Abstract
Staphylococcus aureus colonizes the same ecological niche as many commensals. However, little is known about how such commensals modulate staphylococcal fitness and persistence. Here we report a new mechanism that mediates dynamic interactions between a commensal streptococcus and S. aureus. Commensal Streptococcus parasanguinis significantly increased the staphylococcal biofilm formation in vitro and enhanced its colonization in vivo. A streptococcal biofilm-associated protein BapA1, not fimbriae-associated protein Fap1, is essential for dual-species biofilm formation. On the other side, three staphylococcal virulence determinants responsible for the BapA1-dependent dual-species biofilm formation were identified by screening a staphylococcal transposon mutant library. The corresponding staphylococcal mutants lacked binding to recombinant BapA1 (rBapA1) due to lower amounts of eDNA in their culture supernatants and were defective in biofilm formation with streptococcus. The rBapA1 selectively colocalized with eDNA within the dual-species biofilm and bound to eDNA in vitro, highlighting the contributions of the biofilm matrix formed between streptococcal BapA1 and staphylococcal eDNA to dual-species biofilm formation. These findings have revealed an additional new mechanism through which an interspecies biofilm matrix network mediates polymicrobial interactions.
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References
Verma D, Garg PK, Dubey AK. Insights into the human oral microbiome. Arch Microbiol. 2018;200:525–40.
Kuramitsu HK, He X, Lux R, Anderson MH, Shi W. Interspecies interactions within oral microbial communities. Microbiol Mol Biol Rev. 2007;71:653–70.
Sudhakara P, Gupta A, Bhardwaj A, Wilson A. Oral dysbiotic communities and their implications in systemic diseases. Dent J. 2018;6:10.
Weiner LM, Webb AK, Limbago B, Dudeck MA, Patel J, Kallen AJ, et al. Antimicrobial-resistant pathogens associated with healthcare-associated infections: Summary of data reported to the national healthcare safety network at the Centers for Disease Control and Prevention, 2011-2014. Infect Control Hosp Epidemiol. 2016;37:1288–301.
Lowy FD. Staphylococcus aureus infections. N Engl J Med. 1998;339:520–32.
Bradley SF. Eradication or decolonization of methicillin-resistant Staphylococcus aureus carriage: what are we doing and why are we doing it? Clin Infect Dis. 2007;44:186–9.
Waters EM, Rowe SE, O’Gara JP, Conlon BP. Convergence of Staphylococcus aureus persister and biofilm research: Can biofilms be defined as communities of adherent persister cells? PLoS Pathog. 2016;12:e1006012.
Tognon M, Kohler T, Gdaniec BG, Hao Y, Lam JS, Beaume M, et al. Co-evolution with Staphylococcus aureus leads to lipopolysaccharide alterations in Pseudomonas aeruginosa. ISME J 2017;11:2233–43.
Khan F, Wu X, Matzkin GL, Khan MA, Sakai F, Vidal JE. Streptococcus pneumoniae eradicates preformed Staphylococcus aureus biofilms through a mechanism requiring physical contact. Front Cell Infect Microbiol. 2016;6:104.
Filkins LM, Graber JA, Olson DG, Dolben EL, Lynd LR, Bhuju S, et al. Coculture of Staphylococcus aureus with Pseudomonas aeruginosa drives S. aureus towards fermentative metabolism and reduced viability in a cystic fibrosis model. J Bacteriol. 2015;197:2252–64.
Orazi G, O’Toole GA. Pseudomonas aeruginosa alters Staphylococcus aureus sensitivity to vancomycin in a biofilm model of cystic fibrosis infection. MBio 2017;8:e00873–17.
Radlinski L, Rowe SE, Kartchner LB, Maile R, Cairns BA, Vitko NP, et al. Pseudomonas aeruginosa exoproducts determine antibiotic efficacy against Staphylococcus aureus. PLoS Biol. 2017;15:e2003981.
Ibberson CB, Stacy A, Fleming D, Dees JL, Rumbaugh K, Gilmore MS, et al. Co-infecting microorganisms dramatically alter pathogen gene essentiality during polymicrobial infection. Nat Microbiol. 2017;2:17079.
Korgaonkar A, Trivedi U, Rumbaugh KP, Whiteley M. Community surveillance enhances Pseudomonas aeruginosa virulence during polymicrobial infection. Proc Natl Acad Sci USA 2013;110:1059–64.
Reiss-Mandel A, Regev-Yochay G. Staphylococcus aureus and Streptococcus pneumoniae interaction and response to pneumococcal vaccination: Myth or reality? Hum Vaccin Immunother. 2016;12:351–7.
Lewnard JA, Givon-Lavi N, Huppert A, Pettigrew MM, Regev-Yochay G, Dagan R, et al. Epidemiological markers for interactions among Streptococcus pneumoniae, Haemophilus influenzae, and Staphylococcus aureus in upper respiratory tract carriage. J Infect Dis. 2016;213:1596–605.
Reddinger RM, Luke-Marshall NR, Sauberan SL, Hakansson AP, Campagnari AA. Streptococcus pneumoniae modulates Staphylococcus aureus biofilm dispersion and the transition from colonization to invasive disease. MBio 2018;9:e02089–17.
Piewngam P, Zheng Y, Nguyen TH, Dickey SW, Joo HS, Villaruz AE, et al. Pathogen elimination by probiotic Bacillus via signalling interference. Nature 2018;562:532–7.
Boldock E, Surewaard BGJ, Shamarina D, Na M, Fei Y, Ali A, et al. Human skin commensals augment Staphylococcus aureus pathogenesis. Nat Microbiol. 2018;3:881–90.
Smith AJ, Jackson MS, Bagg J. The ecology of Staphylococcus species in the oral cavity. J Med Microbiol. 2001;50:940–6.
Sands KM, Wilson MJ, Lewis MAO, Wise MP, Palmer N, Hayes AJ, et al. Respiratory pathogen colonization of dental plaque, the lower airways, and endotracheal tube biofilms during mechanical ventilation. J Crit Care. 2017;37:30–7.
Ohara-Nemoto Y, Haraga H, Kimura S, Nemoto TK. Occurrence of staphylococci in the oral cavities of healthy adults and nasal oral trafficking of the bacteria. J Med Microbiol. 2008;57:95–9. Pt 1
McCormack MG, Smith AJ, Akram AN, Jackson M, Robertson D, Edwards G. Staphylococcus aureus and the oral cavity: an overlooked source of carriage and infection? Am J Infect Control. 2015;43:35–7.
Human Microbiome Project Consortium. Structure, function and diversity of the healthy human microbiome. Nature 2012;486:207–14.
Scoffield JA, Duan D, Zhu F, Wu H. A commensal streptococcus hijacks a Pseudomonas aeruginosa exopolysaccharide to promote biofilm formation. PLoS Pathog. 2017;13:e1006300.
Fine DH, Markowitz K, Fairlie K, Tischio-Bereski D, Ferrendiz J, Furgang D, et al. A consortium of Aggregatibacter actinomycetemcomitans, Streptococcus parasanguinis, and Filifactor alocis is present in sites prior to bone loss in a longitudinal study of localized aggressive periodontitis. J Clin Microbiol. 2013;51:2850–61.
Duan D, Scoffield JA, Zhou X, Wu H. Fine-tuned production of hydrogen peroxide promotes biofilm formation of Streptococcus parasanguinis by a pathogenic cohabitant Aggregatibacter actinomycetemcomitans. Environ Microbiol. 2016;18:4023–36.
Accorsi EK, Franzosa EA, Hsu T, Joice Cordy R, Maayan-Metzger A, Jaber H, et al. Determinants of Staphylococcus aureus carriage in the developing infant nasal microbiome. Genome Biol. 2020;21:301.
Liang X, Chen YY, Ruiz T, Wu H. New cell surface protein involved in biofilm formation by Streptococcus parasanguinis. Infect Immun. 2011;79:3239–48.
Fey PD, Endres JL, Yajjala VK, Widhelm TJ, Boissy RJ, Bose JL, et al. A genetic resource for rapid and comprehensive phenotype screening of nonessential Staphylococcus aureus genes. MBio 2013;4:e00537–12.
Wu H, Zeng M, Fives-Taylor P. The glycan moieties and the N-terminal polypeptide backbone of a fimbria-associated adhesin, Fap1, play distinct roles in the biofilm development of Streptococcus parasanguinis. Infect Immun. 2007;75:2181–8.
Hartmann R, Jeckel H, Jelli E, Singh PK, Vaidya S, Bayer M, et al. Quantitative image analysis of microbial communities with BiofilmQ. Nat Microbiol. 2021;6:151–6.
Adler J, Parmryd I. Colocalization analysis in fluorescence microscopy. Methods Mol Biol. 2013;931:97–109.
Scoffield JA, Wu H. Oral streptococci and nitrite-mediated interference of Pseudomonas aeruginosa. Infect Immun. 2015;83:101–7.
Bose JL, Lehman MK, Fey PD, Bayles KW. Contribution of the Staphylococcus aureus Atl AM and GL murein hydrolase activities in cell division, autolysis, and biofilm formation. PLoS One. 2012;7:e42244.
Yamaguchi M, Terao Y, Ogawa T, Takahashi T, Hamada S, Kawabata S. Role of Streptococcus sanguinis sortase A in bacterial colonization. Microbes Infect. 2006;8:2791–6.
Wu H, Mintz KP, Ladha M, Fives-Taylor PM. Isolation and characterization of Fap1, a fimbriae-associated adhesin of Streptococcus parasanguis FW213. Mol Microbiol. 1998;28:487–500.
Ramond E, Jamet A, Ding X, Euphrasie D, Bouvier C, Lallemant L, et al. Reactive oxygen species-dependent innate immune mechanisms control methicillin-resistant Staphylococcus aureus virulence in the Drosophila larval model. MBio 2021;12:e0027621.
Marra A, Hanson MA, Kondo S, Erkosar B, Lemaitre B. Drosophila antimicrobial peptides and lysozymes regulate gut microbiota composition and abundance. MBio 2021;12:e0082421.
Lee HY, Yoon CK, Cho YJ, Lee JW, Lee KA, Lee WJ, et al. A mannose-sensing AraC-type transcriptional activator regulates cell-cell aggregation of Vibrio cholerae. NPJ Biofilms Microbiomes. 2022;8:65.
Yang C, Scoffield J, Wu R, Deivanayagam C, Zou J, Wu H. Antigen I/II mediates interactions between Streptococcus mutans and Candida albicans. Mol Oral Microbiol. 2018;33:283–91.
Otto M. Staphylococcal biofilms. Microbiol Spectr. 2018;6:10.1128.
Sugimoto S, Sato F, Miyakawa R, Chiba A, Onodera S, Hori S, et al. Broad impact of extracellular DNA on biofilm formation by clinically isolated Methicillin-resistant and -sensitive strains of Staphylococcus aureus. Sci Rep. 2018;8:2254.
Kean R, Rajendran R, Haggarty J, Townsend EM, Short B, Burgess KE, et al. Candida albicans mycofilms support Staphylococcus aureus colonization and enhances miconazole resistance in dual-species interactions. Front Microbiol. 2017;8:258.
Tsang LH, Cassat JE, Shaw LN, Beenken KE, Smeltzer MS. Factors contributing to the biofilm-deficient phenotype of Staphylococcus aureus sarA mutants. PLoS One. 2008;3:e3361.
Mann EE, Rice KC, Boles BR, Endres JL, Ranjit D, Chandramohan L, et al. Modulation of eDNA release and degradation affects Staphylococcus aureus biofilm maturation. PLoS One. 2009;4:e5822.
Fettweis JM, Serrano MG, Brooks JP, Edwards DJ, Girerd PH, Parikh HI, et al. The vaginal microbiome and preterm birth. Nat Med. 2019;25:1012–21.
Zhou W, Sailani MR, Contrepois K, Zhou Y, Ahadi S, Leopold SR, et al. Longitudinal multi-omics of host-microbe dynamics in prediabetes. Nature 2019;569:663–71.
Lloyd-Price J, Arze C, Ananthakrishnan AN, Schirmer M, Avila-Pacheco J, Poon TW, et al. Multi-omics of the gut microbial ecosystem in inflammatory bowel diseases. Nature 2019;569:655–62.
Lima BP, Hu LI, Vreeman GW, Weibel DB, Lux R. The oral bacterium fusobacterium nucleatum binds Staphylococcus aureus and alters expression of the staphylococcal accessory regulator sarA. Micro Ecol. 2019;78:336–47.
Stacy A, McNally L, Darch SE, Brown SP, Whiteley M. The biogeography of polymicrobial infection. Nat Rev Microbiol. 2016;14:93–105.
Sanchez BC, Chang C, Wu C, Tran B, Ton-That H. Electron transport chain is biochemically linked to pilus assembly required for polymicrobial interactions and biofilm formation in the gram-positive Actinobacterium Actinomyces oris. MBio 2017;8:e00399–17.
Moormeier DE, Bayles KW. Staphylococcus aureus biofilm: a complex developmental organism. Mol Microbiol. 2017;104:365–76.
Dengler V, Foulston L, DeFrancesco AS, Losick R. An electrostatic net model for the role of extracellular DNA in biofilm formation by Staphylococcus aureus. J Bacteriol. 2015;197:3779–87.
Rostami N, Shields RC, Yassin SA, Hawkins AR, Bowen L, Luo TL, et al. A critical role for extracellular DNA in dental plaque formation. J Dent Res. 2017;96:208–16.
Okshevsky M, Meyer RL. The role of extracellular DNA in the establishment, maintenance and perpetuation of bacterial biofilms. Crit Rev Microbiol. 2015;41:341–52.
Jennings LK, Storek KM, Ledvina HE, Coulon C, Marmont LS, Sadovskaya I, et al. Pel is a cationic exopolysaccharide that cross-links extracellular DNA in the Pseudomonas aeruginosa biofilm matrix. Proc Natl Acad Sci USA 2015;112:11353–8.
Rainey K, Michalek SM, Wen ZT, Wu H. Glycosyltransferase-mediated biofilm matrix dynamics and virulence of Streptococcus mutans. Appl Environ Microbiol. 2019;85:e02247–18.
Bowen WH, Burne RA, Wu H, Koo H. Oral biofilms: pathogens, matrix, and polymicrobial interactions in microenvironments. Trends Microbiol. 2018;26:229–42.
Graf AC, Leonard A, Schauble M, Rieckmann LM, Hoyer J, Maass S, et al. Virulence factors produced by Staphylococcus aureus biofilms have a moonlighting function contributing to biofilm integrity. Mol Cell Proteom. 2019;18:1036–53.
Kavanaugh JS, Flack CE, Lister J, Ricker EB, Ibberson CB, Jenul C, et al. Identification of extracellular DNA-binding proteins in the biofilm matrix. MBio 2019;10:e01137–19.
Passos da Silva D, Matwichuk ML, Townsend DO, Reichhardt C, Lamba D, Wozniak DJ, et al. The Pseudomonas aeruginosa lectin LecB binds to the exopolysaccharide Psl and stabilizes the biofilm matrix. Nat Commun. 2019;10:2183.
Yang L, Liu Y, Markussen T, Hoiby N, Tolker-Nielsen T, Molin S. Pattern differentiation in co-culture biofilms formed by Staphylococcus aureus and Pseudomonas aeruginosa. FEMS Immunol Med Microbiol. 2011;62:339–47.
Schulte T, Mikaelsson C, Beaussart A, Kikhney A, Deshmukh M, Wolniak S, et al. The BR domain of PsrP interacts with extracellular DNA to promote bacterial aggregation; structural insights into pneumococcal biofilm formation. Sci Rep. 2016;6:32371.
Ramboarina S, Garnett JA, Zhou M, Li Y, Peng Z, Taylor JD, et al. Structural insights into serine-rich fimbriae from Gram-positive bacteria. J Biol Chem. 2010;285:32446–57.
Zielinska AK, Beenken KE, Mrak LN, Spencer HJ, Post GR, Skinner RA, et al. sarA-mediated repression of protease production plays a key role in the pathogenesis of Staphylococcus aureus USA300 isolates. Mol Microbiol. 2012;86:1183–96.
Houston P, Rowe SE, Pozzi C, Waters EM, O’Gara JP. Essential role for the major autolysin in the fibronectin-binding protein-mediated Staphylococcus aureus biofilm phenotype. Infect Immun. 2011;79:1153–65.
Liu Y, Burne RA. The major autolysin of Streptococcus gordonii is subject to complex regulation and modulates stress tolerance, biofilm formation, and extracellular-DNA release. J Bacteriol. 2011;193:2826–37.
Jung CJ, Hsu RB, Shun CT, Hsu CC, Chia JS. AtlA mediates extracellular DNA release, which contributes to Streptococcus mutans biofilm formation in an experimental rat model of infective endocarditis. Infect Immun. 2017;85:e00252–17.
Chen C, Krishnan V, Macon K, Manne K, Narayana SV, Schneewind O. Secreted proteases control autolysin-mediated biofilm growth of Staphylococcus aureus. J Biol Chem. 2013;288:29440–52.
Majerczyk CD, Dunman PM, Luong TT, Lee CY, Sadykov MR, Somerville GA, et al. Direct targets of CodY in Staphylococcus aureus. J Bacteriol. 2010;192:2861–77.
Lei MG, Lee CY. Repression of capsule production by XdrA and CodY in Staphylococcus aureus. J Bacteriol. 2018;200:e00203–18.
Montgomery CP, Boyle-Vavra S, Roux A, Ebine K, Sonenshein AL, Daum RS. CodY deletion enhances in vivo virulence of community-associated methicillin-resistant Staphylococcus aureus clone USA300. Infect Immun. 2012;80:2382–9.
Rivera FE, Miller HK, Kolar SL, Stevens SM Jr, Shaw LN. The impact of CodY on virulence determinant production in community-associated methicillin-resistant Staphylococcus aureus. Proteomics 2012;12:263–8.
Waters NR, Samuels DJ, Behera RK, Livny J, Rhee KY, Sadykov MR, et al. A spectrum of CodY activities drives metabolic reorganization and virulence gene expression in Staphylococcus aureus. Mol Microbiol. 2016;101:495–514.
Kaiser JC, King AN, Grigg JC, Sheldon JR, Edgell DR, Murphy MEP, et al. Repression of branched-chain amino acid synthesis in Staphylococcus aureus is mediated by isoleucine via CodY, and by a leucine-rich attenuator peptide. PLoS Genet. 2018;14:e1007159.
Brinsmade SR. CodY, a master integrator of metabolism and virulence in Gram-positive bacteria. Curr Genet. 2017;63:417–25.
Atwood DN, Loughran AJ, Courtney AP, Anthony AC, Meeker DG, Spencer HJ, et al. Comparative impact of diverse regulatory loci on Staphylococcus aureus biofilm formation. Microbiologyopen 2015;4:436–51.
Acknowledgements
This study was supported in part by NIH/NIDCR R01 DE017954 (HW). Nebraska Transposon Mutant Library (NTML) Screening Array, NR-48501, was provided by the Network on Antimicrobial Resistance in Staphylococcus aureus (NARSA) for distribution by BEI Resources, NIAID, NIH.
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HW conceived and supervised the project. HW and LW designed the experiments. LW, HW, HZ performed experiments and analyzed data. LW and HW wrote the manuscript.
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Wang, L., Wang, H., Zhang, H. et al. Formation of a biofilm matrix network shapes polymicrobial interactions. ISME J 17, 467–477 (2023). https://doi.org/10.1038/s41396-023-01362-8
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DOI: https://doi.org/10.1038/s41396-023-01362-8