Metastable biomolecular condensates of interferon-inducible antiviral Mx-family GTPases: A paradigm shift in the last three years

Abstract

Membraneless organelles (MLOs) in the cytoplasm and nucleus in the form of phase-separated biomolecular condensates are increasingly viewed as critical in regulating diverse cellular functions. We summarize a paradigm shift over the last 3 years in the field of interferon (IFN)-inducible antiviral Mx-family GTPases. Expression of the ‘myxovirus resistance proteins’ MxA in human cells and its ortholog Mx1 in murine cells is increased 50- to 100-fold by Type I (IFN-α and -β) and III IFNs (IFN-λ). Human MxA forms cytoplasmic structures, while murine Mx1 forms nuclear bodies. Since 2002, it has been widely thought that human (Hu) MxA is associated with the membraneous smooth endoplasmic reticulum (ER). In a paradigm shift, our recent data showed that HuMxA formed membraneless phase-separated biomolecular condensates in the cytoplasm. Some of the HuMxA condensates adhered to intermediate filaments generating a reticular pattern. Murine (Mu) Mx1, which was predominantly nuclear, was also confirmed to be in phase-separated nuclear biomolecular condensates. A subset of Huh7 cells showed association of GFP-MuMx1 with intermediate filaments in the cytoplasm. While cells with cytoplasmic GFP-HuMxA condensates and cytoplasmic GFP-MuMx1 filaments showed an antiviral phenotype towards vesicular stomatitis virus (VSV), those with only nuclear GFP-MuMx1 bodies did not. The new data bring forward the paradigm that both human MxA and murine Mx1 give rise to phase-separated biomolecular condensates, albeit in different subcellular compartments, and that differences in the subcellular localization of condensates of different Mx proteins determines the spectrum of their antiviral activity.

Introduction

In the process of investigating a phenomenon called ‘viral interference’ in which one virus interferes with the replication of another related or even unrelated virus, Isaacs and Lindenmann observed in 1957 that chicken embryo tissue in cell culture exposed to live or ultraviolet-irradiated influenza virus type A (FLUAV, an RNA-containing myxovirus isolated from humans) secreted a protein into the culture medium which could render fresh cultures of chicken tissue resistant to a challenge with live FLUAV (Isaacs and Lindenmann 1957; Isaacs et al. 1957). This protein, which elicited an antiviral effect against FLUAV, was called ‘interferon’ (IFN). Subsequently, Lindenmann investigated human-derived FLUAV strain adapted to mice and observed that while the A2G strain of inbred mice, and outbred and field mice were resistant to the production of pulmonary disease when FLUAV was administered by inhalation, other inbred mouse strains (e.g. Balb/c) were susceptible (Lindenmann 1962; Lindenmann et al. 1963). It was soon recognized that this resistance to inhaled FLUAV was due to a genetic trait dubbed ‘Mx’ for ‘myxovirus resistance gene.’ (Lindenmann et al. 1963; Lindenmann 1964; Haller et al. 2015, 2018).

Contemporaneously with these studies, numerous investigators examined the ability of one virus to inhibit development of disease by other disparate viruses in animal models (Henle 1950; Ho 1962). One such investigation, initiated in the early 1960s at the Johns Hopkins School of Public Health and continued at the Virus Research Center, Pune (now called the National Institute of Virology) showed that West Nile virus inoculation of chicken could block the development of sarcoma in the wing web following a challenge with the Rous sarcoma virus (Shirodkar 1965). Subsequently it was discovered that a vaccine strain of rabies virus was also able to cause this blockade of the Rous sarcoma in chicken (Desai 1970), and that the plasma/serum of rabies virus-inoculated chicken contained a protein which blocked sarcoma development produced by the Rous virus (Desai et al. 1973). Taken together, an interpretation of these observations was the possibility that virus-induced interferon mediated this anti-tumor effect (Shirodkar 1965; Desai 1970; Desai et al. 1973). Parenthetically, the present author received his first detailed education about the interferons through participation with Dr. M. V. N. Shirodkar in some of these studies (Desai et al. 1973).

Evidence for the involvement of interferon (IFN) in vivo in mice resistant to an inhaled challenge of FLUAV was reported in 1979 by Haller and colleagues (as part of the Lindenmann research group) (Haller et al. 1979). An antibody that neutralized mouse IFN administered to A2G mice rendered such resistant mice susceptible to development of viral pneumonia. Thus, the ‘Mx’ resistance gene produced an IFN-inducible gene product with antiviral activity against FLUAV and other myxo- and paramyxoviruses. Over the next two decades, in very elegant studies, Haller and colleagues, identified the mouse Mx1 and as well as human MxA proteins as 60–70 kDa dynamin-family large GTPases which had an antiviral effect against a variety of different RNA- and DNA-containing viruses (table 1; Verhelst et al. 2013; Haller et al. 2015,2018). Exposure to cells with appropriate IFN preparations upregulated Mx RNA and protein expression by 50- to 100-fold in human and mouse cells (Haller et al. 2015,2018; Yuan and Sehgal 2016). Moreover, a second human Mx gene (‘MxB’) was discovered, as was a second mouse Mx gene (‘Mx2’) (Haller et al. 2015, 2018). Phylogenetic analyses showed that MxA and MxB represented distinct genes, but that murine Mx1 and Mx2 were orthologs of MxA (the rodent ortholog of MxB had been lost) (table 1; Busnadiego et al. 2014; Haller et al. 2015). Human MxA and MxB, and murine Mx1 and Mx2 proteins had distinct subcellular localizations (cytoplasmic vs. nuclear) and distinct antiviral activities towards different viruses (table 1; see Verhelst et al. 2013; Haller et al. 2015, 2018, Steiner and Pavlovic 2020 for detailed reviews).

Table 1.

Condensates of different human and murine Mx proteins

Protein	Cellular localization	Illustrative	References
		Antiviral activity*
Human MxA	Cytoplasmic condensates with some tethered to intermediate filaments	vs. both FLUAV and VSV	Davis et al. (2018, 2019)
Human MxB (full length)	Cytoplasmic face of nuclear pores,	vs. HIV; not vs. FLUAV nor VSV	King et al. (2004)
			Goujon et al. (2013)
	Cytoplasmic condensates		our inference
Murine Mx1	nuclear condensates	vs. FLUAV; not VSV	Sehgal et al. (2020b)
	cytoplasmic intermediate filaments and condensates	vs. VSV	Sehgal et al. (2020b)
Murine Mx2	Cytoplasmic structures	vs. VSV; not FLUAV	Haller et al. (2015)

*See reviews Verhelst et al. (2013), Haller et al. (2015, 2018) and Steiner and Pavlovic (2020) for detailed antiviral spectrum reported in the previous literature.

Modified from Sehgal et al. (2020b).

Briefly, human MxA formed cytoplasmic structures, human MxB was located in structures near the nuclear pores, murine Mx1 formed nuclear structures, while murine Mx2 was ‘granular’ and in the cytoplasm. Additionally, human MxA was antiviral towards FLUAV and vesicular stomatitis virus (VSV, a rhabdovirus whose entire life cycle is cytoplasmic), while human MxB was antiviral towards lentiviruses such as HIV but not FLUAV or VSV. In contrast to human MxA, the orthologous nuclear murine Mx1 was antiviral towards FLUAV (which has an obligatory nuclear step in its life cycle) but not against VSV, while, curiously, the cytoplasmic granular murine Mx2 (also an ortholog of human MxA) was antiviral towards VSV (Haller et al. 2015; Sehgal et al. 2020b) (table 1). The GTPase activity was required for these antiviral activities (Dick et al. 2015; Nigg and Pavlovic 2015; Haller et al. 2015, 2018). However, despite extensive studies over the last six decades, the molecular mechanisms by which Mx proteins inhibit replication of different viruses in intact cells are incompletely understood (Haller et al. 2015, 2018; Sehgal et al. 2020b; Steiner and Pavlovic 2020). Surprisingly, even the understanding of the basic cell biology of Mx proteins needed a paradigm shift in the last three years.

A paradigm shift in the Mx field in last three years

In 2002 the Haller group (Kochs et al. 2002) reported that electron microscopy of cells transfected with human MxA expression vector together with infection by La Crosse virus revealed juxtanuclear membraneless structures which contained the viral nucleocapsid (N) protein and MxA. In this article in 2002, Haller and colleagues stated specifically that these structures did not associate with any intracellular membranes (Kochs et al. 2002).

In contrast, also in 2002, McNevin and colleagues (Accola et al. 2002) claimed that MxA expressed in Hela and Hep3B cells was associated with the smooth endoplasmic reticulum (ER). However, in the article itself, these authors admitted that they were unable to associate MxA with any customary markers for the ER or any other membrane-bound organelles, and that the association was ‘presumed’ to be with the ER because of an impression that MxA colocalized with the ‘autocrine motility factor receptor’ (AMF), which they claimed had been assigned by them to the ER. Nevertheless, the abstract dropped the ‘presumably’ and the title of Accola et al. (2002) stated categorically that MxA was associated with the smooth ER.

In 2006, Haller and colleagues (Stertz et al. 2006) appear to have adjusted their earlier inference from 2002 that MxA structures were membraneless (as in Kochs et al. 2002) and now claimed that MxA associated with a ‘distinct subcompartment of the smooth endoplasmic reticulum’ in the cells they now investigated (the Huh7 human hepatoma cell line) (Stertz et al. 2006). Experimentally, Stertz et al. (2006) showed images of Huh7 cells with a cytoplasmic resticular meshwork distribution of HA-MxA. The customary markers for ER were of no avail, but an in-house antibody towards syntaxin 17 was presented as a marker of the ER (see figure 3 below for the correct answer: that meshwork in Huh7 cells is of HA-MxA condensates adhering to intermediate filaments; Davis et al. 2019; Sehgal et al. 2020a).

Figure 3.

HuMxA condensates in Huh7 hepatoma cells often use intermediate filaments as scaffolding. Human hepatoma Huh7 cells cultured in 35 mm plates were transiently transfected with expression vector for GFP-MxA (Panel A) or HA-MxA (Panel B). Two days later the cultures were fixed and imaged for GFP-MxA (Panel A, by fluorescence in green), HA-MxA (Panel B, by immunofluorescence using anti-HA mAb in green), and intermediate filaments (Panels A and B, using anti-giantin pAb in red; see Sehgal et al. 2020b for validation). White arrows point to spherical GFP-MxA structures and streaks of HA-MxA adhering to intermediate filaments in Panels A and B respectively. Scale bars = 5 µm.

Adapted from Davis et al. (2019) and Sehgal et al. (2020a).

The two articles – Accola et al. (2002) and Stertz et al. (2006) – have had a strong grip on the MxA field despite the inconclusive data presented. Hundreds of citations have referred to these two articles as evidence that MxA associates with smooth endoplasmic reticulum. Even the Kochs et al. (2002) article which showed ‘membraneless’ structures of MxA is repetitively misquoted in the Mx literature as having shown that MxA associates with the ER (see Sadler and Williams 2011 for one example).

Against this cumulative backdrop in the MxA field over the last 15 years, the author’s lab stumbled on to observations that did not fit with the ER localization of MxA (Yuan and Sehgal 2016). Figure 1A shows examples of variably shaped and sized mesoscale structures in the cytoplasm of HEK293T cells expressing HA-MxA (using the expression construct provided by Stertz et al. 2006). Figure 1B shows that at higher magnification the HA-MxA structures were clearly distinct from the reticulon-4-containing endoplasmic reticulum (Yuan and Sehgal 2016; Davis et al. 2019). Numerous additional studies in the author’s lab showed the divergence of MxA structures from the ER (summarized in Davis, et al. 2018; 2019). Thus, by the fall of 2016, we had concluded that there was little convincing experimental evidence that MxA associated with the ER. However, the paradigm in the field that ‘MxA associates with the ER’ based on Accola et al. (2002) and Stertz et al. (2006), was overwhelmingly and vigorously espoused (especially by numerous reviewers).

Figure 1.

MxA forms variably sized and shaped mesoscale structures in the cytoplasm distinct from the endoplasmic reticulum (ER). Cultures of human HEK293T cells grown in 35 mm plates were transiently transfected the pHA-MxA expression vector (obtained from Stertz et al. 2006), fixed 1–2 days later, permeabilized using a digitonin-containing buffer, and the distribution of MxA and the ER structural protein reticulon-4 (RTN4) evaluated using immunofluorescence methods (imaged using an 100x oil immersion objective and z-stack data collection). Panel A, MxA structures in transiently transfected HEK293T cells (Scale bar = 10 µm). Arrows point to large compact mesoscale MxA-positive structures as observed in 25–35% of transfected cells. Panel B, MxA granular structures were distinct from the RTN4-positive ER. Scale bar = 5 µm.

Adapted from Yuan and Sehgal (2016) and Davis et al. (2019).

The formal observation by us in Dec 2017 using correlated light and electron microscopy (CLEM) methods that GFP-MxA structures in Huh7 cells were membraneless strengthened our inference (‘MxA structures are not ER’) (Davis et al. 2018,2019) (figure 2). These membraneless structures were associated with an extensive meshwork of intermediate filaments present in Huh7 hepatoma cells (figure 3; Davis et al. 2018,2019 and Sehgal et al. 2020a, b), thus accounting for the observations of Stertz et al. 2006. Indeed, thin-section electron microscopy studies using CLEM methods confirmed the juxtaposition of membraneless MxA structures adjacent to but distinct from intermediate filaments (Davis et al. 2018,2019) consistent with the immunofluorescence images in figure 3. The further observation by us in June-July 2018 that exposure of Huh7 cells to hypotonic buffer led to the disassembly of GFP-MxA structures within 1–2 min, and that replenishment with isotonic culture medium led to rapid reassembly of the GFP-MxA structures (within 1 min) led us to an understanding of cytoplasmic MxA structures as metastable biomolecular membraneless condensates (figure 4; Davis et al. 2019). The GFP-MxA condensates could be cycled through at least three such rounds of hypotonic disassembly and isotonic reassembly (figure 4). These GFP-MxA structures were also rapidly disassembled by 1,6-hexanediol and had fluorescence recovery properties after photobleaching (FRAP) consistent with a gel-like consistency further confirming their identification as membraneless biomolecular condensates (Davis et al. 2019).

Figure 2.

Correlated light and electron microscopy (CLEM) for identification of membraneless organelles. Huh7 cells plated sparsely in 35 mm gridded coverslip plates (MatTek) were transiently co-transfected with the pGFP-MxA vector. Two days later the cultures were fixed with 4% paraformaldehyde for 1 h at 4⁰. Confocal imaging was carried out using a tiling protocol to identify the location of specific cells with GFP-MxA structures on the marked grid. The cultures were then further fixed, embedded and the previously identified grid locations used for serial thin-section EM (TEM). The tiled light microscopy data were correlated with the tiled EM data to identify the ultrastructure of the GFP-fluorescent structures (arrows in Panel A). Scale bar = 5 µm. Panel B shows a higher magnification image of inset 1 indicated in bottom image in Panel A. Scale bar = 1 µm. Panel C shows a higher magnification TEM images of the boxed portion in Panel B. Arrows indicate the absence of an enveloping membrane. Scale bar = 200 nm. Figure

adapted from Davis et al. (2019).

Figure 4.

Repetitive tonicity-driven disassembly and reassembly of GFP-MxA condensates. A culture of Huh7 cells in 35 mm plate transiently expressing GFP-MxA kept continuously at 37 °C was sequentially imaged in 5 min steps in the indicated media [warm isotonic phosphate buffered saline (PBS) or warm hypotonic erythrocyte lysis buffer (ELB) without or with supplementation with 0.3M sucrose indicated (− or +)]. Images 1–8 illustrate representative examples of cells at each stage in the same culture (out of 10–20 images per step). Scale bars = 10 µm. Figure

adapted from Davis et al. (2019).

This paradigm shift has led us forward along two paths – the first to address questions about the condensate nature of human MxA structures in the cytoplasm and murine Mx1 structures in the nucleus (table 1), and the second to conduct extensive data mining of the Mx literature as part of the process of reinterpreting previous observations. As one example, we now infer that the membraneless human MxB structures juxtaposed to nuclear pores observed in 2004 by King et al. by electron microscopy also likely represent biomolecular condensates (table 1). Clearly at this time, there are many unanswered questions. The reader is referred to previous detailed reviews on the biology of Mx proteins in the context of innate immunity (Haller et al. 2015,2018). At this time, it would be premature for us tie aspects of the cell biology of Mx condensates (assembly/disassembly and metastability) to the broader biology of Mx proteins (antiviral activity against different viruses). Also, at this time, we are unaware of the identification of other dynamin-family large GTPases or other IFN-induced proteins that form biomolecular condensates (we are sure that these will come to be identified soon). The focus of this overview is to provide an interim summary of our data which helped identify cytoplasmic MxA and nuclear Mx1 structures as biomolecular condensates. It should be apparent from this Introduction that we are the only research group in the Mx field that has moved in this direction at this time.

Ubiquity of biomolecular condensates and phase-separated membraneless organelles (MLOs)

As a general comment, in addition to various membrane-bound subcellular compartments, the eukaryotic cell contains organized membraneless biomolecular condensates of proteins and nucleic acids which form functional organelles (Mitrea and Kriwacki 2016; Banani et al. 2017; Shin and Brangwynne 2017; Alberti 2017; Gomes and Shorter 2019; Alberti et al. 2019; Sehgal et al. 2020a). Examples include the nucleolus, the nucleoporin granules, nuclear speckles and paraspeckles, nuclear promyelocytic leukemia (PML) bodies, nuclear Cajal bodies, cytoplasmic processing (P) bodies, germinal P bodies, Balbiani bodies, Negri bodies, stress granules, translation promoting TPA-inducible sequence 11b (TIS) granules, cytoplasmic and nuclear viral replication and maturation complexes, and several more recent discoveries such as condensates of synapsin, of the DNA sensor protein cyclic GMP-AMP synthase (cGAS) in the cytoplasm, the cytoplasmic antiviral proteins human MxA, the nuclear antiviral protein murine Mx1, and active transcription- and splicing-associated condensates in the nucleus. Overall, these condensates have liquid-like internal properties and alter shape and consistency (are ‘metastable’) changing from liquid-like to a gel and/or to filaments and even undergo disassembly/reassembly cycles commensurate with the cellular environment (temperature, ionic conditions and tonicity, physical deformation or cytoplasmic ‘crowding’), and the incorporation of additional proteins, RNA or DNA molecules or posttranslational modifications (Mitrea and Kriwacki 2016; Banani et al. 2017; Shin and Brangwynne 2017; Alberti 2017; Alberti et al. 2019; Gomes and Shorter 2019; Sehgal 2019; Davis et al. 2018,2019; Sehgal et al. 2020a, b; Du and Chen 2018; Milovanovic et al. 2018; Delarue et al. 2018; Boke et al. 2016; Sabari et al. 2018; Ditlev et al. 2018; Rai et al. 2018; Boeynaems et al. 2019; Ma and Mayr 2018). Indeed, DNA and RNA molecules specifically participate in the assembly of such cytoplasmic and nuclear condensates and in their function (Mitrea and Kriwacki 2016; Banani et al. 2017; Shin and Brangwynne 2017; Alberti 2017; Alberti et al. 2019; Gomes and Shorter 2019; Du and Chen 2018; Milovanovic et al. 2018; Delarue et al. 2018; Boke et al. 2016; Sabari et al. 2018; Ditlev et al. 2018; Ma and Mayr 2018). Moreover, in many instances the dynamic assembly, disassembly and reassembly of such condensates within a cell compartment is regulated during differentiation, cell cycle, stress and under pathological conditions (reviewed in Rai et al. 2018; Gomes and Shorter 2019; Sehgal 2019; Sehgal et al. 2020a). Collectively, such condensates form a hierarchy of distinct membraneless organelles (MLOs) in the cytoplasm and nucleus which serve distinct cellular functions.

Different Mx GTPase protein family members form biomolecular condensates in different subcellular compartments

The Mx proteins are now established as the major antiviral effectors of Type I (IFN-α/β) and Type III (IFN-λ), but not Type II (IFN-γ) interferons (Kochs et al. 2002; Haller and Kochs 2002; Haller et al. 2007,2015; Verhelst et al. 2013) (figure 5). The Mx proteins are now recognized to inhibit a broad spectrum of RNA- and DNA-containing viruses (Haller and Kochs 2002; Haller et al. 2015,2018; Verhelst et al. 2013). Mx proteins are large dynamin-family GTPases of size 60–70 kDa which readily multimerize into rings and filaments and contain intrinsically disordered regions (e.g. the L4 loop) which contribute to multimerization (figure 5) (Haller et al. 2015). There are two human Mx proteins (MxA and MxB) and two murine Mx proteins (Mx1 and Mx2) of different antiviral activities and different subcellular localizations – cytoplasmic vs. nuclear (table 1, figure 5). To clarify the nomenclature of the Mx protein family we adopt the gene lineage tracing presented by Busnadiego et al. (2014) and Haller et al. (2015) as follows: most mammalian Mx proteins are formed from two distinct gene lineages (MxA or MxB) that arose from an ancient duplication event. Thus, humans have two Mx proteins – MxA and MxB (some investigators call these as human Mx1 and human Mx2 respectively although the terms Mx1 and Mx2 are correctly reserved for murine Mx proteins). Although mice also have two Mx genes – Mx1 and Mx2, both these are paralogous members of the human MxA lineage. Thus, human MxB (which is also called human Mx2 by some investigators) and murine Mx2 are not orthologous. We use the terms MxA or HuMxA for the human protein, and Mx1 or MuMx1 for the orthologous murine protein. Parenthetically, rats have three Mx proteins Mx1, Mx2 and Mx3 (Haller et al. 2015). Rat Mx1 and rat Mx2 are orthologs of human MxA, have antiviral activity and form nuclear and cytoplasmic granules respectively, while rat Mx3 is diffuse in the cytoplasm and lacks antiviral activity.

Figure 5.

Key features of the structure of MxA monomers and oligomers. Panels A and B, schematic and 3D structure of respective color-coded domains in MxA GTPase monomers. The GTPase G domain forms the head group, the Stalk consists of three α helices which help drive oligomerization, while the BSE hinge region is made up of α-helices from three different portions of the MxA sequence (labelled ‘B’ in Panel A. L4 (single arrow) represents the polylysine intrinsically disordered domain (IDR), while the double arrow points to a disordered domain at the N terminus. Panel C, Structure of MxA oligomers (linear or ring shaped) formed in cell-free assays driven by the stalk filaments and by the L4 loops (arrow). Panel D, Space-filling model of the MxA monomer highlighting the exposed location of the L4 IDR region (arrow). Panel E, Comparison of the sequences of the IDR loop L4 in HuMxA and MuMx1.

Modified from Haller et al. (2015) with permission.

Human MxA forms cytoplasmic structures while murine Mx1 mainly forms nuclear bodies (table 1; figure 6; Haller and Kochs 2002; Kochs et al. 2002; Engelhardt et al. 2004; Haller et al. 2015; Sehgal et al. 2020b). The molecular mechanisms of the Mx antiviral effects are incompletely understood; these effects include inhibition of early and late viral transcription and viral replication, as well as effects at the level of the transit of viral components through the nuclear pore (Haller and Kochs 2002; Verhelst et al. 2013; Haller et al. 2015; Steiner and Pavlovic 2020). It is only in the last 3 years that we recognized that human MxA formed metastable membraneless biomolecular condensates in the intact-cell cytoplasm, and only in the last year that murine Mx1 formed biomolecular condensates mainly in the nucleus, but also in the cytoplasm in some cells (figure 6; reviewed in Sehgal et al. 2020a, b). Both the cytoplasmic HuMxA bodies and nuclear MuMx1 bodies comprised phase-separated membraneless organelles (MLOs) with a gel-like internal consistency (as tested using fluorescence recovery after photobleaching (FRAP) methods) (Davis et al. 2019; Sehgal et al. 2020a, b). Additionally, HuMxB forms cytoplasmic membraneless structures juxtaposed to the cytoplasmic side of nuclear pores (Table 1) (King et al. 2004; Goujon et al. 2013; reviewed in Sehgal et al. 2020b; Steiner and Pavlovic 2020).

Figure 6.

Comparison of subcellular localization of human GFP-MxA with murine GFP-Mx1 in two different cell lines. Cultures of Huh7 hepatoma and Mich-2H6 melanoma cells in 35 mm plates were transiently transfected with expression vectors for human GFP-MxA or murine GFP-Mx1, fixed using 4% paraformaldehyde 2 days later, additionally stained with DAPI to visualize the nuclei, and imaged using two-color fluorescence. The figure illustrates representative cells. None of the cells transfected with human GFP-MxA vector showed any MxA in nuclei; 70–80% of Huh7 cells transfected with GFP-Mx1 showed only nuclear Mx1 (for cells with cytoplasmic GFP-Mx1 structures see figures 7 and 8); almost all of Mich-2H6 cells transfected with GFP-Mx1 showed only nuclear GFP-Mx1 bodies. Scale bars = 10 µm. From Sehgal et al. (2020b).

Remarkably, it is also now recognized that replication/maturation of many viruses also involves phase-separated liquid droplets [e.g. vesicular stomatitis (VSV), rabies (Negri bodies), influenza A, Ebola, measles, Epstein-Barr, and even SARS-CoV-2 viruses] (reviewed in Sehgal et al. 2020a, b). It is noteworthy that MxA cytoplasmic condensates in virus infected cells incorporate respective viral nucleocapsid proteins (table 1) (Kochs et al. 2002; Davis et al. 2019; reviewed in Sehgal et al. 2020a, b). Overall, human MxA forms disparate membraneless structures solely in the cytoplasm and has antiviral activity towards several RNA- and DNA-containing viruses including orthomyxo- and rhabdoviruses (Haller et al. 2015; Sehgal et al. 2020a, b). Human MxB is mainly associated with the cytoplasmic side of nuclear pores (through an N-terminal nuclear localization signal, NLS) and additional cytoplasmic membraneless structures. Full-length MxB has antiviral activity against HIV and other lentiviruses, and herpesviruses by blocking entry of viral components into the nucleus, but not against influenza A virus (FLUAV) (King et al. 2004; Goujon et al. 2013; reviewed in Haller et al. 2015 and in Steiner and Pavlovic 2020). However, ectopic expression of genetically modified MxB targeting it to the cytoplasm (using the N-terminal 43 amino acid segment from MxA) or nucleus (using the T-antigen NLS) renders MxB antiviral towards FLUAV (Steiner and Pavlovic 2020).

Murine Mx1 is mainly in nuclear bodies (it has a ‘weak’ C-terminal NLS, Zürcher et al. 1992a, b, c), while murine Mx2 is mainly in cytoplasmic structures (Zürcher et al. 1992c; Haller et al. 2015). In terms of antiviral activity, the nuclear murine Mx1 has antiviral activity towards influenza virus (FLUAV) (which has an obligate nuclear transcription step) but not vesicular stomatitis virus (VSV) (replicates entirely in the cytoplasm), while the cytoplasmic granular murine Mx2 has antiviral activity towards VSV but not FLUAV (Haller et al. 2015; table 1). Curiously, the nuclear-predominant rat Mx1 has antiviral activity towards both FLUAV and VSV, while the cytoplasmic-predominant rat Mx2 is antiviral towards VSV only (Verhelst et al. 2013; Haller et al. 2015). Rat Mx3, which is mainly dispersed in the cytoplasm, has little apparent antiviral activity (Verhelst et al. 2013; Haller et al. 2015). Although murine Mx1 artificially deleted of its C-terminal NLS is cytoplasmic it remains inactive against VSV (Zürcher et al. 1992a, 1992b). In contrast, wild-type GFP-MuMx1 expressed in human hepatoma Huh7 cells associates with cytoplasmic intermediate filaments and now shows antiviral activity against VSV (Sehgal et al. 2020b, table 1 and figures 7 and 8 below). Thus, the different subcellular localizations of MLOs of different Mx proteins contribute to their respective antiviral activities. Our overall focus is to understand the formation, dynamics and function of different antiviral Mx biomolecular condensates. The objective is to move the field of antiviral Mx proteins into the realm of phase-separated membraneless organelles (MLOs) and biomolecular condensates, and set the stage for detailed proteomics studies in the future of the composition of Mx condensates.

Figure 7.

Spherical nuclear, spherical cytoplasmic and filamentous cytoplasmic condensates of murine GFP-Mx1. Cultures of Huh7 cells in 35 mm plates were transiently transfected with the expression vector for murine GFP-Mx1. Two days later the cultures were fixed using 4% paraformaldehyde, permeabilized using the 0.05% Triton buffer, and stained with DAPI to visualize the nuclei, and imaged using two-color fluorescence. Approximately 20–30% of transfected cells showed cytoplasmic murine GFP-Mx1 as shown in Panels A, B and C. Panel A shows two adjacent cells – one showing GFP-Mx1 exclusively in nuclear bodies and one cell with GFP-Mx1 present extensively in cytoplasmic filaments and cytoplasmic structures. Panel B shows adjacent cells – one with extensive cytoplasmic filaments and cytoplasmic bodies (arrows) of GFP-Mx1 and the other showing a nucleus with only nuclear GFP-Mx1 bodies (at lower edge). Panel C shows a cell with both nuclear GFP-Mx1 bodies and cytoplasmic filaments.

Modified from Sehgal et al. (2020b).

Figure 8.

Differences in subcellular localization of MuGFP-Mx1 condesnates (in cytoplasm vs. nucleus) affects antiviral activity towards VSV. Huh7 cells (approx. 2 × 10⁵) per 35 mm plate, transfected with the GFP-HuMxA (as a positive control) or GFP-MuMx1 expression vectors 2 days earlier, were replenished with 0.25 ml serum-free Eagle’s medium and then 20 µl of a concentrated VSV stock of the wt Orsay strain added (corresponding to multiplicity of infection >10 plaque forming units/cell). The plates were rocked every 15 min for 1 hr followed by addition of 1 ml of full culture medium. The cultures were fixed with 4% paraformaldehyde at 4 hr after the start of the VSV infection and the extent of VSV N protein expression in individual cells evaluated using immunofluorescence methods (using the mouse anti-N mAb) and Image J for quantitation. Panels A, B and C illustrate representative cells showing the absence of any GFP, or the appearance of cytoplasmic GFP-HuMxA, nuclear GFP-MuMx1 or cytoplasmic GFP-MuMx1 and the corresponding level of expression of viral N protein (thick arrows point to cells displaying an antiviral effect). All scale bars = 20 μm. Panel D, enumerates N protein expression in various classes of cells shown in Panels A, B and C imaged at identical exposure settings and expressed in arbitrary fluorescence units (AU) per cell. n= number of cells evaluated per group in this experiment (for this evaluation cells with only cytoplasmic Mx1 were combined with cells with both cytoplasmic and nuclear Mx1); vertical columns depict Mean ±SE. Statistical significance was evaluated using ANOVA (Kruskal-Wallis with Dunn’s post-test for multiple comparisons); * P < 0.01; ** P < 0.001; ns, not significant (P > 0.05).

Adapted from Sehgal et al. (2020b).

Metastability of biomolecular condensates of Mx proteins

Cytoplasmic human MxA condensates and nuclear murine Mx1 condensates (figure 6) comprised dramatically metastable (shape-changing) phase-separated MLOs (Davis et al. 2018,2019; Sehgal et al. 2020a, b; table 1). These GFP-MxA and GFP-Mx1 condensates were disassembled by 1,6-hexanediol (and were thus liquid-like phase separated structures) (Davis et al. 2019). Disassembly of nuclear GFP-Mx1 bodies by hexanediol was than that of cytoplasmic GFP-MxA bodies (Sehgal et al. 2020b). Both cytoplasmic GFP-MxA and nuclear GFP-Mx1 condensates showed a gel-like internal consistency in FRAP assays with approximately 18–20% internal mobility) (Davis et al. 2019; Sehgal et al. 2020b). Importantly, IFN-α-induced endogenous MxA in human cells also formed cytoplasmic condensates (Davis et al. 2018,2019; Sehgal et al. 2020a).

As another aspect of their metastability, both cytoplasmic GFP-MxA condensates and nuclear GFP-Mx1 condensates were disassembled by exposing cells to hypotonic buffer (ELB), and then reassembled upon shifting cells to isotonic buffer (figure 4; Davis et al. 2019; Sehgal et al. 2020b). This hypotonicity-driven disassembly/metastability is reminiscent of conditions of cells with intracellular edema. This metastability was also observed for GFP-Mx1 nuclear condensates in homologous murine cells (NIH 3T3) (Sehgal et al. 2020b). We interpret hypotonic disassembly/isotonic reassembly as resulting from rapid cytoplasmic uncrowding and recrowding mechanisms (i.e. responsive to cytoplasmic swelling and its reversal) (Davis et al. 2019; Sehgal et al. 2020a, b).

Live-cell imaging confirmed that spherical cytoplasmic MxA condensates underwent homotypic fusion (Davis et al. 2019). There was further metastability in terms of a spherical to filamentous change when cells were exposed to physical compression and/or hypoxia (by placement on a coverslip on live cells), nitric oxide scavenging (by c-PTIO) or inhibition of GTPase activity (by dynasore) (Davis et al. 2019). The unanswered question at the moment is whether these changes influence antiviral activity.

Heterogeneity of condensates of Mx proteins

As with stress granules (Ditlev et al. 2018; Shiina 2019), there is structural heterogeneity in cytoplasmic MxA condensates, especially the presence of a detergent (saponin) resistant core in some condensates (Davis et al. 2019). MxA condensates disassembled upon saponin permeabilization of the plasma membrane of cells consistent with an ‘uncrowding’ mechanism regulating MxA condensate structure. Additionally, 20–30% of cells retained saponin-resistant ‘cores’ of GFP-MxA condensates (Davis et al. 2019). Thus, in future studies, we shall follow the paradigm established in studies of stress granule components (Banani et al. 2017; Ditlev et al. 2018; Alberti et al. 2019; Shiina 2019), by first identifying components of MxA condensate cores, before exploring the more transient association of other client proteins with these structures.

While human GFP-MxA structures were exclusively cytoplasmic, and murine GFP-Mx1 structures mainly nuclear (as in figure 6), a subset of cells (in human Huh7 and murine NIH3T3 cell lines) transiently expressing MuGFP-Mx1 showed accumulation of this protein in cytoplasmic bodies and filaments (figure 7) (Sehgal et al. 2020b). This formation of cytoplasmic GFP-Mx1 structures was not a consequence of overexpression of the recombinant protein but occurred even when there was only low level of expression of GFP-Mx1 (Sehgal et al. 2020b). In Huh7 cells, these cytoplasmic filaments of GFP-Mx1 consisted of vimentin-positive intermediate filaments (Sehgal et al. 2020b). The possibility that, in contrast to GFP-HuMxA structures which lie adjacent to intermediate filaments (figure 3A), the GFP-MuMx1 might be part of the structure of intermediate filaments remains open.

This heterogeneity of subcellular location of MuGFP-Mx1 condensates was reflected in differences in antiviral properties (Sehgal et al. 2020b). Using single-cell-based assays for antiviral activity towards VSV, on the one hand we were able to confirm that cytoplasmic human MxA was antiviral towards VSV, but that nuclear murine Mx1 was not (figure 8). On the other hand, cells exhibiting cytoplasmic filamentous wild-type MuGFP-Mx1 had an antiviral effect against VSV (figure 8). These data emphasize the occurrence of a broader antiviral spectrum of Mx proteins in different cell types based upon the subcellular cytoplasmic compartment in which the respective Mx proteins form condensates (Haller et al. 2015; Sehgal et al. 2020b; also see Steiner and Pavlovic 2020 for MxB).

Comments

Overall, our new data show that (a) both human MxA and murine Mx1 give rise to metastable phase-separated biomolecular condensates, albeit in different subcellular compartments (cytoplasm vs. nucleus respectively), (b) when in the cytoplasm, both human MxA and murine Mx1 can associate with intermediate filaments, and (c) both human MxA and murine Mx1 when cytoplasmic exhibit an antiviral activity towards VSV – a rhabdovirus which replicates and matures entirely in the cytoplasm (table 1). The data showing the close relationship between membraneless MxB structures and nucleoporins on the cytoplasmic face of nuclear pores and the involvement of MxB in regulating cargo transit through the pore channel (King et al. 2004; Goujon et al. 2013; reviewed in Steiner and Pavlovic 2020) allow us to now suggest that MxB structures at and near nuclear pores also represent phase-separated biomolecular condensates (table 1; Sehgal et al. 2020b).

Murine Mx1 typically shows antiviral activity towards influenza A virus (FLUAV) and other orthomyxoviruses which require a nuclear step in their replication, but not towards rhabdoviruses such as VSV which replicate entirely in the cytoplasm (Verhelst et al. 2013; Haller et al. 2015) (table 1). In contrast, functional murine Mx2 (isolated from feral mice) was observed to display an antiviral activity towards VSV but not FLUAV (Verhelst et al. 2013; Haller et al. 2015). Commensurately, while murine Mx1 was observed to be in nuclear bodies, murine Mx2 was observed to be mainly in granular cytoplasmic structures (Haller et al. 2015), which might perhaps also represent biomolecular condensates (table 1). Moreover, we observed that a subset of cells expressing murine GFP-Mx1 express this protein in cytoplasmic bodies and filaments. Using single-cell-based assays for VSV replication we discovered that cells that expressed cytoplasmic wild-type GFP-Mx1, but not those exhibiting only nuclear GFP-Mx1 condensates, displayed an antiviral effect against this virus – a virus which replicates solely in the cytoplasm.

Mutational studies of human MxA show that the GTPase activity is required for most of its antiviral activity (except that against hepatitis B virus) (Haller et al. 2015; Dick et al. 2015; Nigg and Pavlovic 2015; Steiner and Pavlovic 2020). Data in the literature also reveal that MxA mutants lacking GTPase activity can still form cytoplasmic condensates (Dick et al. 2015; Nigg and Pavlovic 2015). Mutations that cause dispersal of MxA in the cytoplasm (e.g. the D250N mutant) lacked antiviral activity (Dick et al. 2015; Steiner and Pavlovic 2020). The R645 point mutant of MxA, which was in larger cytoplasmic granules, had the unusual property of inhibiting FLUAV but not VSV, even though the wt MxA showed antiviral activity towards both viruses (Zürcher et al. 1992b). A mutational analysis of rat Mx2 showed that mutants that formed ‘granular’ cytoplasmic structures exhibited antiviral activity towards VSV, while those that were ‘diffuse’ in the cytoplasm did not (Zürcher et al. 1992c). These data suggest that condensate formation may be important but not sufficient for the antiviral activity of Mx proteins.

The hypotonicity-driven disassembly of Mx protein condensates in live cells (figure 4; Davis et al. 2019; Sehgal et al. 2020b) highlight an unusual aspect of Mx protein chemistry. The biochemical basis for this hypotonicity driven disassembly may reflect the effect of cytoplasmic ‘crowding’ on higher-order protein structure or rapid changes due to hypotonicity-triggered post-translational modifications.

At this time there are many unanswered questions related to the biochemical mechanisms involved in the formation and metastability of Mx condensates in the cell cytoplasm and the nucleus. The structural contributions of intrinsically disordered domains (IDRs) in Mx proteins (the L4 loop and the N-terminal region; figure 5) to condensate formation remain to be investigated. The relationship between condensate formation and antiviral activities remains unclear. Nevertheless, it is already clear that subcellular localization of Mx condensates is an important determinant of antiviral specificity. The key paradigm shift in the last three years has been to move the Mx field away from the widely prevalent interpretation that MxA associates with intracellular membranes (e.g. the endoplasmic reticulum) towards consideration of Mx structures as membraneless organelles (MLOs).