Abstract
Cell-cell communication is critical for bacterial survival in natural habitats, in which miscellaneous regulatory networks are encompassed. However, elucidating the interaction networks of a microbial community has been hindered by the population complexity. This study reveals that γ-butyrolactone (GBL) molecules from Streptomyces species, the major antibiotic producers, can directly bind to the acyl-homoserine lactone (AHL) receptor of Chromobacterium violaceum and influence violacein production controlled by the quorum sensing (QS) system. Subsequently, the widespread responses of more Gram-negative bacterial AHL receptors to Gram-positive Streptomyces signaling molecules are unveiled. Based on the cross-talk between GBL and AHL signaling systems, combinatorial regulatory circuits (CRC) are designed and proved to be workable in Escherichia coli (E. coli). It is significant that the QS systems of Gram-positive and Gram-negative bacteria can be bridged via native Streptomyces signaling molecules. These findings pave a new path for unlocking the comprehensive cell-cell communications in microbial communities and facilitate the exploitation of innovative regulatory elements for synthetic biology.
Similar content being viewed by others
References
Aguilar, C., Bertani, I., and Venturi, V. (2003). Quorum-sensing system and stationary-phase sigma factor (rpoS) of the onion pathogen Burkholderia cepacia genomovar I type strain, ATCC 25416. Appl Environ Microbiol 69, 1739–1747.
Alagely, A., Krediet, C.J., Ritchie, K.B., and Teplitski, M. (2011). Signaling-mediated cross-talk modulates swarming and biofilm formation in a coral pathogen Serratia marcescens. ISME J 5, 1609–1620.
Bassler, B.L. (2002). Small talk: cell-to-cell communication in bacteria. Cell 109, 421–424.
Bassler, B.L., and Losick, R. (2006). Bacterially speaking. Cell 125, 237–246.
Biarnes-Carrera, M., Lee, C.K., Nihira, T., Breitling, R., and Takano, E. (2018). Orthogonal regulatory circuits for Escherichia coli based on the γ-butyrolactone system of Streptomyces coelicolor. ACS Synth Biol 7, 1043–1055.
Chandler, J.R., Heilmann, S., Mittler, J.E., and Greenberg, E.P. (2012). Acyl-homoserine lactone-dependent eavesdropping promotes competition in a laboratory co-culture model. ISME J 6, 2219–2228.
Chen, G., Swem, L.R., Swem, D.L., Stauff, D.L., O’Loughlin, C.T., Jeffrey, P.D., Bassler, B.L., and Hughson, F.M. (2011). A strategy for antagonizing quorum sensing. Mol Cell 42, 199–209.
Chevrette, M.G., Carlson, C.M., Ortega, H.E., Thomas, C., Ananiev, G.E., Barns, K.J., Book, A.J., Cagnazzo, J., Carlos, C., Flanigan, W., et al. (2019). The antimicrobial potential of Streptomyces from insect microbiomes. Nat Commun 10, 516.
Chu, Y.Y., Nega, M., Wölfle, M., Plener, L., Grond, S., Jung, K., and Götz, F. (2013). A new class of quorum quenching molecules from Staphylococcus species affects communication and growth of gramnegative bacteria. PLoS Pathog 9, e1003654.
Deng, Y., Wu, J., Tao, F., and Zhang, L.H. (2011). Listening to a new language: DSF-based quorum sensing in Gram-negative bacteria. Chem Rev 111, 160–173.
Devescovi, G., Kojic, M., Covaceuszach, S., Cámara, M., Williams, P., Bertani, I., Subramoni, S., and Venturi, V. (2017). Negative regulation of violacein biosynthesis in Chromobacterium violaceum. Front Microbiol 8, 349.
Devine, J.H., Countryman, C., and Baldwin, T.O. (2002). Nucleotide sequence of the luxR and luxI genes and structure of the primary regulatory region of the lux regulon of Vibrio fischeri ATCC 7744. Biochemistry 27, 837–842.
Doull, J.L., Singh, A.K., Hoare, M., and Ayer, S.W. (1994). Conditions for the production of jadomycin B by Streptomyces venezuelae ISP5230: Effects of heat shock, ethanol treatment and phage infection. J Ind Microbiol 13, 120–125.
Du, P., Zhao, H., Zhang, H., Wang, R., Huang, J., Tian, Y., Luo, X., Luo, X., Wang, M., Xiang, Y., et al. (2020). De novo design of an intercellular signaling toolbox for multi-channel cell-cell communication and biological computation. Nat Commun 11, 4226.
Fast, D., Petkau, K., Ferguson, M., Shin, M., Galenza, A., Kostiuk, B., Pukatzki, S., and Foley, E. (2020). Vibrio cholerae-symbiont interactions inhibit intestinal repair in Drosophila. Cell Rep 30, 1088–1100.e5.
Geske, G.D., O’Neill, J.C., Miller, D.M., Mattmann, M.E., and Blackwell, H.E. (2007). Modulation of bacterial quorum sensing with synthetic ligands: systematic evaluation of N-acylated homoserine lactones in multiple species and new insights into their mechanisms of action. J Am Chem Soc 129, 13613–13625.
Geske, G.D., O’Neill, J.C., Miller, D.M., Wezeman, R.J., Mattmann, M.E., Lin, Q., and Blackwell, H.E. (2008). Comparative analyses of N-acylated homoserine lactones reveal unique structural features that dictate their ability to activate or inhibit quorum sensing. Chembiochem 9, 389–400.
Gibson, D.G., Young, L., Chuang, R.Y., Venter, J.C., Hutchison Iii, C.A., and Smith, H.O. (2009). Enzymatic assembly of DNA molecules up to several hundred kilobases. Nat Methods 6, 343–345.
Guan, H., Li, Y., Zheng, J., Liu, N., Zhang, J., and Tan, H. (2019). Important role of a LAL regulator StaR in the staurosporine biosynthesis and high-production of Streptomyces fradiae CGMCC 4.576. Sci China Life Sci 62, 1638–1654.
Jayaraman, A., and Wood, T.K. (2008). Bacterial quorum sensing: signals, circuits, and implications for biofilms and disease. Annu Rev Biomed Eng 10, 145–167.
Juhász, J., Bihary, D., Jády, A., Pongor, S., and Ligeti, B. (2017). Differential signal sensitivities can contribute to the stability of multispecies bacterial communities. Biol Direct 12, 22.
Kato, J., Funa, N., Watanabe, H., Ohnishi, Y., and Horinouchi, S. (2007). Biosynthesis of γ-butyrolactone autoregulators that switch on secondary metabolism and morphological development in Streptomyces. Proc Natl Acad Sci USA 104, 2378–2383.
Kieser, T., Bibb, M.J., Buttner, M.J., Chater, K.F., and Hopwood, D.A. (2000). Practical Streptomyces Genetics. Norwich: John Innes Foundation.
Kylilis, N., Tuza, Z.A., Stan, G.B., and Polizzi, K.M. (2018). Tools for engineering coordinated system behaviour in synthetic microbial consortia. Nat Commun 9, 2677.
Lee, Y.J., Kitani, S., Kinoshita, H., and Nihira, T. (2008). Identification by gene deletion analysis of barS2, a gene involved in the biosynthesis of γ-butyrolactone autoregulator in Streptomyces virginiae. Arch Microbiol 189, 367–374.
Lee, Y.J., Kitani, S., and Nihira, T. (2010). Null mutation analysis of an afsA-family gene, barX, that is involved in biosynthesis of the γ-butyrolactone autoregulator in Streptomyces virginiae. Microbiology 156, 206–210.
Li, D., Zhang, J., Tian, Y., and Tan, H. (2019). Enhancement of salinomycin production by ribosome engineering in Streptomyces albus. Sci China Life Sci 62, 276–279.
Liu, G., Chater, K.F., Chandra, G., Niu, G., and Tan, H. (2013). Molecular regulation of antibiotic biosynthesis in Streptomyces. Microbiol Mol Biol Rev 77, 112–143.
McClean, K.H., Winson, M.K., Fish, L., Taylor, A., Chhabra, S.R., Camara, M., Daykin, M., Lamb, J.H., Swift, S., Bycroft, B.W., et al. (1997). Quorum sensing and Chromobacterium violaceum: exploitation of violacein production and inhibition for the detection of N-acylhomoserine lactones. Microbiology 143, 3703–3711.
Miano, A., Liao, M.J., and Hasty, J. (2020). Inducible cell-to-cell signaling for tunable dynamics in microbial communities. Nat Commun 11, 1193.
Michael, B., Smith, J.N., Swift, S., Heffron, F., and Ahmer, B.M.M. (2001). SdiA of Salmonella enterica is a LuxR homolog that detects mixed microbial communities. J Bacteriol 183, 5733–5742.
Morohoshi, T., Kato, M., Fukamachi, K., Kato, N., and Ikeda, T. (2008). N-acylhomoserine lactone regulates violacein production in Chromobacterium violaceum type strain ATCC 12472. FEMS Microbiol Lett 279, 124–130.
Nguyen, T.B., Kitani, S., Shimma, S., and Nihira, T. (2018). Butenolides from Streptomyces albus J1074 act as external signals to stimulate avermectin production in Streptomyces avermitilis. Appl Environ Microbiol 84, e02791–17.
Niu, G., Chater, K.F., Tian, Y., Zhang, J., and Tan, H. (2016). Specialised metabolites regulating antibiotic biosynthesis in Streptomyces spp. FEMS Microbiol Rev 40, 554–573.
O’Loughlin, C.T., Miller, L.C., Siryaporn, A., Drescher, K., Semmelhack, M.F., and Bassler, B.L. (2013). A quorum-sensing inhibitor blocks Pseudomonas aeruginosa virulence and biofilm formation. Proc Natl Acad Sci USA 110, 17981–17986.
Peterson, S.B., Bertolli, S.K., and Mougous, J.D. (2020). The central role of interbacterial antagonism in bacterial life. Curr Biol 30, R1203–R1214.
Riglar, D.T., and Silver, P.A. (2018). Engineering bacteria for diagnostic and therapeutic applications. Nat Rev Microbiol 16, 214–225.
Rodelas, B., Lithgow, J.K., Wisniewski-Dye, F., Hardman, A., Wilkinson, A., Economou, A., Williams, P., and Downie, J.A. (1999). Analysis of quorum-sensing-dependent control of rhizosphere-expressed (rhi) genes in Rhizobium leguminosarum bv. viciae. J Bacteriol 181, 3816–3823.
Schütz, C., Ho, D.K., Hamed, M.M., Abdelsamie, A.S., Röhrig, T., Herr, C., Kany, A.M., Rox, K., Schmelz, S., Siebenbürger, L., et al. (2021). A new PqsR inverse agonist potentiates tobramycin efficacy to eradicate Pseudomonas aeruginosa biofilms. Adv Sci 8, 2004369.
Seed, P.C., Passador, L., and Iglewski, B.H. (1995). Activation of the Pseudomonas aeruginosa lasI gene by LasR and the Pseudomonas autoinducer PAI: an autoinduction regulatory hierarchy. J Bacteriol 177, 654–659.
Sidda, J.D., Poon, V., Song, L., Wang, W., Yang, K., and Corre, C. (2016). Overproduction and identification of butyrolactones SCB1–8 in the antibiotic production superhost Streptomyces M1152. Org Biomol Chem 14, 6390–6393.
Stulberg, E., Fravel, D., Proctor, L.M., Murray, D.M., LoTempio, J., Chrisey, L., Garland, J., Goodwin, K., Graber, J., Harris, M.C., et al. (2016). An assessment of US microbiome research. Nat Microbiol 1, 15015.
Swem, L.R., Swem, D.L., O’Loughlin, C.T., Gatmaitan, R., Zhao, B., Ulrich, S.M., and Bassler, B.L. (2009). A quorum-sensing antagonist targets both membrane-bound and cytoplasmic receptors and controls bacterial pathogenicity. Mol Cell 35, 143–153.
Thompson, J.A., Oliveira, R.A., Djukovic, A., Ubeda, C., and Xavier, K.B. (2015). Manipulation of the quorum sensing signal AI-2 affects the antibiotic-treated gut microbiota. Cell Rep 10, 1861–1871.
Valente, R.S., Nadal-Jimenez, P., Carvalho, A.F.P., Vieira, F.J.D., and Xavier, K.B. (2017). Signal integration in quorum sensing enables cross-species induction of virulence in Pectobacterium wasabiae. mBio 8, 16.
Wang, W., Ji, J., Li, X., Wang, J., Li, S., Pan, G., Fan, K., and Yang, K. (2014). Angucyclines as signals modulate the behaviors of Streptomyces coelicolor. Proc Natl Acad Sci USA 111, 5688–5693.
Wellington, S., and Greenberg, E.P. (2019). Quorum sensing signal selectivity and the potential for interspecies cross talk. mBio 10, 14.
Wu, F., Menn, D.J., and Wang, X. (2014). Quorum-sensing crosstalk-driven synthetic circuits: from unimodality to trimodality. Chem Biol 21, 1629–1638.
Xu, G., Wang, J., Wang, L., Tian, X., Yang, H., Fan, K., Yang, K., and Tan, H. (2010). “Pseudo” γ-butyrolactone receptors respond to antibiotic signals to coordinate antibiotic biosynthesis. J Biol Chem 285, 27440–27448.
Zhang, L., Murphy, P.J., Kerr, A., and Tate, M.E. (1993). Agrobacterium conjugation and gene regulation by N-acyl-L-homoserine lactones. Nature 362, 446–448.
Zhao, K., Li, J., Zhang, X., Chen, Q., Liu, M., Ao, X., Gu, Y., Liao, D., Xu, K., Ma, M., et al. (2018). Actinobacteria associated with Glycyrrhiza inflata Bat. are diverse and have plant growth promoting and antimicrobial activity. Sci Rep 8, 13661.
Zhu, R., Lang, T., Yan, W., Zhu, X., Huang, X., Yin, Q., and Li, Y. (2021). Gut microbiota: Influence on carcinogenesis and modulation strategies by drug delivery systems to improve cancer therapy. Adv Sci 8, 2003542.
Zou, Z., Du, D., Zhang, Y., Zhang, J., Niu, G., and Tan, H. (2014). A γ-butyrolactone-sensing activator/repressor, JadR3, controls a regulatory mini-network for jadomycin biosynthesis. Mol Microbiol 94, 490–505.
Acknowledgements
This work was supported by the National Key Research and Development Program of China (2018YFA0901900 and 2020YFA0907700) and the National Natural Science Foundation of China (31771378 and 31800029). We thank Drs Guomin Ai, Wenzhao Wang, and Jinwei Ren (Institute of Microbiology, Chinese Academy of Sciences, Beijing, China) for assistance with MS and NMR spectroscopy, Luyan Ma (Institute of Microbiology, Chinese Academy of Sciences, Beijing, China) for providing E. coli S17-1 λpir and the plasmid pJN105, and Professor Vittorio Venturi (International Centre for Genetic Engineering and Biotechnology, Trieste, Italy) for the advice on gene disruption in C. violaceum CV12472. We thank Professor Shuishan Song (Biology Institute, Hebei Academy of Sciences, China) for kindly offering C. violaceum CV31532, Professor Junli Zhu (College of Food Science and Biotechnology, Zhejiang Gongshang University, China) for CV026, and Professor Weishan Wang (Institute of Microbiology, Chinese Academy of Sciences, Beijing, China) for plasmids pCS26-Pac and pACYC184. We are grateful to Professor Wenbo Ma (John Innes Centre, Norwich, UK) for the critical reading and helpful suggestions in preparation of the manuscript.
Author information
Authors and Affiliations
Corresponding authors
Ethics declarations
Compliance and ethics The author(s) declare that they have no conflict of interest.
Electronic supplementary material
Rights and permissions
About this article
Cite this article
Liu, X., Wang, W., Li, J. et al. A widespread response of Gram-negative bacterial acyl-homoserine lactone receptors to Gram-positive Streptomyces γ-butyrolactone signaling molecules. Sci. China Life Sci. 64, 1575–1589 (2021). https://doi.org/10.1007/s11427-021-1956-8
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s11427-021-1956-8