do not know. J Bacteriol 196:1297

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Setlow P, Johnson EA (2007) Spores and their significance. In: Doyle MP, Beuchat LR (eds) Food microbiology, fundamentals and frontiers, 3rd edn. American Society for Microbiology, Washington

    Google Scholar 

  • Setlow P, Johnson EA (2012) Spores and their significance. In: Doyle MP, Beuchat LR (eds) Food microbiology, fundamentals and frontiers, 4th edn. American Society for Microbiology, Washington

    Google Scholar 

  • Setlow B, Loshon CA, Genest PC, Cowan AE, Setlow C, Setlow P (2002) Mechanisms of killing of spores of Bacillus subtilis by acid, alkali, and ethanol. J Appl Microbiol 92:362–375

    Article  PubMed  CAS  Google Scholar 

  • Singh RP, Setlow B, Setlow P (1977) Levels of small molecules and enzymes in the mother cell compartment and the forespore of sporulating Bacillus megaterium. J Bacteriol 130:1130–1138

    PubMed  PubMed Central  CAS  Google Scholar 

  • Sorg JA, Sonenshein AL (2010) Inhibiting the initiation of Clostridium difficile spore germination using analogs of chenodeoxycholic acid, a bile acid. J Bacteriol 192:4983–4990

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Stewart GS, Johnstone K, Hagelberg E, Ellar DJ (1981) Commitment of bacterial spores to germinate: a measure of the trigger reaction. Biochem J 198:101–106

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Swerdlow BM, Setlow B, Setlow P (1981) Levels of H+ and other monovalent cations in dormant and germinated spores of Bacillus megaterium. J Bacteriol 148:20–29

    PubMed  PubMed Central  CAS  Google Scholar 

  • Tehri N (2015) Spore based sensor for pesticide residues in milk. Doctoral thesis submitted to NDRI, Karnal. http://krishikosh.egranth.ac.in/handle/1/5810039846. Accessed 7 Jan 2018

  • Tehri N, Kumar N, Raghu HV et al (2017) Role of stereospecific nature of germinants in Bacillus megaterium spores germination. 3 Biotech 7:259

    Article  PubMed  PubMed Central  Google Scholar 

  • Tehri N, Kumar N, Yadav A, Raghu HV, Singh NA (2018) Sugars mediated germination in spores of Bacillus megaterium. Int J Microbiol Res 10:1058–1061

    Article  Google Scholar 

  • Tennen R, Setlow B, Davis KL, Loshon CA, Setlow P (2000) Mechanisms of killing of spores of Bacillus subtilis by iodine, glutaraldehyde and nitrous acid. J Appl Microbiol 89:330–338

    Article  PubMed  CAS  Google Scholar 

  • Thakur G, Yadav A, Tehri N, Kumar N, Raghu HV, Singh N, Singh VK (2013) Rapid & novel microscopy technique to detect germination initiation and specificity in Bacillus spores. Int J Res Pure Appl Microbiol 3:134–138

    Google Scholar 

  • Warth A, Strominger J (1972) Structure of the peptidoglycan from spores of Bacillus subtilis. Biochem 11:1389–1396

    Article  CAS  Google Scholar 

  • Weese JS, Staempfli HR, Prescott JF (2000) Isolation of environmental Clostridium difficile from a veterinary teaching hospital. J Vet Diagn Investig 12:449–452

    Article  CAS  Google Scholar 

  • Welkos S, Little S, Friedlander A, Fritz D, Fellows P (2001) The role of antibodies to Bacillus anthracis and anthrax toxin components in inhibiting the early stages of infection by anthrax spores. Microbiology 147:1677–1685

    Article  PubMed  CAS  Google Scholar 

  • Welkos SL, Cote CK, Rea KM, Gibbs PH (2004) A microtiter fluorometric assay to detect the germination of Bacillus anthracis spores and the germination inhibitory effects of antibodies. J Microbiol Methods 56:253–265

    Article  PubMed  CAS  Google Scholar 

  • Wilson KH (1983) Efficiency of various bile salt preparations for stimulation of Clostridium difficile spore germination. J Clin Microbiol 18:1017–1019

    PubMed  PubMed Central  CAS  Google Scholar 

  • Wilson T, Hastings JW (1998) Bioluminescence. Annu Rev Cell Dev Biol 14:197–230

    Article  PubMed  CAS  Google Scholar 

  • Wuytack EY, Boven S, Michiels CW (1998) Comparative study of pressure-induced germination of Bacillus subtilis spores at low and high pressures. Appl Environ Microbiol 64:3220–3224

    PubMed  PubMed Central  CAS  Google Scholar 

  • Wuytack EY, Soons J, Poschet F, Michiels CW (2000) Comparative study of pressure- and nutrient induced germination of Bacillus subtilis spores. Appl Environ Microbiol 66:257–261

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Yi X, Setlow P (2010) Studies of the commitment step in the germination of spores of Bacillus species. J Bacteriol 192:3424–3433

    Article  PubMed  PubMed Central  CAS  Google Scholar 

  • Yilmaz MD, Oktem HA (2018) Eriochrome black T–Eu3+ complex as a ratiometric colorimetric and fluorescent probe for the detection of dipicolinic acid, a biomarker of bacterial spores. Anal Chem 90:4221–4225

    Article  PubMed  CAS  Google Scholar 

  • Yung (2008) Detection of aerobic bacterial endospores: from air sampling, sterilization validation to astrobiology. Doctoral Thesis. Submitted to California Institute of Technology Pasadena, California

  • Zhang P, Garner W, Yi X, Yu J, Y-q L, Setlow P (2010) Factors affecting variability in time between addition of nutrient germinants and rapid dipicolinic acid release during germination of spores of Bacillus species. J Bacteriol 192:3608–3619

    Article  PubMed  PubMed Central  CAS  Google Scholar 

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Acknowledgements

The authors are extremely grateful to all members of Microbial Biosensors and Food Safety Laboratory, ICAR-NDRI, Karnal (Haryana), India, for their contribution in understanding types of biomarkers of spore germination.

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Correspondence to Nimisha Tehri.

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Tehri, N., Kumar, N., Raghu, H. et al. Biomarkers of bacterial spore germination. Ann Microbiol 68, 513–523 (2018). https://doi.org/10.1007/s13213-018-1361-z

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