Iron Assimilation during Emerging Infections Caused by Opportunistic Fungi with emphasis on Mucorales and the Development of Antifungal Resistance.

Iron is a key transition metal required by most microorganisms and is prominently utilised in the transfer of electrons during metabolic reactions. The acquisition of iron is essential and becomes a crucial pathogenic event for opportunistic fungi. Iron is not readily available in the natural environment as it exists in its insoluble ferric form, i.e., in oxides and hydroxides. During infection, the host iron is bound to proteins such as transferrin, ferritin, and haemoglobin. As such, access to iron is one of the major hurdles that fungal pathogens must overcome in an immunocompromised host. Thus, these opportunistic fungi utilise three major iron acquisition systems to overcome this limiting factor for growth and proliferation. To date, numerous iron acquisition pathways have been fully characterised, with key components of these systems having major roles in virulence. Most recently, proteins involved in these pathways have been linked to the development of antifungal resistance. Here, we provide a detailed review of our current knowledge of iron acquisition in opportunistic fungi, and the role iron may have on the development of resistance to antifungals with emphasis on species of the fungal basal lineage order Mucorales, the causative agents of mucormycosis.

1. Introduction

In biology, <span class="Chemical">iron is an essential micronutrient for almost all eukaryotes and most prokaryotes [1]. <span class="Chemical">Iron is the fourth most abundant trace element in the environment, but the bioavailability (Fe2+) is limited due to oxidation into the insoluble ferric hydroxides (Fe3+) by atmospheric oxygen [2]. In this state, iron has a solubility of approximately 10−9 M at neutral pH [3]. Nonetheless, the involvement of iron in numerous important metabolic processes and as enzyme cofactors is due to its capacity for electron exchange [4]. This transition metal is required in DNA, RNA and amino acid synthesis, oxygen transport, cellular respiration (iron-sulphur cluster (Fe-S) containing ferredoxins, haem-containing cytochromes), enzymatic reactions such as Fe-S proteins, e.g., fumarase and aconitase of the tricarboxylic acid cycle (TCA cycle) [5,6,7]. Although it is a key trace element, iron also presents a danger to biological systems. Iron (Fe2+) triggered Fenton reaction produces reactive oxygen species (ROS) such as superoxide (O2•−), hydrogen peroxide (H2O2), and hydroxyl radicals (OH•) (Equation (1)) [8]. Hydroxyl radicals produced during these reactions are deleterious and can damage cellular components such as DNA, proteins, and lipids [9]. Due to the redox property of iron, it is imperative that organisms have tightly regulated homeostatic mechanisms to maintain enough intracellular iron while actively avoiding the detrimental effects of excess iron [10]. Fe

In low <span class="Chemical">iron environments, cells employ strict iron usage called the iron-sparing response, which allows small concentrations to be used in essential enzymatic processes [11]. High-affinity acquisition systems are expressed under these conditions, which allows for the rapid and efficient uptake of iron [3,12]. Under high-iron conditions, these uptake systems are repressed, and excess iron is stored in intracellular compartments, e.g., vacuole or ferritin in mucoralean fungi [3,13,14,15].

In the host, <span class="Chemical">iron is kept extremely low (i.e., <10−24 M for <span class="Chemical">Fe3+ in serum), and other trace metals, are usually bound to proteins [16]. During infection, iron is further restricted by numerous host mechanisms [17]. These mechanisms function by actively chelating extracellular Fe3+ to high-affinity iron-binding proteins such as glycoproteins, transferrin, and lactoferrin, including intracellular sequestration by haemoglobin, ferritin, cytochromes, and the hepcidin axis, to name a few [2,18]. These elegant pathways and mechanisms for controlling systemic iron concentrations are known as nutritional immunity, and its importance in the host immune response to infections has been thoroughly described [2,17,19].

Invading fungal pathogens must overcome these limitations to access host <span class="Chemical">iron and other key metals such as zinc, copper, manganese, and nickel to proliferate and cause disease. As such, healthy individuals are usually not susceptible as their immune system is robust [17]. On the other hand, fungal pathogens can cause debilitating and devasting diseases to various patient groups, especially among those who are immunocompromised or hospitalised with severe underlying conditions [20,21]. Those at high risk include patients undergoing haematopoietic stem cell (HSCT), solid organ transplant recipients (SOTs), AIDS patients, those receiving antilymphocyte monoclonal antibodies, and other immunomodulators, as well as patients with other underlying diseases associated with immune dysfunction [20,21]. Opportunistic fungal infections are underappreciated in comparison to bacterial, viral, and parasitic infections [22]. With the current advancements in medicine and the increasing cohort of immunosuppressed individuals, the mortality rate caused by fungal infections is on a constant rise [23]. For instance, Candida albicans and other Candida species are the most common fungal pathogens responsible for superficial mucosal infections as well as life-threatening systemic diseases [24]. Cryptococcus neoformans is the most important opportunistic pathogen in HIV/AIDS patients. Although access to antiretroviral therapy (ART) has improved globally, the number of cryptococcal infections remains high, with an estimated 278,000 reported cases worldwide and a mortality rate of approximately 81% [24,25,26,27,28]. Aspergillus fumigatus and other pathogenic Aspergillus species cause a wide spectrum of diseases known as aspergilloses. These include allergic bronchopulmonary, chronic pulmonary, and invasive aspergillosis [29]. As fungi cause serious opportunistic infections, there is a new precedent for novel approaches in treatment options, as the range remains limited and there are increasing reports of resistance [30].

In this review, we aim to highlight the most recent advancements in our understanding of <span class="Chemical">iron acquisition and metabolism in fungi: (1) the reductive pathway, (2) haem and haemoglobin utilisation (including <span class="Gene">transferrin, ferritin, and lactoferrin), and (3) ferric iron acquisition from siderophores. Our expanding knowledge in Mucorales will be briefly updated. In addition, we will also explore the role of iron in antifungal therapies as well as innate and emerging resistance to current first-line therapies. Recently, this area has received renewed interest, as iron assimilation is linked to the response to antifungal treatment in the Mucorales [31,32,33].

2. The Reductive System for Iron Uptake

The mechanism for <span class="Chemical">iron acquisition and homeostasis has been well documented in the model organism <span class="Species">Saccharomyces cerevisiae, which established the foundations for further studies in fungal pathogens [34]. There are two main mechanisms for iron uptake in S. cerevisiae, the reductive high affinity (HA) and non-reductive systems [35,36]. The reductive HA pathway involves three sequential steps: (i) the initial reduction of ferric (Fe3+) to ferrous (Fe2+) iron by a dedicated membrane-bound ferric reductase encoded by FRE1 and FRE2 genes; (ii) the re-oxidation to ferric iron (Fe3+) by the multicopper ferroxidase (ferroxidase) encoded by the FET3 gene; and (iii) the import of the insoluble ferric iron (Fe3+) by the high-affinity iron permease encoded by the FTR1 gene [37,38,39] (Figure 1). The non-reductive system involves the use of siderophores (xenosiderophores) that bind iron, which are then translocated across the membrane via specific/specialised transporters. This will be discussed later [37,40,41].

Figure 1

General strategies for iron acquisition in pathogenic fungi. (A) the reductive system responsible for iron assimilation via reduction and oxidation followed by transport into the cytoplasm via specialised iron permeases; (B) haem -iron uptake and degradation, which facilitates iron chelation from haemoglobin and haem -proteins; (C) siderophore uptake system that allows for iron acquisition from a spectrum of siderophores and xenosiderophores (figure adapted from [40]).

Fungal pathogens such as <span class="Species">C. neoformans, <span class="Species">C. albicans and A. fumigatus as well as pathogenic Mucorales, i.e., Rhizopus arrhizus (syn. R. oryzae, R. delemar), Mucor circinelloides and Lichtheimia corymbifera possess a reductive iron uptake system [42]. This system has highly conserved orthologs of the three major components, i.e., surface ferric reductases, ferroxidases and permeases similar to those identified in S. cerevisiae [34,35,43]. For these pathogens, the reductive HA pathway is important for releasing ferric iron bound to other complexes, e.g., transferrin, ferritin, or siderophores [44,45,46,47,48]. The latter organism, L. corymbifera, has recently been shown to have conserved orthologs belonging to this system [49]. It has been demonstrated that the ferric reductases are also involved in intracellular iron transport and storage of iron when present on the vacuole membranes [50,51]. The ferric reductases encoded by the FRE genes are integral membrane proteins that require NADPH, flavin mononucleotides (FMN), and haem for their activity. The oxidation of cytoplasmic NADPH is catalysed by these ferric reductases, which then transfer the electron across the plasma membrane to facilitate the reduction of metals, e.g., iron [52,53,54]. It has also been shown that these reductases have cupric reductase activity, and they can facilitate the use of siderophore-bound iron [35,44,45,52,55]. Eight putative ferric reductases have been identified in C. neoformans; these are FRE1–FRE7 and FRE201 [52]. The transcription of FRE2 and FRE4 is regulated by FeCl3 or haemin, which indicates that these genes may have an important role in iron homeostasis during iron-starvation. Saika et al., 2014 demonstrated that Fre2 is essential for fungal growth in the presence of transferrin and haem and contributed to virulence in mouse inhalation model of cryptococcosis [52]. Copper also plays a role in the transcriptional regulation of the FRE genes in C. neoformans, C. albicans, and S. cerevisiae [52,53,56,57,58].

As previously mentioned, the next stage in the reductive <span class="Chemical">iron uptake system involves the transpan>ort of the reduced <span class="Chemical">iron by the high-affinity ferric transporters. This transport system requires the dual-protein complex consisting of the ferroxidase Fet3 and the permease Ftr1. The ferroxidase, Fet3, catalyses the oxidation of ferrous (Fe2+) to ferric iron (Fe3+), which is immediately transported into the cell by the permease Ftr1 [59]. Components of the reductive iron uptake system have been identified and characterised in numerous opportunistic fungal pathogens, most of which are thoroughly summarised in the following review [60]. Characterised and putative homologs of the reductive pathway components have been identified in pathogenic Mucorales and are summarised in Table 1. To date, five genes—FET3, FET31, FET33, FET34, and FET99—have been identified in C. albicans that are orthologs to the S. cerevisiae FET3 gene [44,61]. Under iron starvation, it has been shown that both FET3 and FET34 and the permease FTR1 are regulated. FET34 has an important role in iron acquisition, hyphal growth, and virulence in murine models of systemic candidiasis [62]. Ftr1 and the ferric reductase Fre10 may be involved in iron acquisition from host proteins, i.e., ferritin and transferrin [45,63,64]. Interestingly, virulence in a mouse model of systemic candidiasis is attenuated in FTR1 knockouts, and this strongly indicates that the permeases are key virulence determinants [3,44,45,63].

Table 1

Reductive iron acquisition system in Saccharomyces cerevisiae and pathogenic Mucoralean species.

Component	Species	Gene	Functions	Ref
Ferric reductases	Saccharomyces cerevisiae	FRE1, FRE2	Ferric iron reduction at the cell surface	[3,36,65]
	Rhizopus spp.	FRE (homolog)	Putative protein—ferric iron reduction at the cell surface	[48,66]
	Mucor circinelloides	FRE (homolog)	Putative protein—ferric iron reduction at the cell surface	[47,67]
	Lichtheimia corymbifera	FRE5 (homolog)–three copies	Putative protein—ferric iron reduction at the cell surface	[49]
Multicopper ferroxidase	S. cerevisiae	FET3	Multicopper-oxidase Ferrous iron oxidation and high-affinity uptake coupled with Ftr1 (permease)	[3,55,65,68]
	Rhizopus spp.	FET3 homolog	Putative multicopper oxidase	[48]
	M. circinelloides	FETA, FETB, FETC	Ferrous iron oxidation and high-affinity iron uptake	[47]
	L. corymbifera	FET3/5 homolog–three copies	Putative multicopper oxidase	[49]
Iron permease	S. cerevisiae	FTR1	High-affinity iron uptake, coupled with FET3 (multicopper oxidase)	[3,59,68,69,70]
	Rhizopus spp.	FTR1	High affinity iron permease	[65,71,72]
	M. circinelloides	FTR1 (homolog)	Putative iron permease	[47,73]
	L. corymbifera	FTR1 (homolog)—four copies	Putative iron permease	[49]

The components of the reductive <span class="Chemical">iron uptake system are also present in <span class="Species">A. fumigatus. These include the cell-surface ferric reductases, ferroxidases (FetC), and the iron permease (FtrA). Like C. albicans Ftr1, the FTRA gene of A. fumigatus is also expressed under iron starvation. Mutants with an inactivated FTRA gene showed no difference in growth on iron-depleted medium and in virulence models compared to wild-type A. fumigatus, thereby indicating that the permease is not a virulence factor in A. fumigatus [74,75]. In Mucorales, this system was shown to be strongly regulated, particularly in low iron conditions [47,48]. Recently, it was demonstrated that there is overexpression of the ferroxidases (FET3) in the lung of mice confronted with invasive M. circinelloides [47]. In addition, there are three characterised copies of FET3 (Table 1.) in M. circinelloides, which were identified as FET3A, FET3B, and FET3C, with the latter being the most important for infection [47]. Single and double knockout strains of the FET3 genes were also shown to be critical components involved in iron uptake, particularly in low iron conditions both in vitro and in vivo [47]. In R. delemar, the complete deletion of the iron permease (FTR1) results in reduced virulence [48,66]. Interestingly, iron starvation induces the metacaspase dependent apoptotic response in strains lacking FTR1 [48]. In addition, there remains the possibility that the reductive pathway and the iron permeases (Ftr1) in Mucorales may also have a role in scavenging iron from other host proteins, e.g., ferritin or transferrin [40,64,76]. These examples highlight the importance of the reductive pathway has in survival and virulence under iron starvation.

3. Haem and Haemoglobin Utilisation

In the host, approximately 60–70% of the <span class="Chemical">iron is bound to haem in haemoglobin, as well as other haem-containing proteins [77,78]. Other host-proteins that bind <span class="Chemical">iron include haemopexin, haptoglobin, lactoferrin, lipocalin-1, and lipocalin-2. Additionally, intracellular iron is bound to ferritin, the second-largest reservoir of iron, and transferrin [78,79,80]. This sequestration of iron to specific proteins prevents the iron-dependent catalysis of free radical cascades and the production of toxic components [2]. Importantly, this mechanism restricts iron availability to invading pathogens [19]. Consequently, the ability of a fungal pathogen to sequester iron from different host iron-containing proteins for growth and proliferation is a key virulence determinant [81]. It has been thoroughly demonstrated that C. albicans has a mechanism to obtain iron from haem and haemoglobin that is independent of both the reductive and non-reductive systems, i.e., xenosiderophore transport [82,83]. The ability to utilise haem/haemoglobin depends on the conserved family of common in several fungal extracellular membrane proteins or CFEM proteins, which has an eight cysteine-containing domain: Rbt5, Rbt51/Pga10, Pga7, and the secreted haemophore, Csa2 [81,84,85,86,87,88,89]. The currently accepted model for haeme/haemoglobin uptake suggests that there is a cooperation between Rbt5 and Pga7 [40]. The cell wall-associated Rbt5 facilitates diffusion of haem/haemoglobin across the cell wall and thus accessible to Pga7, which allows internalisation of haem/haemoglobin by endocytosis [81,90]. This model was supported by individual mutants lacking Rbt5 and Pga7, respectively [81,90,91]. Mutants of the latter exhibited significant growth deficiencies in medium containing haem or haemoglobin as the only iron source. In a mouse model of systemic infection, this mutant was attenuated for virulence [90]. Csa2, is another CFEM protein that is also required for C. albicans growth on haemoglobin. Structural resolution of the Csa2 protein has identified a novel six α-helix motif with a hydrophobic platform, which may facilitate attachment of planar haem molecules [81,87,90]. This work added to the model for haem-iron transport in C. albicans, where haem is cleaved from haemoglobin by Csa2, transferred to the CFEM proteins Rbt5 and Pga7 for internalisation by endocytosis [81,84,85,87,90]. Pinksy et al., 2020 recently demonstrated that C. albicans strains lacking CSA2 and RBT5 utilise haemoglobin at a weaker rate in comparison to the wild type. Importantly, mutants lacking PGA7 were unable to utilise haemoglobin as a sole iron source in vitro [91]. The addition of human serum albumin (HSA) with haemoglobin restored growth in CSA2 mutants similar to the wild type. However, HSA did not rescue growth in RBT5 and PGA7 mutants [91]. Growth of the CSA2 mutants on haemin was similar to the wild type with or without HSA, while mutant RBT5 strains showed slightly improved growth in the presence of HSA. In contrast, HSA added with haemin completely abolished growth of PGA7 mutants. However, growth is seen when higher concentrations of haemin are used as the only iron source. These results strongly indicate that the Pga7 protein is an essential member of the CFEM haemophore cascade and it is required for the uptake/utilisation of albumin-bound haemin [91]. Their results also showed that C. albicans cannot utilise haem bound to haemopexin (serum haem-binding protein). Adding further to haem utilisation, the expression of only Rbt51 is enough to confer the ability to use haemoglobin in S. cerevisiae [81,92]. Mutants of RBT51 in C. albicans grow poorly on either haem or haemoglobin [81,85]. Other pathogenic Candida species can utilise haem and haemoglobin to various degrees. For example, C. auris, C. parapsilosis, and C. tropicalis can grow on haem and haemoglobin, but C. glabrata and C. krusei cannot use these iron sources [76,81,86,91,93,94]. Interestingly, anti-Rbt51 antiserum reacted with lysates from C. parapsilosis and C. tropicalis but was non-reactive with lysates from C. glabrata and C. krusei. The inability of C. glabrata to exploit haem or haemoglobin suggests that this pathogenic fungus is not well adapted to the host microenvironment, i.e., alkaline pH [76,81,95]. C. neoformans can also utilise haem as an iron source [96,97,98,99]. This is facilitated by the endosomal sorting complex required for transport or ESCRT-I protein Vps23, which is involved in haem uptake e.g., by endocytosis [99]. Other proteins involved in haem utilisation include Vps22, and Vps20/Snf7, which are components of the cytosolic protein complexes ESCRT-II and ESCRT-III, respectively [96,98,99]. Recently, Bairwa et al., 2019 confirmed additional proteins involved in the clathrin-mediated endocytosis (CME) of haem/haemoglobin by C. neoformans [100]. Their work strongly suggested that the clathrin heavy chain (Chc1) protein (a component of CME), may have a central role in the uptake and trafficking of haem/haemoglobin. This was demonstrated by the impaired ability of strains lacking the CHC1 gene to internalise haemoglobin. Additionally, CHC1 mutants were unable to grow in medium containing haemin or haemoglobin as the sole iron source [100]. Furthermore, the loss of CHC1 abolishes growth at 37 °C, which is a key virulence determinant for C. neoformans infection. Other components of the CME pathway involved in haem/haemoglobin utilisation include the Las17 protein, which is the yeast homolog of the Wiskott-Aldrich Syndrome (Wasp) protein in mammals, and the amphiphysin-like lipid raft proteins Rsv161 and Rsv167. Similar to the CHC1 mutants, strains lacking LAS17, RSV161 and RSV167 showed impaired growth on haemin containing medium. Mutants of LAS17 were unable to utilise iron from haem and showed increased survival in preliminary in vivo mouse models. As such, these results indicate that the CME pathway may have an important role in haem utilisation, growth and virulence of C. neoformans in vivo [100]. Although haem/haemoglobin utilisation has yet to be demonstrated in Mucorales, putative haem oxygenase genes have been identified in R. arrhizus and L corymbifera [101,102].

4. Siderophore Uptake

Siderophore uptake is a non-reductive <span class="Chemical">iron uptake pathway that contributes to <span class="Chemical">iron acquisition in fungi [40]. Siderophores are small-molecules (usually <1 kDa) that are high-affinity ferric iron chelators secreted by fungi and used as another indirect strategy to sequester iron from all available sources in the environment and in the host [103,104]. In some opportunistic fungal pathogens, i.e., Mucorales, the use of siderophores as therapy directly predisposes to infection [105,106]. Siderophore molecules can be divided into three main classes, depending on the chemical nature of the group donating the oxygen ligands for Fe3+; these are the catecholates, hydroxamates, and α-hydroxy carboxylates [107,108]. However, other siderophores containing more complex structures which integrate at least two classes into one molecule, are classified as mixed-type siderophores [108,109]. Representative structures of the three main classes are illustrated in Figure 2.

Figure 2

Representative structures of the different classes of siderophores: the Hydroxamate class —desferrioxamine B, ferrichrome, ferrichrome A and TAFC; the Catecholate class—enterobactin; and the Carboxylate—rhizoferrin. All structures are illustrated in their iron-free forms.

Most fungi <span class="Species">can synthesise and secrete siderophores that bind <span class="Chemical">ferric iron with extremely high affinity and specificity [110,111,112]. This iron-binding event, specifically for Fe3+, has a dissociation constant of approximately 10−29 M, significantly greater than other biologically relevant iron-binding ligands in nature [3,112,113]. It is worth noting that the majority of the siderophores synthesised by fungi belong to the hydroxamate class [29,114]. A notable exception is rhizoferrin, a carboxylate-type siderophore that is produced by various Mucorales [29,107,115]. In siderophore-producing organisms, the production of one or more of these compounds is associated with iron starvation (intracellular iron concentration < 10−6 M), which has effects on growth [104,111]. Upon secretion, siderophores form stable, extracellular complexes with Fe3+. Once iron-bound, the complex can be directly transported by the membrane-bound siderophore-transporters or the entire complex undergoes reduction and oxidation, next the iron (Fe3+) is then transported by the Ftr1 of the reductive pathway [113,116]. However, the reductive pathway functions more efficiently in the presence of high concentrations of siderophore-bound iron [3,116]. Numerous fungi express siderophore transporters capable of transporting xenosiderophores, i.e., siderophores produced by other fungal species or bacteria (Table 2) [92,117].

Table 2

Components of the siderophore transport system in S. cerevisiae and in pathogenic Mucoralean species.

Organism	Transporter	Function	Siderophore Substrate	Publication
S. cerevisiae	Arn1	Ferrichrome and Ferrichrome A transporter	Ferrichrome and Ferrichrome A	[3,103,118,119,120]
	Arn2/Taf1p	Triacetylfusarinine C (TAFC) transporter	TAFC	[3,118,119]
	Arn3/Sit1p	Ferrichrome and Ferrichrome A transporter	Ferrioxamine B, Ferrichrome A, Ferrichromes, Ferricrocin, Ferrichrycin, Ferrirhodin and Ferrirubin	[3,118,119]
	Arn4p/Enb1p	Enterobactin transporter	Enterobactin	[3,118,119,121]
R.arrhizus(syn. R. oryzae, R. delemar)	Fob1, Fob2	Ferrioxamine binding	Ferrioxamine B	[48,71]
L. corymbifera	Fob1 (putative protein)	Ferrioxamine binding	Ferrioxamine B	[49]

The utilisation of <span class="Chemical">xenosiderophores is advantageous to pathogenic fungi as it means this facilitation, binding, and transpan>ort provides better access to <span class="Chemical">iron for growth and proliferation in the host [60,103,113,122,123]. S. cerevisiae, C. albicans, and C. neoformans do not synthesise their own siderophores but can utilise several xenosiderophores produced by other organisms, e.g., ferrichrome [110,124]. Early studies in S. cerevisiae provided a clear model for the uptake mechanisms for xenosiderophores via the Arn/Sit transporters belonging to the major facilitator superfamily [3,35,55]. This family of transporters identified as Arn1, Arn2/Taf1, Arn3/Sit1, and Arn4/Enb1, each show specificity for the different classes of siderophores produced by fungi and bacteria [111]. The Arn1 proteins transport ferrichrome, other hydroxamates of the ferrichrome-type, and coprogen [125]. Arn2/Taf1 specifically transports triacetylfusarinine C (TAFC) [118,125]. The Arn3/Sit1 membrane proteins exhibit a broad substrate specificity in comparison to the other transporters, as it recognises a variety of ferrichromes, coprogen as well as bacterially derived ferrioxamines [3,29,35,55,93,111]. Arn4/Enb1 exclusively transports the catecholate siderophore, Enterobactin produced by E. coli [65,126]. This phylogenetic relationship between the characterised and putative siderophore transporter genes are illustrated in (Figure 3).

Figure 3

Phylogenetic analysis of characterised siderophore transporters from S. cerevisiae (Sc, brown), S. pombe (Sp, pink), C. albicans (Ca, blue), C. neoformans (Cn, red), A. fumigatus (Af, torquoise), and A. nidulans (An, green). Putative siderophore transporters from L. corymbifera (Lc, purple) are also included. CnTri12 is a major facilitator not belonging to the SIT-family of proteins and serves as an outgroup. All sequences were aligned using MUSCLE (v.3.8.31, Marceille, France). Phylogenetic tree was reconstructed using the maximum likelihood method implemented in the PhyML program (v3.1/3/0 aLRT, Marceille, France). The WAG substitution model was selected assuming an estimated proportion of invariant sites (0.011) and 4 gamma-distribution rate categories to account for rate heterogeneity across sites. The gamma shape parameters were estimated directly from the data (gamma = 2.830). Reliability for internal branch was assessed using the aLRT test (SH-Like) [127,128,129,130,131,132,133].

The Arn transporters are internalised when the ligands are bound to a siderophore [111]. This complex is then transported via late endosomal vesicles for vacuolar degradation which releases the <span class="Chemical">iron [119]. This pathway was elegantly shown by Yun et al., 2001 where the trafficking of <span class="Chemical">ferrichrome and ferroxamine B are transported by Arn3/Sit1 and Arn1 transporters, respectively [35,119]. The transcriptional activator Aft1 in S. cerevisiae responds to iron availability and regulates the expression of FET3, FTR1, and ARN; it has also been shown to interact with Arn3/Sit1 transporters [119]. This interaction influences the ubiquitination and vacuole-dependent degradation of the protein, further illustrating that the sensing mechanisms in fungi can be adjusted accordingly for efficient iron uptake [134,135]. In C. albicans, the Arn1/Sit1 transporter is used to facilitate the utilisation of xenosiderophores such as coprogen, ferrichrysin ferricrocin, ferrirubin, and triacetyl-fusarine C [93,125]. As a human commensal, C. albicans share the mucosal and gastrointestinal environment with other flora including bacteria, thus the ability to utilise xenosiderophores was most likely developed in this environment [125,136]. The Arn1/Sit1 transporter in C. albicans was shown to be required for the invasion of reconstituted epithelium in a human oral mucosa model [125]. However in mouse models of systemic candidiasis, it does not contribute to virulence, thus indicating that siderophore-mediated iron uptake may not be important during bloodstream infections [125]. For C. glabrata, it was demonstrated that SIT1 mutants showed no difference in survival within the phagolysosome of infected macrophages when compared to the wild-type strain [93,137]. The highly conserved SIT1 transporter of C. neoformans is not involved in virulence in murine models of cryptococcosis, but it plays a role in the uptake of ferrioxamine B as well as other environmental xenosiderophores [138]. In addition, the Cft1 and Cfo1 of the reductive pathway is not required for iron assimilation from ferrioxamine [139]. Xenosiderophores are of high importance in mucormycosis caused by the Mucorales, i.e., Rhizopus, Mucor, Lichtheimia, as well as uncommon genera, e.g., Apophysomyces [42,140]. The most common causative agents isolated in nosocomial infections include R. arrhizus and L. corymbifera [140,141]. Mucormycosis is seen in immunocompromised patients, poorly managed diabetic patients, diabetics with ketoacidosis experiencing iron overload (DKA), and patients in end-stage renal failure on chelation therapy, e.g., desferoxamine B siderophore treatment [141,142,143]. R. arrhizus and other pathogenic Mucorales possess cell surface-proteins, i.e., Fob1 and Fob2, which allows for the exploitation of desferoxamine thus aiding growth in the host [71,115,142,144]. In addition, the reductive iron uptake pathway also provides an additional mechanism for siderophore-Fe3+ utilisation, and contributes to pathogenesis as defects in this pathway, i.e., mutants of the iron permease (FTR1) show attenuated virulence [71,72,101,145].

In <span class="Species">A. fumigatus and <span class="Species">A. nidulans as well as in Histoplasma capsulatum, siderophore-mediated iron uptake has been thoroughly studied as knockout strains can be obtained [29,34,38,124,146,147]. Aspergillus species and H. capsulatum can synthesise different hydroxamate-type siderophore. Aspergillus species can synthesise fusarinine C, triacetylfusarinine C, ferricrocin, hydroxferricrocin, while H. capsulatum produces coprogen B [29,146,148,149,150,151]. In A. fumigatus, the SIDA gene that encodes the L-ornithine-N-monooxygenase is essential for siderophore production and contributes to virulence [75,147,152]. A. fumigatus also possess a highly conserved orthologs of the S. cerevisiae SIT1 and SIT2 transporter genes, and it was demonstrated that these transporters play a role in the uptake of ferrioxamine B and ferrichrome [153]. The deletion of the SID1 gene (ortholog of SIDA) in H. capsulatum, abolishes the siderophore biosynthesis pathway and inhibits fungal growth in bone marrow-derived macrophages and in mice. This indicates that siderophore production is an essential virulence mechanism for H. capsulatum [154]. The siderophore uptake system enables fungi to effectively compete for limited amounts of available iron in the environment and allows opportunistic fungi another mechanism to efficiently acquire iron during infection.

5. The Fungal Cell Wall: Composition and Role in Diagnostics

5.1. The Cell Wall Composition of Mucorales in Comparison to Other Fungi

The cell wall is an essential structure that maintains the integrity and viability of the fungal conidia, protecting the cell from the harsh external env<span class="Chemical">ironment [3,155]. It also confers the distinct and identifiable morphology that houses important antigenic determinants which are vital for adhesion, receptor-mediated signalling cascades within the conidia, and subsequent colonisation leading to disease [61,156]. For nutrients, e.g., iron in any form or iron containing compounds, to gain access to the plasma-membrane and the embedded uptake-systems, these compounds must first traverse the fungal cell wall and cross the periplasmic space (Figure 1.) [3,61,157]. As such, the fungal cell wall must have some level of regulated permeability [157,158]. The intricate structure of the cell wall consists of a meshwork of complex β-1,3-glucans, chitin, an outer layer of mannoproteins as well as lipids, glycoproteins, and pigments (Figure 4) [55,61,159,160,161,162]. These components are highly immunogenic and elicit both cellular and humoral response during infection [159,163,164,165]. Interestingly, the mannoprotein composition and the permeability of the cell wall changes under different growth stages and conditions, e.g., exposure to antifungals [61,158,160,166]. This subsequently alters the passage of nutrients through the cell wall into the periplasmic space and to the plasma membrane. As such, the fungal cell wall represents an ideal target for antifungals [158,167,168,169].

Figure 4

Schematic organisation of the fungal cell wall of opportunistic fungi. This illustration shows the major components of the cell wall based on current knowledge of the fungal model. Most fungi have chitin, branched β-1,3-glucan and β-1,6-glucan with notable differences in their architecture and attachments to these basal components. In the yeast, C. albicans, there is an inner layer of chitin, followed by a β-1,3- glucan and β-1,6-glucan foundation that anchors glycosylphosphatidylinositol-linked (GPI) glycoproteins. In the conidia of A. fumigatus, the basal layer consists of β-1,3- and β-1,4-glucans which are attached to a linear α-1,3 and α-1,6-glucan layer. The mannan chains in A. fumigatus are low molecular weight β-1,5-galactofurans. The cell wall of A. fumigatus conidia possesses a hydrophobic layer known as the hydrophobin rodlet layer and a melanin layer; the hyphae consists of α-1,3-glucans, galactomannan (GM), galactosaminoglycan (GAG) and a few glycosylated proteins (no illustrated). The cell wall of the Basidiomycetous yeast C. neoformans, consists of a β-1,3-glucan and β-1,6-glucan foundation, a mixture of chitin/chitosan. This is followed by the α-1,3 glucans anchor, the capsule outer layer which consists of glucuronoxylomannan (GXM) and galactoxylomannan (GalXM). The precise structure of the Mucorales cell wall is yet to be fully characterised for both the sporangiospores and hyphal form. Illustrated here is the partially known component of the Mucorales sporangiospore. To date, the cell wall has been shown to consist of chitin/chitosan, β-1,3-glucans, mannan, mannose, extracellular polysaccharides (EPS) and other polysaccharides, e.g., mucoran and mucoric acid (hyphae); figure adapted from [170,171].

Fungal β-<span class="Chemical">glucans, which represents approximately 50–60% of the structure’s dry mass, are the most abundant <span class="Chemical">polysaccharides in the cell wall and are characterised by the presence of β-(1,3-)-glucans backbone with or without branches of β-(1,6-)-linked glucans, β-(1,4-), α-1,3 and α-1,4 links [172]. For example, the cell wall of C. albicans contains β-(1,6-) linkages, while Aspergillus spp. do not [165,168,173,174]. The most important component of the cell wall is the β-1,3-D-glucan, which is synthesised by 1,3-β-D-glucan synthase. This protein complex consists of two subunits: (1) Fks1, which is the catalytic subunit that produces the glycosidic bonds, and (2) Rho1, which is a Ras-like GTP-binding protein that regulates the activity of the β-D-glucan synthase [175,176,177,178]. Chitin, on the other hand, accounts for 1-2% of the cell wall content and is made up of a linear polymer of β-1,4-linked acetylglucosamine (β-1,4-linked GlcNAc), which forms microfibrils in the cell wall [160,179,180]. The synthesis of chitin from N-acetylglucosamine is catalysed by the chitin synthase enzyme, afterwards, the chitin polymers are deposited on the outer region of the plasma membrane [179,181,182,183,184]. The glycoproteins represent between 30–50% of the dry mass of the fungal cell wall, e.g., in S. cerevisiae or Candida spp. They are composed of modified N-and O-linked carbohydrates or mannan [168]. In some fungi, the mannan backbone consists of either single residues or side chains of different sugars [180,185]. These glycoproteins have diverse functions, from participating in maintenance and remodelling of the cell wall structure to adhesion and in signal transduction into the cytoplasm [157,168,180,186]. Another component of the cell wall that has been shown to be important for protection, survival, and viability of the conidia is the pigment melanin. This pigment has a relatively high molecular weight that is negatively charged, hydrophobic, and insoluble [162,187,188,189]. Melanin plays an important role in fungal virulence for some pathogenic fungi, as it has a role in the inhibition of phagocytosis as well as disturbing host immune response, invasion, and dissemination [162,184,188,190,191,192,193]. The presence of melanin offers protection from oxidative stresses, temperature, and UV damage [159,161,191,192]. Overall, these various components of the fungal cell wall represents ideal targets for diagnosis and antifungals treatment [158,167,168,169].

5.2. Diagnostic Methods Based on Properties of the Fungal Cell

Numerous challenges arise for the accurate diagnosis of <span class="Disease">invasive fungal infections (IFIs) in immunocompromised <span class="Species">patients, especially those with underlying malignancies and/or HSCT [194]. The clinical manifestations are non-specific, usually requiring a degree of suspicion for early recognition and prompt antifungal treatment [195]. According to the International Society for Heart and Lung Transplantation, IFIs are defined as the presence of fungus in the respiratory secretions including sputum or bronchoalveolar lavage (BL) detected by PCR, biomarkers or cultures in the presence of symptoms, radiological and endobronchial changes or signs of histological changes indicative of tissue invasion by fungi [195,196,197]. The invasive fungal infections cooperative group (IFICG) of the European Organisation for Research and Treatment for Cancer (EORTC) and Mycology Study Group (MSG) of the National Institute of Allergy and Infectious Diseases (NIAID) have published standard classifications of IFIs for research purposes. These classifications apply possible, probable and proven to the patient evaluation data based on a combination of host factors, clinical presentations, microbiological and biomarker indications [195,197,198]. The standard diagnostic tools used in the clinical setting to diagnose IFIs are summarised in Table 3. To date, more comprehensive reviews are available that provide details on the most relevant and applicable diagnostic techniques currently used in the clinical settings [199,200,201,202,203,204].

Table 3

Techniques used for diagnosis of fungal infections.

	Method	Organism	Comment	Publications
Microscopy	Direct histology and cytology	Candida spp.; Cryptococcus spp.;Aspergillus spp.;Mucorales	Gold standard, demonstration of tissue invasion	[199,205]
Cultures	Mycological culture	Cryptococcus spp.Candida spp.;Aspergillus spp.; Mucorales	Slow turn-around time	[206,207,208,209,210]
	Blood cultures	Candida spp.;A. fumigatus,A. terreus;	Gold standard for candidemia;	[211,212]
Serological methods	1,3-β-D-glucan (BDG) *	Candida spp.;Aspergillus spp.	Exceptions: Mucorales and Cryptococcus spp.	[195,197,199,205,213,214,215]
	Galactomannan (GM) enzyme immunoassay *	Aspergillus spp.		[216]
Molecular approaches	PCR(18s rDNA,28s rDNA,ITS, mtDNA	Candida spp.; Cryptococcus spp.;Aspergillus spp.;Mucorales	-	[217,218,219,220]
Imaging technologies	X-rays, CT and CTPA	Aspergillus spp.;Mucorales	-	[218,221]
	MRI and PET scan	Cryptococcus spp.;Aspergillus spp.;Mucorales	-

* Fungal cell wall component; PCR: polymerase chain reaction; ITS: internal transcribed spacer region; mtDNA: mitochondrial DNA; CT: computerised tomography; CTPA: CT pulmonary angiography; MRI: magnetic resonance imaging; PET: positron emission tomography.

6. Iron Acquisition and Susceptibility to Antifungals: Implications in Therapy

6.1. Antifungal Treatment and Iron Chelation Therapy

Successful management of IFIs are based on the timely initiation of optimal antifungal therapy, reversal or discontinuation of underlying predisposing factors and the use of relevant adjunctive therapies [222]. Additionally, immediate correction of <span class="Disease">metabolic disorders or abnormalities in <span class="Species">patients with uncontrolled diabetes is mandatory in suspected mucormycosis cases. Surgical intervention for the complete removal of infected tissue in urgent cases significantly improves patient outcome [199,202,204,223]. Only four classes of antifungal medications are currently available for the treatment of IFIs, these are: polyenes, pyrimidine analogue, echinocandins and triazoles [207,210,224]. The latter i.e., echinocandins and azoles will be discussed later as emerging resistance is becoming more prevalent [225]. The first line treatment of invasive candidiasis is typically the echinocandins as well as formulations of amphotericin B (AMB) [205]. For Cryptococcal infections, the gold standard antifungal drugs include the polyenes, flucytosine (5-FC), triazoles and their combinations [226,227]. Treatment options for invasive aspergillosis include voriconazole, liposomal amphotericin B (LAMB) and most recently isavuconazole [199,228,229]. In mucormycosis, the lipid formulations of AMB, i.e., LAMB and AMB lipid complex, (AMLC) is the optimal treatment option [199,202,204,222,228,230]. It is important to note that Mucoralean fungi are innately resistant to most antifungals in vitro, including voriconazole [231]. Most recently, posaconazole and isavuconazole have exhibited activity against Mucorales [228,231,232].

Currently, therapeutic strategies to combat compli<span class="Species">cated <span class="Disease">infections as well as innate, emerging resistance in fungal pathogens include adjunctive therapies and new antifungal drugs [233]. Adjunctive therapies functions by interfering with resistance mechanisms or modifying drug activity [197]. Examples of the former include efflux pump inhibitors, which increase intracellular antifungal concentration, and histone deacetylase inhibitors, which are used in combination with azoles to inhibit fungal growth [197,234,235,236]. Compounds that modify antifungal activity usually act synergistically by altering the fungal stress response mechanisms [237,238,239,240]. These include statins, heat-shock protein 90 (Hsp90) inhibitors, nonsteroidal anti-inflammatory drugs, inhibitors of calcineurin and calmodulin, calcium homeostasis, selective serotonin reuptake, and iron homeostasis [197,207].

<span class="Chemical">Iron metabolism holds a central role in fungal pathogenesis, particularly in the development of mucormycosis. Thus, there is the possibility to use <span class="Chemical">iron chelators as an adjunctive therapy strategy as this could limit/inhibit fungal growth. The iron chelator deferasirox is used for the treatment of iron overload in immunocompromised patients and those with elevated serum iron, e.g., diabetic & DKA patients. Preclinical data on DKA murine models of R. oryzae (R. arrhizus) infection found that treatment with deferasirox was as effective as LAMB therapy and combination treatment, i.e., deferasirox-LAMB, acted synergistically to improve survival [31,101,143,241,242]. Although this showed promise, in the clinical application of deferasirox-LAMB, it was demonstrated to significantly increase mortality in patients with hematologic malignancies [101,210,241,243,244]. On the other hand, this treatment strategy remains a viable option for other high-risk patient groups, e.g., DKA patients [200,202]. Deferasirox was also seen to enhance LAMP treatment in a murine model of invasive pulmonary aspergillosis. However, relevant clinical applications or data remain lacking [242,245]. Synergy was shown with fluconazole, ketoconazole, or AMB when combined with other iron chelators, including deferiprone, lactoferrin, and ciclopirox. These combinations proved successful in inhibiting A. fumigatus growth in vitro [237]. Another potential novel target for the treatment of Mucorales include the inhibition or blocking of the proteins involved in the reductive pathway. Antibodies targeting the iron permeases (Ftr1) of R. oryzae (R. arrhizus) protected DKA mice from infection [33,72,246]. Additionally, antibodies targeting the unique host proteins involved in receptor mediated endocytosis of fungal spores, i.e., 78kDa glucose-regulated protein (Grp78/HspA5) are possible targets. Grp78/HspA5 is overexpressed in patients with hyperglycaemia, DKA, and elevated serum iron; thus, antibodies, i.e., anti-Grp78 may be promising novel targets as it was shown to offer protection in a murine DKA model. Similar protective attributes were seen when antibodies of the fungal spore coat protein H or CotH i.e., anti-CotH (the interaction partner of Grp78/HspA5) were used in DKA murine model [105,231,247].

6.2. Antifungal Resistance and Iron

6.2.1. Echinocandins

Antifungal compounds that specifi<span class="Species">cally target the cell wall components include <span class="Chemical">Ibrexafungerp (SCY-078) and the Echinocandins, e.g., caspofungin, micafungin, and anidulafungin [181,248]. Ibrexafungerp (SCY-078) functions by actively inhibiting the 1,3-β-D-glucan synthase while the Echinocandins inhibit the 1,3-β-D-glucan synthase by noncompetitively binding to the Fksp subunit of the enzyme, which leads to a decrease in the amount of β-D-glucans present in the cell wall (Figure 5) [249,250,251,252,253,254]. Cell death is seen in C. albicans when this enzyme is inhibited by caspofungin and micafungin [252,254,255,256,257]. Interestingly, ΔCCC2 cells (defectives in copper transport) show hypersensitivity to echinocandins [258]. On the other hand, elevated proportions of chitin in the cell wall of Candida species exhibit increased resistance to caspofungin, particularly in in vivo candidiasis models [238,248,251,259]. Recently, Pradhan et al. 2019 demonstrated that iron-limitations induces a β-glucan masking phenotype as well as cell wall remodelling and thickening. However, defects in this phenotype was observed in mutants lacking the permease and transcription factor (ΔFTR1 and ΔSEF1, respectively) [64]. Through this β-glucan masking, there is reduced phagocytosis and a dramatic reduction in proinflammatory cytokines (TNF-α and IL-6) produced by peripheral blood mononuclear cells (PBMCs) [64,163,164]. However, the use of caspofungin enhances β-glucan exposure [163,164]. Interestingly, the 1-3-β-d-Glucan inhibitor ibrexafungerp appears to be effective against clinical isolates that are resistant to echinocandins [260,261]. The dynamic nature of the cell wall has a major role in the development of antifungal resistance [262,263]. In both C. albicans and A. fumigatus, changes in the structural composition of the cell wall have been noted in strains showing antifungal resistance [210,213,214].

Figure 5

Azoles and echinocandin antifungal drugs and their mechanism of actions: An illustration of two main classes of antifungal drugs used clinically and how they affect the fungal cell of C. albicans. (A) Echinocandins, e.g., caspofungin, inhibit β-(1-3)-D-glucan synthase in the cell membrane, which leads to disruption in cell wall integrity. (B) Azoles, e.g., fluconazole, inhibit Erg11/CYP51 F5, which blocks the production of ergosterol, leading to the accumulation of toxic sterol intermediates. Δ indicates where iron starvation or depletion may contribute to increased susceptibility to azole antifungals.

6.2.2. Azoles

<span class="Chemical">Azole antifungals have been in clini<span class="Species">cal use for more than 20 years [264]. The azoles are separated into two distinctive classes, i.e., the triazoles and the imidazoles. Triazoles used in the clinical setting include fluconazole, itraconazole, voriconazole and posaconazole [265]. Common imidazoles used are clotrimazole, ketoconazole and miconazole [265,266]. Cytochrome P450 (CYP450) is an enzyme that converts lanosterol to ergosterol, which is the major sterol in the fungal plasma membrane. Azoles inhibit the CYP450 enzymes which causes increase permeability of the fungal plasma membrane (Figure 5.) [265,266,267]. Azoles also affect other efflux transporters, including major facilitator superfamily (MFS) transporters and ATP-binding cassette (ABC) transporters [268]. Susceptibility to azole antifungals is seen in Candida spp., C. neoformans, Aspergillus spp., and the Mucorales, to name a few. However, resistance has also been well characterised among this class of antifungal therapy [239,268,269,270,271]. The direct target of fluconazole is Erg11 (homologous to the yeast CYP51 F5), an enzyme involved in the ergosterol biosynthesis pathway [97,240,272,273].

In <span class="Species">C. albicans, it was shown that intracellular <span class="Chemical">iron depletion leads to increased fluidity of the plasma membrane as there is reduced ergosterol [240,274]. Gene expression of ERG11, which encodes for lanosterol 14-α demethylase as well as the ERG3 gene, which encodes for the Δ5,6-desaturase is affected by intracellular iron availability (Figure 5.). Erg3 catalyses the addition of a carbon-carbon double bond to the substrate molecules in the finals steps of the ergosterol biosynthesis pathway [39,240,271,275]. The strains lacking the high-affinity iron permease Ftr1 (ΔFTR1), null mutants (lacking both: ΔFTR1 and ΔFTR2) as well as ΔCCC2 mutants (copper transporter) were all shown to be more susceptible to fluconazole [240]. An important note is that the Ccc2 copper transporter is responsible for the copper acquisition, as copper is a key component of the multicopper oxidase (Fet3) protein in the reductive pathway [240,258]. Iron deprivation results in the downregulation of ERG11 [240,271]. As such, the increased membrane fluidity due to lower ergosterol content seen in the iron uptake mutants (ΔFTR1, ΔFTR2, ΔFTR1 ΔFTR2, and ΔCCC2) leads to higher passive diffusion of azole antifungals, thus increased susceptibility [271,276]. This is compounded by the upregulation of ERG3, which in an azole-inhibited pathway, allows for the accumulation of toxic intermediates [39,271]. Therefore, Erg3 acts synergistically with azoles increasing susceptibility [239,240,271]. On the other hand, mutations or deletions of the ERG3 gene, as well as upregulation of ERG11, confers azole resistance in C. albicans (Figure 5.) [271,275,277]. Similarly, the reductive iron uptake system in C. neoformans has an important role in resistance to azoles [97,138,278]. Mutants lacking both the multicopper ferroxidase (CFO1) and the iron permease (CFT1) had reduced intracellular iron levels, which significantly increase azole drug susceptibility, i.e., to fluconazole [97,279]. Interestingly, overexpression of ERG11 in CFO1 mutants exhibited reduced susceptibility to fluconazole [97,272,277,280]. Innate and acquired reduced susceptibility and resistance to azole in A. fumigatus has been linked to numerous point mutations in the CYP51A gene [268,270,281]. It has been demonstrated that the Mucorales have an intrinsic resistance to azole antifungals, specifically to the short-tailed azoles, i.e., fluconazole and voriconazole [270,281,282,283,284]. It was found that this intrinsic resistance may be caused by an amino acid substitution in the cytochrome P51 or CYP51 F5 (Erg11) enzyme; changing a Tryosine (Y) to Phenylalanine (F) at position 129 i.e., Y129F [270]. Interestingly, the CYP51 enzyme was shown to be highly regulated by iron in A. fumigatus [268,279].

7. Conclusions

<span class="Chemical">Iron is an absolute requirement for most organisms and biologi<span class="Species">cal processes. The information discussed above highlights the complexity of iron assimilation, iron regulation, and homeostasis in fungi. Considering the importance iron has in growth, survival, and virulence, it is not surprising that these intricate mechanisms and pathways also play a role in the development of resistance to antifungal drug therapies. The convolute relationship between iron availability, transport proteins in the fungal cell wall, and membrane components suggest numerous possibilities for new strategies in the treatment of opportunistic fungal pathogens. However, much is yet to be elucidated about the cell wall composition and the iron acquisition pathways in the basal fungal lineage order, Mucorales, with their known resistance to antifungals drug therapies. Given the central role of iron in pathogenesis, combined treatment of antifungals with compounds targeting iron assimilation is a promising approach to combat opportunistic fungal infections, particularly mucormycosis.