Lysosomal Hydrolase Cathepsin D Non-proteolytically Modulates Dendritic Morphology in Drosophila

The main lysosomal protease cathepsin D (cathD) is essential for maintaining tissue homeostasis via its degradative function, and its loss leads to ceroid accumulation in the mammalian nervous system, which results in progressive neurodegeneration. Increasing evidence implies non-proteolytic roles of cathD in regulating various biological processes such as apoptosis, cell proliferation, and migration. Along these lines, we here showed that cathD is required for modulating dendritic architecture in the nervous system independent of its traditional degradative function. Upon cathD depletion, class I and class III arborization (da) neurons in Drosophila larvae exhibited aberrant dendritic morphology, including over-branching, aberrant turning, and elongation defects. Re-introduction of wild-type cathD or its proteolytically-inactive mutant dramatically abolished these morphological defects. Moreover, cathD knockdown also led to dendritic defects in the adult mushroom bodies, suggesting that cathD-mediated processes are required in both the peripheral and central nervous systems. Taken together, our results demonstrate a critical role of cathD in shaping dendritic architecture independent of its proteolytic function. Electronic supplementary material The online version of this article (10.1007/s12264-020-00479-6) contains supplementary material, which is available to authorized users.


Introduction
Endosome/lysosomes are key organelles in eukaryotic cells, containing a wide variety of hydrolases responsible for the turnover of macromolecules. Among the lysosomal hydrolases, cathepsin D (cathD) is the main acidic hydrolase responsible for nonspecific protein degradation [1]. Although other lysosomal hydrolases may replace cathD to mediate proteolysis, cathD-knockout mice exhibit serious and systemic abnormalities before death around postnatal day 26 [2], suggesting a unique role of cathD that differs from other lysosomal proteases.
Beyond its traditional role in proteolysis, increasing evidence indicates that cathD has distinct functions independent of its proteolytic activity [3]. For instance, both mature cathD and its proteolytically-inactive mutant (cathD D231N ) promote apoptosis, cell proliferation, and migration [4][5][6]. Intriguingly, cathD also exists outside endosome/lysosomes, where the pH is far beyond the optimal range for its canonical proteolytic action [7][8][9]. These findings suggest that cathD exerts non-proteolytic activities that control normal cellular processes.
CathD is required for maintaining homeostasis in the central nervous system (CNS). Reduction of the protein level or the proteolytic activity of cathD leads to mental and motor deterioration in humans. Similarly, cathDdeficient mice exhibit rapidly progressive neurodegeneration [10,11] with symptoms including seizures, ataxia, and visual disturbances. On the one hand, the neurological disorders induced by cathD depletion are accompanied by the lysosomal storage of undigested materials [10,12], suggesting that cathD modulates neuronal metabolism via its proteolytic action. On the other hand, as cathD may nonproteolytically modulate various cellular processes [2,5,13], it is possible that it also regulates CNS homeostasis via non-proteolytic actions.
In contrast to other species, Drosophila has a normal life-span upon cathD depletion [12], making it available for investigation at different life stages. In this study, we used larval and adult Drosophila to investigate the regulatory role of cathD in neurodevelopment.

In Vivo Imaging of Larval Sensory Neurons
After anesthesia with diethyl ether for 5-10 min, individual larvae at 120 h after egg laying were placed on a glass slide and covered with Halocarbon oil 700 (Sigma, St. Louis, MO). Then a coverslip with a plastic spacer was gently placed on top of the larva for immobilization. To visualize class I and class III da neurons, image stacks from the dorsal region of segment A3 at a step size of 1 lm were acquired using a confocal microscope (FV1200, Olympus, Tokyo, Japan) with a 209, 0.75 NA objective. These stacks were subsequently projected to final 2-D images avoiding loss of dendritic branches in optical sectioning. For image quantification, the length of a dendrite was measured using the NeuronJ plugin of ImageJ (ImageJ 1.52p, NIH, Bethesda, MD), and dendritic branching was determined using the Sholl Analysis plugin of ImageJ. Dendritic angles were measured using the 'Angle' tool in ImageJ. Aberrant turning of dendrites was defined and categorized as clear turning (angles \90°) during dendrite elongation.

Dissection and Imaging of Adult MBs
The brains of flies with GFP-labeled MBs were dissected from fixed adults 3-5 days after eclosion and further prepared for imaging as previously described [14,15]. Image stacks of MBs were acquired at a step size of 0.47 lm using a confocal microscope (Olympus, FV1200) equipped with 609, 1.2 NA and 209, 0.75 NA objectives. All image stacks were de-convolved with Huygens Professional version 19.04 (Scientific Volume Imaging, Hilversum, The Netherlands), and then reconstructed using Imaris software (Bitplane, South Windsor, CT). Volumes of Kenyon cell (KC) somata and their calyces were calculated from area measurements using ImageJ.

Statistical Analysis
Data were analyzed using GraphPad Prism 8.0 (GraphPad Software Inc., San Diego, CA). Statistical methods and results are summarized in Table S1. Data are presented as the mean ± SEM. P \ 0.05 was considered to be statistically significant.

CathD Regulates Dendritic Architecture in Sensory Neurons
To assess the potential role of cathD in dendritic morphogenesis, we first analyzed the effects of cathD depletion on class III da neurons, whose dendrites are characterized by short, filopodia-like protrusions emanating from primary branches [16,17]. Driven by specific 19-12-Gal4, ddaA and ddaF class III da neurons were labeled with GFP in cathD-depleted (cathD 1 ) larvae, allowing subsequent observation and assessment of dendritic morphology. Compared with controls, loss of cathD induced a complicated morphology featuring rich filopodia-like protrusions in both ddaF and ddaA neurons (Fig. 1A). Detailed analysis showed that cathD depletion increased the number of terminal protrusions and decreased the primary branch length, without affecting the total dendritic length in ddaF neurons ( Fig. 1E-G). Similar phenotypes were observed in ddaA neurons ( Fig. 1B-D). These data suggest that cathD promotes dendritic elongation and controls dendritic branching in both ddaA and ddaF class III da neurons.

CathD Non-proteolytically Controls Dendritic Architecture in ddaD Neurons
We next confirmed the regulatory role of cathD in ddaD class I da neurons that exhibit a simple branching pattern. Upon cathD depletion, the dendrites of ddaD neurons presented a more complicated morphology with more aberrant features, whereas reintroduction of wild-type or proteolytically-inactive cathD largely restored the normal phenotype in cathD-depleted ddaD neurons ( Fig. 2A). Similar to the phenotypes in cathD-deficient class III da neurons, cathD depletion increased dendritic branching and terminal protrusions in ddaD class I neurons, and this was rescued by the re-introduction of wild-type (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) (Fig. 2B, C). Sholl analysis revealed that cathD depletion increased the number of dendritic intersections proximal to the soma (Fig. 2D). Without affecting the length of primary dendritic branches (Fig. 2E), cathD depletion decreased the length of secondary dendrites, and increased the length of tertiary dendrites, both of which were restored by expressing cathD wt or cathD D231N (Fig. 2F, G). These results suggest a non-proteolytic role of cathD in regulating dendritic architecture.
We found that cathD depletion induced acute turning of dendrites in ddaD neurons (Fig. 3A). A similar phenotype also occurred upon overexpression of an actin mutant that favored polymerization (actin G15S ), but was rarely seen upon overexpression of an actin mutant inhibiting actin assembly (actin R62D ) [18][19][20], suggesting an over-stabilization state of the actin cytoskeleton in cathD-depleted ddaD neurons (Fig. 3A). Compared with control ddaD neurons, cathD depletion or expression of the actin G15S mutant enhanced turning features in dendrites, while the expression of actin R62D showed a less marked effect. Notably, re-introduction of wild-type or proteolyticallyinactive cathD rescued the aberrant turning in ddaD neurons (Fig. 3B). In addition, cathD depletion and overassembly by actin G15S overexpression increased the percentage of dendrites with acute turns, which was rescued with both cathD wt and cathD D231N (Fig. 3C). These results suggest that cathD modulates dendritic architecture, especially dendritic branching and turning, independent of its proteolytic activity.

CathD Shapes the Dendritic Architecture of ddaE Neurons Independent of Its Proteolytic Activity
A non-proteolytic role of cathD in dendritic morphogenesis was also found in ddaE class I da neurons. Compared with wild-type controls, cathD deletion increased the dendritic complexity of ddaE neurons, with extensive and tangled branches adjacent to the soma, which was rescued upon expression of wild-type or proteolytically-inactive cathD (Fig. 4A). Similar to the phenotype in ddaD neurons (Fig. 2), loss of cathD markedly increased the branch number, terminal protrusions, and dendritic intersections (Fig. 4B-D). Furthermore, cathD depletion increased the branch length in tertiary dendrites, without altering it in primary and secondary dendrites of ddaE neurons (Fig. 4E-G). In addition, wild-type and proteolyticallyinactive cathD both rescued these morphological defects ( Fig. 4B-G), supporting a non-proteolytic role of cathD in regulating dendritic morphogenesis.

CathD Controls Mushroom Body Morphogenesis
We next determined whether cathD regulates neuronal morphogenesis in the CNS of Drosophila. Located in the dorsal cortex, MBs are composed of Kenyon cells (KCs) and their processes [21,22]. Driven by OK107-Gal4, cathD expression was silenced by cathD-specific RNA interference (RNAi) in MBs. Upon cathD knockdown, decreased volume of the cell bodies and increased GFP intensity in the dendritic regions (calyx) were observed in KCs (Fig. 5A, B). Meanwhile, the axonal projections of cathD-knockdown KCs (a/b/c lobes of MBs) appeared similar to wild-type controls (Fig. 5C), suggestive of a selective regulation by cathD during MB development.
Further analysis revealed that cathD knockdown decreased the coverage of KC somata atop the calyx, accompanied by a decrease in the number of KCs (Fig. 5D-F), suggesting that cathD directly controls neuronal development in the CNS. Moreover, compared with the cell body region, the fluorescence intensity of the calyx was dramatically increased upon cathD knockdown (Fig. 5G), implying an overgrowth of dendritic processes in the MBs. These data demonstrate that cathD plays a crucial role in MB morphogenesis, especially for KCs and their dendrites.
Rab7 is a small GTPase that is required for cathD maturation by facilitating lysosome fusion and acidification [23]. We next applied specific Rab7-RNAi to suppress Rab7 expression and inhibit cathD maturation, thus reducing the proteolytic activity of cathD in MBs. Intriguingly, no change was observed in MBs upon knockdown of Rab7 (Fig. 6A, B), raising the possibility that cathD regulates MB morphology independent of its proteolytic Fig. 2 CathD non-proteolytically regulates the dendritic morphogenesis of ddaD neurons. A Representative images of 2-21-Gal4, UAS-mCD8-GFP-labeled ddaD class I da neurons upon re-introduction of wild-type cathD (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) in the cathD-deficient (cathD 1 ) background (scale bar, 50 lm). B Quantification and distribution of dendritic branches of different orders, showing that expression of the wild-type (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) reduces dendritic branching in the cathD-deficient (cathD 1 ) background. C Quantification of terminal protrusions in ddaD neurons, showing that expression of the wild-type (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) restores the over-branching phenotype in terminals with cathD-deficiency (cathD 1 ). D Sholl analysis of dendrites of ddaD neurons with the indicated genotypes showing significant differences between control and cathD-deficient (cathD 1 ) neurons in the number of dendritic intersections at 50-60 lm from the soma, which is abolished by re-introduction of wild-type (cathD wt ) or proteolytically-inactive (cathD D231N ) cathD. E-G Quantification of dendritic branch length in primary (E), secondary (F), and tertiary dendrites (G), showing the rescue effects of both wild-type (cathD wt ) and proteolytically-inactive (cathD D231N ) cathD in the cathD-deficient (cathD 1 ) background. Data are shown as the mean ± SEM; *P \ 0.05, **P \ 0.01, ***P \ 0.001, two-way ANOVA or one-way ANOVA with Tukey's multiple comparisons test. activity. Furthermore, overexpression of over-stabilized actin (G15S) and knockdown of cofilin phosphatase slingshot (ssh) both reduced the number of KCs and increased the fluorescent intensity of the calyx (Fig. 6A,  B), similar to the phenotype caused by cathD deficiency (Fig. 5). Detailed analysis indicated that overexpression of actin G15S or ssh significantly decreased the coverage of KC somata atop the calyx and the number of KCs, but increased the fluorescence intensity of the calyx (Fig. 6C-E), sharing defects similar to those with cathD depletion (Fig. 5). Together, these results suggest that cathD regulates neuron morphology via an actin-mediated mechanism.

Discussion
A highly-conserved protease in the endosomal/lysosomal system, cathD is well characterized for its degradative function. Besides its traditional proteolytic role, emerging evidence suggests that cathD plays non-proteolytic roles in controlling biological processes [2,4,24,25]. In the present study, we demonstrated that cathD non-canonically modulates neuronal morphogenesis in both larval and adult stages. Although the underlying mechanism remains to be investigated, our study sheds light on a non-canonical function of cathD in nervous system development.
Previous studies have reported that the depletion or inactivation of cathD leads to progressive neuronal lipofuscinosis and neurodegeneration, demonstrating that its showing the expression of wild-type (cathD wt ) or proteolytic-inactive (cathD D231N ) cathD rescued acute turning in the cathD-deficient (cathD 1 ) background. C Distribution heatmap of neuron ratios according to genotype and the minimal turning angle in dendritic branches. Data are shown as the mean ± SEM; **P \ 0.01, ***P \ 0.001, one-way ANOVA with Tukey's multiple comparisons test. Fig. 4 CathD non-proteolytically controls the dendritic morphogenesis of ddaE neurons. A Representative images of 2-21-Gal4, UAS-mCD8-GFP-labeled ddaE class I da neurons in different genotype backgrounds. Compared with wild-type controls, re-introduction of wild-type cathD (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) reduces the aberrant dendrites in cathD-deficient (cathD 1 ) neurons (scale bar, 50 lm). B Quantification and distribution of dendrite branches of different orders in each ddaE neuron. C Quantification of terminal protrusions in ddaE neurons, showing that expression of the wild-type (cathD wt ) or proteolytically-inactive cathD (cathD D231N ) rescues the over-branching phenotype in terminals upon cathD depletion (cathD 1 ). D Sholl analysis of dendrites of ddaE neurons. Note an increase of intersections at 50-60 lm from the soma in cathD-deficient (cathD 1 ) neurons, which is abolished by reintroduction of wild-type (cathD wt ) or proteolyticinactive (cathD D231N ) cathD. E-G Quantification of dendrite branch length in primary (E), secondary (F), and tertiary dendrites (G) in ddaE neurons, showing the rescue effects of both wild-type (cathD wt ) and proteolytically-inactive (cathD D231N ) cathD upon cathD deficiency (cathD 1 ). Data are shown as the mean ± SEM; **P \ 0.01, ***P \ 0.001 by one-way ANOVA with Tukey's multiple comparisons test. proteolytic activity is required for maintaining neuronal homeostasis [2,[10][11][12]. Here, we describe aberrant dendritic features in cathD-deficient Drosophila, including over-branching, aberrant turning, and elongation defects (Figs. 1, 2, 3 and 4), providing novel evidence that cathD regulates neuronal morphogenesis. Differing in dendritic process orientation and dendritic field size, both class I and class III neurons require cathD for normal dendritic architecture ( Figs. 1 and 2), indicating that cathD plays a general role in controlling sensory neuron morphology.  Like wild-type cathD, proteolytically-inactive cathD D231N efficiently rescued the dendritic abnormalities caused by cathD depletion (Figs. 3 and 4), indicating that the regulatory role of cathD in dendritic morphology is independent of its degradative action. Along with previous reports on the non-proteolytic roles of cathD in different biological processes, our results point to a distinct nonproteolytic role of cathD in orchestrating neuronal development. Although further exploration is required to unveil the underlying molecular mechanism, our results show that stabilization of the actin cytoskeleton by the actin G15S mutant results in phenotypes similar to cathD-depleted dendrites (Fig. 3), implying a modulation of actin dynamics by cathD in neurite growth.
Actin dynamics is crucial for neurite turning by controlling the orientation and speed of growth-cone movement [26,27]. Proteomics and bioinformatics studies have demonstrated that cathD deficiency alters the levels of protein associated with the actin cytoskeleton and the organization of cell projections, and leads to aberrant cell adhesion [28]. Therefore, we speculate that cathD regulates dendrite growth via an actin-based process.
Besides sensory neurons in the peripheral nervous system, our results also provide evidence that cathD controls the dendritic arborization of neurons in the CNS. In our observations, cathD knockdown reduced the KC population and promoted dendritic growth in the calyx as shown by dramatically enhanced process intensity in the dendritic region (Fig. 5). In addition, cathD knockdown did not affect the axon region of KCs (Fig. 5). Taken together, our study demonstrates that cathD non-proteolytically regulates neuronal morphogenesis in the central and peripheral nervous systems of Drosophila, with a potential preference for the regulation of dendritic morphogenesis.
The contribution of cathD to organ development appears to become increasingly important during evolution. CathD mutant flies display lysosomal storage disorders with a normal lifespan [12], while cathD-deficient mice exhibit rapidly progressive multi-system degeneration and die around postnatal day 24 [29]. In addition, cathD-deficient infants exhibit severe multiple organ dysfunctions at birth, and only survive up to a few days [30]. These findings suggest that cathD has essential functions orchestrating diverse vital processes and is indispensable in mammalian species. We propose that cathD non-proteolytically modulates a wide set of biological processes beyond its traditional role in protein degradation. The underlying mechanisms and other potential functions of cathD, especially during evolution, merit further exploration.