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Anti-Biolm Activity ofViruses,
https://t.me/medicina_free
Bacteria, Fungi, andLichens: Mechanisms andImpact onClinical Practice
OanaSăndulescu, AncaStreinu-Cercel, MihaiSăndulescu, andAdrianStreinu-Cercel
11
11.1 Introduction
Biolms are pluricellular structures displaying sophisticated regulatory mechanisms that allow the survival of bacteria or fungi in hostile environ­ments such as those found in human hosts during clinical infection. When adopting a sessile life­style, bacteria gain the adaptive ability to tolerate a wide range of antimicrobials, becoming increas­ingly resilient. In such cases, antimicrobial treat­ment may fail not necessarily due to resistance but rather through tolerance and target evasion [1, 2]. Biolms have different characteristics in Gram­positive [3] and Gram-negative germs [4, 5] and, consequently, different mechanism may be required to ght biolm-driven infections.
In the clinic, there is an acute need to nd new options for the treatment of biolm-driven infec­tions, and research on biolm-active agents is well underway. Theoretically, if the three-
O. Săndulescu (*) · A. Streinu-Cercel A. Streinu-Cercel Department of Infectious Diseases I, National Institute for Infectious Diseases “Prof. Dr. Matei Balș”, Carol Davila University of Medicine and Pharmacy, Bucharest, Romania e-mail: oana.sandulescu@umfcd.ro;
anca_sc@germs.ro; astreinucercel@germs.ro
M. Săndulescu Department of Implant Prosthetic Therapy, Carol Davila University of Medicine and Pharmacy, Bucharest, Romania e-mail: mihai.sandulescu@umfcd.ro
dimensional biolm structure is specically tar­geted, the remaining planktonic cells can be easily reached by common antimicrobials, and the infectious process can thus be stopped. However, despite the abundant research on this topic, the transition from bench to bedside is not always as straightforward. Through this chapter, we aim to characterize the existing body of knowledge on the topic of natural anti-biolm agents, by reviewing the specic literature, in order to identify the main types of agents, their mechanisms and their potential clinical role and impact on medical practice.
11.2 Viruses
A well-described category of natural anti-biolm agents is that of bacteriophages, which are viruses infecting bacterial cells and either destroying these bacterial cells or circumventing their ability to form biolms.
As bacteriophages display target specicity, different bacteriophages target different bacteria. Most of the literature on this topic specically discusses bacterial lysis, but a lot of recent work has also focused on their specic ability to inhibit biolm formation or to contribute to the disrup­tion of mature biolm. As bacteriophages play a wide range of roles, they can also be involved in biolm-building activities, by contributing to polymer assembly, and increasing the amount of
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extracellular DNA as is the case with Pseudomonas aeruginosa’s internal phage Pf [6]. This subchapter will however focus on the anti­biolm properties of bacteriophages.
One of the best-characterized actions of bacte­riophages is bacterial lysis, which leads to a decrease in bacterial load, similar to the mecha­nisms of other antimicrobial agents. However, particularly in infections with Gram-negative germs, lysis can lead to release of endotoxin [7], specically its lipid A component [8], potentially associating exaggerated proinammatory cyto­kine responses; Escherichia coli, for example, can display on its surface up to 106 lipid A resi­dues [9] and induce a strong host response. Therefore, the use of lysis-decient bacterio­phages has been proposed as option for decreas­ing endotoxin release [8], and promising results have been shown in a murine peritonitis model [10]. Nevertheless recent data suggest that in E. coli clinical isolates the release of endotoxin with the use of therapeutic virulent phages (LM33_P1 and 536_P1) may be comparable to that associ­ated with amikacin use, and two- to fourfold lower compared to carbapenem (specically, imi­penem) use [11].
Bacteriophage mixtures have been studied in clinical trials and are already marketed in coun­tries such as Georgia, or used as experimental adjunctive local treatment in patients who fail conventional antimicrobial therapy in a few other countries, including Romania [1215] and Poland [7], where most of the invitro and clinical experience is available for Gram-positives, but an extending body of work also addresses Gram­negatives [7].
Apart from bacteriophage mixtures, or cock­tails, specic bacteriophage-encoded enzymes have been studied for the anti-biolm activity. Among these, depolymerases have been, until recently, by far the best studied, and are known for their activity against carbohydrates such as those found in capsular polysaccharides and extracellular polymeric substances (EPS). A thorough review by Pires et al. [16] classied depolymerases into three main categories: O-glycosyl hydrolases (divided into six groups, among which three are more frequently encoun-
tered: sialidases or neuraminidases, levanases, and peptidases, and three are less common: xylo­sidases, dextranases, and rhamnosidases), poly­saccharide lyases (divided into three groups: hyaluronate lyases, alginate lyases, and pectin/ pectate lyases), and other types of enzymes, such as lipases. A large number of the described depolymerases are encoded by bacteriophages from the Caudovirales order, and are constituents of the tail structure. For example, multiple types of tail ber and tailspike proteins have been reported to have depolymerase, or, specically, endoglycosidase activity [17]. The roles that depolymerases play in biolm control are two­fold. First, they can degrade the EPS and decrease the viscosity of the biolm matrix, leading to bet­ter diffusion of both bacteriophages and other antimicrobials in the bacterial biomass. Second, they can degrade capsular polysaccharides and facilitate bacteriophage adsorption and entry into bacterial cells [17], where bacteriophage-induced bacterial lysis can now occur. Therefore, depoly­merases can be further studied for prospective application in clinical practice either as part of bacteriophage therapy or, potentially, as puried enzyme extracts or recombinant depolymerases. Further data is needed to ascertain the degree to which they retain their biological activity under in vivo conditions, but a number of studies do point towards a preserved activity of recombinant enzymes in decreasing virulence in E. coli K1 [18, 19]. Specic examples of potential clinical applications include alginate lyase in the reduction of exopolysaccharides produced by P. aeruginosa mucoid strains from patients with cystic brosis [20, 21], or CHAPK murein pepti­dase (cysteine, histidine-dependent amido hydro­lase/peptidase) derived from anti-staphylococcal bacteriophage K, which inhibits biolm formation and disrupts mature methicillin-resis­tant S. aureus (MRSA) biolm [22]. The K bacteriophage- derived modied murein hydro­lase domain has also been combined invitro with a cell wall-binding domain derived from lyso­staphin, to generate the chimeric protein P128, which was able to induce a 95.5% reduction in mature 48-h biolm by S. aureus isolates from chronic rhinosinusitis [23].
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Lysozymes such as Cpl-1 and Cpl-7 have shown anti-biolm activity on Streptococcus pneumoniae, S. pseudopneumoniae, and S. oralis 14–16-h biolms [24].
Bacteriophage-encoded endolysins have long been described as potential antimicrobial agents, through their lytic activity resulting from the hydrolysis of peptidoglycan layers. Recent data also point towards their potential role as anti- biolm agents, again, either as part of bacteriophage therapy or through their administration as puried extracts, and a nota­ble example is that of endolysin MR-10, which has been shown to decrease bacterial biomass in mature 7-day-old MRSA biolm, and has been proposed for its potential use in sequential treatment, following initial administration of an antimicrobial (specically, minocycline) [25]. Another study also demonstrated the activity of nine other endolysins on S. aureus mature 24-h biolm; among these recombinant peptidogly­can hydrolases containing the SH3b domains, four appeared highly active (LysK, lysostaphin, Twort, phiSH2), while others demonstrated a concentration- dependent activity (80ɑ, phi11, P68, 2638A, and WMY) [26]. Further data on endolysins show that LysH5 is also active on mature 24-h S. aureus and S. epidermidis bio­lms, albeit at a lower extent when compared to lysostaphin; furthermore, LysH5 also targets persister cells, and does not lead to biolm induction when administered at sub-inhibitory concentrations [27]. By comparison, SAP-2 is as efcient as lysostaphin on 2-day mature S. aureus biolm [28]. PlyGRCS also induces a rapid decrease in S. aureus mature 24-h biolm, with a reduction of the biomass to half in as little as 1h [29].
As described above, peptidoglycan hydrolases have been intensely studied for their potential role in the management of Gram-positive biolm­related infections. The structural characteristics of Gram-negative germs make them less suscep­tible to endolysins, as their outer membrane ef­ciently covers the peptidoglycan layer. Different strategies for facilitating the action of endolysins on Gram-negative bacteria have been assessed; an example is pretreatment with outer membrane
permeabilizers, including chelators, such as eth­ylene diamine tetraacetic acid disodium salt dihydrate (EDTA), or polycationic agents, such as polymyxins, aminoglycosides, or lysine poly­mers [30], but recombinant proteins such as LysPA26 may also display stand-alone anti-bio­lm activity on P. aeruginosa [31].
Apart from the already well-described bacteriophage- derived enzymes, other types of bacteriophage proteins, specically tail tubular proteins such as TTPAgp31 from Klebsiella pneumoniae bacteriophage KP32 and TTPAgp44 from K. pneumoniae bacteriophage KP34 have been shown to display dual function, with struc­tural and enzymatic activity alike [7]. In a recent study, Brzozowska etal. (2017) [7] have shown that TTPAgp31 degrades multiple types of K. pneumoniae polysaccharides, including capsular, cell-free (slime), and lipo-polysaccharides through an α-1,4-glucosidase activity, and dis­plays activity on 20-h mature biolm, decreasing the biomass by 80% for K. pneumoniae, 50% for S. aureus, and 60% for Enterococcus faecalis, while TTPAgp44 hydrolyzes E. faecium capsular polysaccharides through a glucohydrolase-like activity and also displays activity on mature 20-h biolm, reducing the bacterial biomass by 80% for E. faecium, 40% for P. aeruginosa, and 40% for Bacillus subtilis.
11.3 Bacteria
In natural environments, bacteria often come into contact with each other, and they can display a complex range of interactions, from collaborat­ing within microbial consortia, to competing with each other for scavenging resources, or even directly attacking each other by synthetizing spe­cic molecules, bioactive peptides, or by second­ary metabolites.
LytA, an N-acetylmuramoyl--alanine ami­dase, is a pneumococcal autolysin which, when purified and administered under invitro conditions, decreases pneumococcal biofilm biomass by 80%, and also displays synergy with the Cpl-1 bacteriophage-derived lyso­zyme [24].
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Bacillus aneurinolyticus, or Bacillus brevis, produce a wide array of secondary metabolites. Among these, tyrocidines TrcA, TrcB, and gram­icidin S signicantly inhibit biolm formation by C. albicans, while gramicidin S is also able to fully eradicate 24-h mature biolm, although all studied tyrocidines (TrcA, TrcB, TrcC, TpcC, and PhcA) display some bactericidal effect on mature biolm, in the range of 28–74% reduction [32]. When looking specically at TrcA, TrcB, and TrcC, they eradicate 55–74% of mature C. albicans biolms, and they display synergy with caspofungin and amphotericin B [32].
Bacillus safensis, a soil-dwelling germ, can also inhibit biolm formation and impair yeast­to- hypha transition in C. albicans; it also inhibits biolm formation and capsule formation by Cryptococcus neoformans, potentially by impact­ing the accumulation of glucuronoxylomannan and its organization into a matrix [33].
P. aeruginosa displays an anti-biolm effect on Aspergillus fumigatus through the produc- tion of pyoverdine, which acts as a siderophore, decreasing the iron concentrations and inducing iron starvation in A. fumigatus [34]. Extracellular products such as polysaccharides from P. aeru-
ginosa PAO1 can disperse mature 24-h S. epi- dermidis biolm [35]. Furthermore, anti-biolm
effects of either planktonic or biolm-associ­ated polysaccharide extracts or Gram-negative lipopolysaccharides have also been demon­strated for a wider range of bacteria-bacteria interactions, whereby one germ’s products or components inhibit the other’s biolm mode of growth [36].
Kolodkin-Gal et al. [37] have shown that biolm- grown Bacillus subtilis produces D-amino acids once the biolm reaches a mature state (5–8days growth). Among these D-amino acids, a spontaneously occurring mixture of D-leucine, D-methionine, D-tyrosine, and D-tryptophan is able to disperse mature biolm and also, when extracted and puried, it also inhibits biolm formation. The mixture’s anti­biolm activity is explained through the incorpo­ration of these biolm-disassembling D-amino acids into the cell wall on the third day of growth. Once incorporated, they subsequently impair the
anchoring into the cell wall of the amyloid bers formed by the TasA protein, which is the main component of B. subtilis biolms, along with exopolysaccharides [38]. The study by Kolodkin­Gal etal. [37] also tested the efcacy of this mix­ture of D-amino acids in inhibiting biolm by other bacterial species, and they found that both D-tyrosine and the D-amino acid mixture were able to prevent biolm formation by S. aureus and P. aeruginosa.
Oral microbiota may play a role in preventing dental caries, by inhibiting biolm formation by Streptococcus mutans. Multiple species of lacto­bacilli have been studied for their anti-biolm properties, either through coculturing, adminis­tration of cell-free supernatant, or extraction of bacterial products such as bacteriocins. For example, Ahn etal. have shown that Lactobacillus plantarum inhibits the production of exopolysac­charide from sucrose by S. mutans [39], while Was et al. have shown that four Lactobacillus species inhibit biolm formation, namely L. sali-
varius, L. reuteri, L. plantarum subspecies plan­tarum, and L. casei subspecies casei, while only
three of these are also active on mature overnight
S. mutans biolm: L. salivarius, L. reuteri, and L. plantarum subspecies plantarum, through the
same mechanism of reducing exopolysaccharide formation [40].
Salivary isolates of L. paracasei, L. rhamnosus, and L. fermentum also inhibit C. albicans biolm formation through their production of exometabo­lites and organic acids, both when cocultured with the fungi and when administered as mature 24-h growth supernatant [41]. Matsubara etal. have also shown that L. rhamnosus, L casei, and L. acidophi- lus inhibit biolm formation and are active on mature C. albicans biolm, while also hindering its yeast-to-hyphae differentiation, which is an impor­tant anti- virulence effect [42], and this was also demonstrated by Vilela etal. specically for L. aci- dophilus, both invitro and in an experimental can­didiasis model of Galleria mellonella [43]. The supernatant derived from certain probiotic lactoba­cilli (Lactobacillus gasseri and Lactobacillus rhamnosus) can inhibit biolm formation and dis­rupt mature 24-h biolm of Candida non-albicans biolms, specically C. tropicalis, C. krusei, and
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C. parapsilosis, both alone and in a mixed pluri­species biolm model [44].
Mixed biolms can be encountered in clinical practice, and Krzyściak etal. [45] have studied the dental caries biolm, showing that the pres­ence of S. mutans increases the number of C. albicans colonies and increases the overall bio­lm mass. They also showed that coculturing with Lactobacillus salivarius signicantly decreased biolm formation by S. mutans and C.
albicans alone, or in mixed biolms.
L. fermentum was used for purication of a
bacteriocin, namely fermencin SD11, which dis­plays antimicrobial activity on oral bacteria such as S. mutans, S. sobrinus, periopathogenic bacteria such as A. actinomycetemcomitans, Fusobacterium nucleatum, and Porphyromonas gingivalis, as well as C. albicans, but has not yet been further studied for a potential anti-biolm activity [46]. However, other bacteriocins have been shown to display anti-biolm properties, as is the case with sono­rensin, produced by a marine isolate of Bacillus sonorensis, MT93, which is bactericidal to both metabolically active and dormant S. aureus and E.
coli strains, and also inhibits biolm formation by S. aureus [47]. Specic strains of L. fermentum
have also been shown to produce bacteriocins able to inhibit biolm formation by P. aeruginosa PAO-1 [48], and L. kunkeei also inhibits biolm formation by P. aeruginosa and attenuates infec- tion in a Galleria mellonella model [49]. When extracted or puried for standalone administra­tion, bacteriocins can be considered as postbiotics, as they are bacterial products or by-products of probiotic bacterial metabolism [50].
Okuda et al. [51] have studied two class I bacteriocins (lantibiotics): nisin A produced by Lactococcus lactis and nukacin ISK-1 produced by Staphylococcus warneri ISK-1, and a class II bacteriocin, lacticin Q, produced by Lactococcus lactis QU 5. In their study, only nisin A and lac­ticin Q were bactericidal on mature 24-h biolm- embedded S. aureus, and their activity could be explained by their pore-forming poten­tial, which is not present for nukacin ISK-1. However, none of the tested bacteriocins were able to completely eradicate mature biolm in this study.
A bacteriocin produced by L. plantarum ST8SH displayed potent anti-biolm activity on Listeria monocytogenes strains, and synergy with vancomycin [52]. Another L. plantarum isolate (CIRM653) decreased 24-h mature K. pneu- moniae biolm by 77.8%, leading to bacterial dispersal, but also to an increased rate of gastro­intestinal colonization by K. pneumoniae in a murine model [53].
Another class of bacteriocins, sactibiotics, are small antimicrobial peptides. Such an example is hyicin 4244, produced by Staphylococcus hyicus 4244, which showed strong inhibition of biolm formation, and strong activity on 24-h mature biolm produced by clinical isolates of S. aureus and S. saprophyticus [54].
Bidobacteria have also been studied for their potential anti-biolm activity, albeit to a lesser extent than lactobacilli. Kim et al. have shown that Bidobacterium longum cell extracts can inhibit biolm formation by enterohemorrhagic E. coli O157:H7 by 36%, and attenuate its viru­lence in a Caenorhabditis elegans model [55],
Among cyanobacteria, Spirulina platensis can display antimicrobial [56] and antifungal proper­ties [57], and its methanolic exact has recently been shown to inhibit P. aeruginosa biolms by decreasing the amount of EPS [56]. Furthermore, the aqueous extract of Spirulina platensis has been used in the biosynthesis of silver nanopar­ticles, which were then used to coat Foley cathe­ters in combination with amikacin and nitrofurantoin, and displayed a complete inhibi­tion of colonization or biolm formation by uro­pathogenic E. coli for 14days, in a murine model of UTI [58].
Other types of silver nanoparticles have been biosynthesized from Streptomyces calidiresistens supernatant, and have been shown to inhibit bio­lm formation by S. aureus, E. coli, and C. albi- cans, albeit the degree of biolm inhibition was signicantly inuenced by the type of Streptomyces
calidiresistens strain used for biosynthesis [59].
Streptomyces hawaiiensis produces acyldep-
sipeptides (ADEPs) [60]; among these, a semi- synthetic derivative, ADEP4, binds to the ClpP protease and activates proteolysis, leading to the destruction of bacterial cells, both
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metabolically active and inactive, and speci­cally bacterial persisters [61], and its associa­tion with rifampin fully eradicated S. aureus biolm invitro and in a murine thigh infection model [61].
11.4 Fungi andLichens
In the phylogenetic tree of life, Bacteria and Eukaryota represent different domains, each comprising multiple life forms. Fungi are part of the Eukaryota domain, and can be involved in clinical infections in humans. However, recent research has shown that some of their cell wall components or some of their secondary metabo­lites may display important roles in limiting infections or biolms. Here, we will briey describe anti-biolm compounds isolated from either clinically relevant fungi or lichen­associated fungi.
Different members of the Penicillium genus produce different biolm-active compounds, including the dipeptide cis-cyclo (Leucyl­Tyrosyl), which inhibits biolm formation by S. epidermidis [62], or norlichexanthone, a non- reduced tricyclic polyketide isolated from Penicillium algidum, which inhibits biolm for­mation and virulence traits such as neutrophil lysis by MRSA [63]. Other members of this genus produce shearinines, secondary metabo­lites that can inhibit yeast-to-hyphae transition and biolm formation, and disrupt 48-h mature biolm in C. albicans, while also displaying syn­ergy with amphotericin B [64]. The hyphal tran­sition and biolm formation can also be inhibited by other alkaloid and polyketide secondary fun­gal metabolites, waikialoid A and waikialide A, produced by members of the Aspergillus genus; however, these metabolites are not active on mature biolm [65].
Mannoprotein is a surfactant which has been extracted from Saccharomyces cerevisiae cell wall. Mannoprotein does not possess antimicro­bial activity on S. aureus or S. epidermidis but it does inhibit biolm formation, and disrupt mature staphylococcal biolms, potentially by inuencing cell surface hydrophobicity [66].
Metabolites from Plectosphaerella cucume- rina such as patulin and emodin can specically inhibit biolm formation, disrupt mature 24-h biolm, and inhibit the production of virulence factors such as protease, elastase, and pyocyanin, by P. aeruginosa PAO1 without displaying anti- bacterial activity [67]. Terreic acid, a secondary metabolite of Aspergillus terreus, can inhibit bio- lm formation by E. coli [68].
Farnesol, a sesquiterpene from C. albicans or C. dubliniensis, can inhibit biolm formation by other Candida isolates [69], but also by Pneumocystis jirovecii [69, 70], S. epidermidis, or S. mutans [69]. Other fungi-derived terpenes have also been reported to display anti-biolm activity, including guignardone N and guignardic acid, produced by Guignardia spp., which dis­play synergy with uconazole in the inhibition of C. albicans biolm [69, 71].
Lichens have also been studied for their capac­ity to produce anti-biolm compounds, and a recent study by Millot et al. has identied four acetone lichen extracts, from Cladonia uncialis,
Evernia prunastri, Ramalina fastigiata, and Xanthoparmelia conspersa, that showed promis-
ing anti-biolm activity on C. albicans, through a non-lethal effect. The main metabolites identied in the acetone extracts were squamatic acid and usnic acid, evernic acid and usnic acid, evernic acid and usnic acid, and stictic acid and usnic acid, respectively [72].
Potentially one of the best characterized sec­ondary metabolites of licheni-associated fungi, usnic acid has been studied for its anti-biolm properties. It inhibits biolms by most group A streptococci [73], S. aureus strains isolated from patients with cystic brosis [74], C. albicans [75], C. orthopsilosis [76], but not by C. krusei [77], while data for C. parapsilosis is contradic­tory [77]. It has been loaded onto magnetic nanoparticles [78], carboxylated poly(-lactide) microparticles used for disrupting 24-h mature S. epidermidis biolm [79], and used for coating magnetic polylactic-co-glycolic acid-polyvinyl alcohol (PLGA-PVA) microsphere thin lms [80], and used for surface coating of zirconium dioxide bearing and barium sulfate bearing bone cement, to prevent biolm formation by MRSA
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[81]; however, it failed to inhibit biolm forma­tion by S. aureus when used loaded onto polyure­thane surfaces [82].
Retigeric acid B, a pentacyclic triterpenoid isolated from the lichen Lobaria kurokawae, syn­ergistically attenuates yeast-to-hyphae transition and biolm formation by C. albicans, together with uconazole [83].
Evernic acid, a secondary metabolite isolated from lichens from the Evernia genus, inhibits biolm formation and quorum sensing of Pseudomonas aeruginosa PAO1 [84], and a simi- lar but even stronger effect has been demon­strated by the same author group for zeaxanthin, a tetraterpenoid isolated from the Cladonia genus, among other lichens [85].
Pyridoxatin, a product isolated from an endoli­chenic fungus from the Acremonium genus, inhib­its biolm formation and growth of C. albicans by inhibiting ergosterol synthesis [86]. Diorcinol D, a diphenyl ether derivative isolated from the lichen endophytic fungus Aspergillus versicolor, displays synergy with uconazole on C. albicans in dis­rupting 24-h mature biolm, and in reversing azole resistance, potentially by inhibiting efux pumps and ergosterol biosynthesis [87].
11.5 Conclusions
A multitude of natural compounds have been studied for their potential use as anti-biolm agents, and promising data show effect on nascent biolm for most substances, but also on mature biolm for some of the studied products. However, further research is still needed for most of these compounds, as the available body of knowledge is mostly based on invitro studies, or in vivo euarthropode, nematode, or murine models.
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