CCDC113 stabilizes sperm axoneme and head-tail coupling apparatus to ensure male fertility

The structural integrity of the sperm is crucial for male fertility, defects in sperm head-tail linkage and flagellar axoneme are associated with acephalic spermatozoa syndrome (ASS) and the multiple morphological abnormalities of the sperm flagella (MMAF). Notably, impaired head-tail coupling apparatus (HTCA) often accompanies defects in the flagellum structure, however, the molecular mechanisms underlying this phenomenon remain elusive. Here, we identified an evolutionarily conserved coiled-coil domain-containing (CCDC) protein, CCDC113, and found the disruption of CCDC113 produced spermatozoa with disorganized sperm flagella and HTCA, which caused male infertility. Further analysis revealed that CCDC113 could bind to CFAP57 and CFAP91, and function as an adaptor protein for the connection of radial spokes, nexin-dynein regulatory complex (N-DRC) and doublet microtubules (DMTs) in the sperm axoneme. Moreover, CCDC113 was identified as a structural component of HTCA, collaborating with SUN5 and CENTLEIN to connect sperm head to tail during spermiogenesis. Together, our studies reveal that CCDC113 serve as a critical hub for sperm axoneme and HTCA stabilization, providing insights into the potential pathogenesis of infertility associated with human CCDC113 mutations.


Introduction
Male fertility relies on the continuous production of spermatozoa through a complex developmental process known as spermatogenesis.Spermatogenesis involves three primary stages: spermatogonia mitosis, spermatocyte meiosis, and spermiogenesis.During spermiogenesis, spermatids undergo complex differentiation processes to develop into spermatozoa, which includes nuclear elongation, chromatin remodeling, acrosome formation, cytoplasm elimination, and flagellum development (Hermo et al., 2010).The integrity of spermatozoa is essential for their migration through the female reproductive tract and subsequent successful fertilization.An intact spermatozoon contains properly formed sperm head, head-tail coupling apparatus (HTCA), and flagellum (Parker, 2020;Roldan, 2019).
Numerous components have been identified in the sperm HTCA and flagellum that are essential for the sperm integrity (Lehti & Sironen, 2017;Wu et al., 2020).Defects in sperm flagellum and HTCA can lead to reduced sperm motility or abnormal sperm morphology, termed as multiple morphological abnormalities of the sperm flagella (MMAF) or acephalic spermatozoa syndrome (ASS), which, in turn, causes male infertility (Sudhakar et al., 2021;Tu et al., 2020).
The sperm flagellum possesses an evolutionarily conserved axonemal structure composed of "9+2" microtubules, specifically, nine peripheral doublet microtubules (DMTs) surrounding two central microtubules known as the central pair (CP) (Inaba & Mizuno, 2016).Axonemal dyneins, radial spokes (RS), and the nexin-dynein regulatory complex (N-DRC) are arranged on DMTs with a 96-nm repeating unit structures (Kumar & Singh, 2021).Within the axoneme, the N-DRC and RS are crucial for maintaining axonemal integrity, forming crossbridges between adjacent DMTs and linking the DMTs to the central apparatus, respectively (Canty et al., 2021;Ishikawa, 2017;Kumar & Singh, 2021).Recent advancements in artificial intelligence, biochemical techniques, and cryo-electron microscopy (cryo-EM) facilitated the analysis of the axonemal structures, revealing numerous components among RS, N-DRC and DMTs that may serve as hubs for axoneme stabilization (Bazan et al., 2021;Leung et al., 2023;Walton et al., 2023;Zhou et al., 2023).For example, CFAP91 has been identified as a protein that extends from the base of RS2 through the N-DRC base plate to RS3, thus stabilizing RS2 and RS3 on the DMTs (Bicka et al., 2022;Dymek et al., 2011;Gui et al., 2021).Similarly, CFAP57 extends through the N-DRC and interacts with RS3 via its Cterminal region (Ghanaeian et al., 2023).Recent analyses suggest that CCDC96 and CCDC113 may form a complex that extends parallel to the N-DRC, connecting the base of RS3 to the tail of dynein g (IDA g) and the N-DRC (Bazan et al., 2021;Ghanaeian et al., 2023).However, the functions of these proteins in stabilizing the sperm flagellum remain unknown.
The sperm flagellum is tightly anchored to the sperm head through the HTCA, a complex structure based on the centrosome (Wu et al., 2020).This structure consists of two cylindrical microtubule-based centrioles and associated components, including well-organized segmented columns, capitulum plate and basal plate.The segmented columns and capitulum plate, located below the basal plate, are thought to originate from the dense material emanating from the proximal centriole (Fawcett & Phillips, 1969;Zamboni & Stefanini, 1971).Many proteins have been identified in the sperm HTCA, with mouse models exhibiting phenotypes characteristic of acephalic spermatozoa syndrome (Wu et al., 2020).SPATA6 is the first protein identified as a component of the HTCA using the knockout mouse model, and is crucial for its formation (Yuan et al., 2015).Deficiencies in SUN5 (Elkhatib et al., 2017;Fang et al., 2018;Liu et al., 2020;Sha et al., 2018;Shang et al., 2018;Shang et al., 2017;Xiang et al., 2022;Zhang et al., 2021;Zhu et al., 2016) and PMFBP1 (Deng et al., 2022;Liu et al., 2020;Liu et al., 2021;Lu et al., 2021;Nie et al., 2022;Sha et al., 2019;Zhu et al., 2018) have been associated with ASS in both humans and mice.The centriole-related protein CENTLEIN acts as a bona fide linker between SUN5 and PMFBP1, participating in the HTCA assembly (Zhang et al., 2021).Notably, impaired HTCA often coincides with defects in the sperm flagellum (Hall et al., 2013;Shang et al., 2017;Yuan et al., 2015;Zhang et al., 2021;Zhu et al., 2018), suggesting that the stabilization of the HTCA may be closely associated with the integrity of sperm flagellum.However, the mechanism that maintains the stabilization of both the sperm flagellum and the HTCA remains to be clarified.
Here, we identified an evolutionarily conserved coiled-coil domain-containing (CCDC) protein, CCDC113, and found that it forms a complex with CFAP57 and CFAP91, thereby facilitating the connection of RS, N-DRC and DMTs in the axoneme.Knockout of Ccdc113 resulted in spermatozoa with flagellar defects and head-tail linkage detachment, leading to male infertility.Ultrastructural analysis showed that the loss of CCDC113 disrupted both the sperm axoneme and HTCA.CCDC113 localizes on the manchette, HTCA and flagellum in elongating and elongated spermatids.Further analysis revealed that CCDC113 is indispensable for the connection of CFAP91 and DRC2 with DMTs in the sperm axoneme, and it interacts with SUN5 and CENTLEIN to stabilize the sperm HTCA.These results suggest that CCDC113 serves as a critical hub in maintaining the structural integrity of both the sperm flagellum and HTCA.

CCDC113 complexes with CFAP57 and CFAP91
CCDC113 is an evolutionarily conserved coiled-coil domain-containing (CCDC) protein identified in the ciliated species.Comparative analysis of CCDC113 structures from Tetrahymena thermophila to Homo sapiens showed structural similarity among CCDC113 orthologs (Figure 1A).Recent cryo-EM analysis in the structure of the 96-nm modular repeats of axonemes from the Tetrahymena thermophila cilia and human respiratory cilia revealed that CCDC113 localizes to the linker region among RS, N-DRC and DMTs (Figure 1B), suggesting it may serve as a structural component connecting RS, N-DRC and DMTs (Bazan et al., 2021;Ghanaeian et al., 2023).To further investigate, we examined the interactions between CCDC113 and its neighboring axoneme-associated proteins, CFAP57 and CFAP91 (Figure 1B).We transfected HEK293T cells with a GFP-tagged CCDC113 and FLAG-tagged CFAP57 or CFAP91, then performed anti-FLAG-immunoprecipitations.CCDC113 was present in both FLAG-CFAP57 and FLAG-CFAP91 immunoprecipitates (Figure 1C and D), indicating CCDC113 interacts with both CFAP57 and CFAP91.Given that CFAP91 has been reported to stabilize RS on the DMTs (Bicka et al., 2022;Dymek et al., 2011;Gui et al., 2021) and cryo-EM analysis shows that CCDC113 is closed to DMTs, we speculated that CCDC113 may connect RS to DMTs by binding to CFAP91 and microtubules.To test this, we detected the interaction between CCDC113 and β-tubulin (TUBB5) and found that CCDC113 was present in MYC-TUBB5 immunoprecipitate (Figure 1E).Additionally, since CFAP57 extends through the N-DRC and CCDC113 is closed to the N-DRC (Ghanaeian et al., 2023), we further examined the interaction between CCDC113 and N-DRC components adjacent to DMTs.Co-immunoprecipitation (co-IP) analysis showed that CCDC113 could bind to DRC1, DRC2, and DRC3 (Figure 1F-H).We also included two sperm outer dense fiber proteins, ODF1 and ODF2 (Zhu et al., 2022), which are located far from the sperm axoneme, as negative controls in the co-IP experiments.As shown in Figure 1-figure supplement 1A and 1B, neither ODF1 nor ODF2 bound to CCDC113.Therefore, CCDC113 may function as an adaptor protein connecting RS, N-DRC, and DMTs, serving as a critical hub for axoneme stabilization.

CCDC113 is required for male fertility
To investigate the physiological functions of CCDC113, we generated a Ccdc113 knockout mouse strain using the CRISPR/Cas9 system (Figure 2A).The Ccdc113 -/-mice were genotyped by genomic DNA sequencing and further confirmed by polymerase chain reaction (PCR).Genotypes were distinguished by a 539 bp band for Ccdc113 +/+ mice, a 461 bp band for Ccdc113 -/-mice, and two bands of 539 bp and 461 bp for Ccdc113 +/-mice (Figure 2B).
Further immunoblotting analysis confirmed the elimination of CCDC113 in total protein extracts from Ccdc113 -/-testes (Figure 2C; Figure 2-figure supplement 1A).Mice lacking Ccdc113 showed no gross abnormalities in their appearance or behavior, and no obvious differences in body weight (Figure 2H).Additionally, no hydrocephalus or left-right asymmetry defects were observed (Figure 2-figure supplement 1B).Additionally, the deficiency of CCDC113 did not affect ciliogenesis in the lung and trachea (Figure 2-figure supplement 1C-E).We then assessed the fertility of 2-month-old male and female Ccdc113 -/- mice.Ccdc113 -/-female mice were able to produce offspring after mating with wild-type (WT) adult males, similar to Ccdc113 +/+ female mice (Figure 2D).However, Ccdc113 -/-male mice exhibited normal mating behavior, as indicated by the presence of copulatory plugs, they failed to produce offspring when mating with WT adult female mice (Figure 2E).Thus, the knockout of Ccdc113 results in male infertility.

Ccdc113 knockout mice produce spermatozoa with flagellar defects and head-tail linkage detachment
To further investigate the cause of male infertility, we initially examined Ccdc113 -/-testis at both macroscopic and histological levels.Ccdc113 knockout did not affect testis size (Figure 2F and G) or the ratio of testis weight to body weight (Figure 2H and I).Histological sections stained with hematoxylin-eosin (H&E) revealed that seminiferous tubules of Ccdc113 +/+ mice exhibited a tubular lumen with flagella emerging from the developing spermatids.In contrast, flagellar staining appeared reduced in Ccdc113 -/-seminiferous tubules (Figure 2J, red asterisks).Immunofluorescence staining for acetylated tubulin (ac-tubulin), a marker for sperm flagellum (Martinez et al., 2020), further confirmed the flagellar defects in Ccdc113 -/- mice (Figure 2K and L).Subsequently, we examined spermatids at different stages in Ccdc113 -/-testes using periodic acid Schiff (PAS) staining.Pioneering work in the mid-1950s used the PAS stain in histologic sections of mouse testis to visualize glycoproteins of the acrosome and Golgi in seminiferous tubules (Oakberg, 1956).The pioneers discovered in cross-sectioned seminiferous tubules the association of differentiating germ cells with successive layers to define different stages that in mice are twelve, indicated as Roman numerals (XII).For each stage, different associations of maturing germ cells were always the same with early cells in differentiation at the periphery and more mature cells near the lumen.In this way, progressive differentiation from stem cells to mitotic, meiotic, acrosome-forming, and post-acrosome maturing spermatocytes was mapped to define spermatogenesis with the XII stages in mice representing the seminiferous cycle.The maturation process from acrosome-forming cells to mature spermatocytes is defined as spermiogenesis with 16 different steps that are morphologically distinct spermatids (O'Donnell L, 2015).While acrosome biogenesis and nuclear morphology in Ccdc113 -/-spermatids from steps 1 to 10 were comparable to those in Ccdc113 +/+ spermatids, abnormal club-shaped heads were observed in spermatids from steps 11 to 16 in Ccdc113 -/-mice (Figure 3-figure supplement 1A, black asterisk).In addition, the manchette of Ccdc113 -/-spermatids was more elongated compared to that of Ccdc113 +/+ spermatids (Figure 3-figure supplement 1B).Therefore, the disruption of CCDC113 impaired spermiogenesis.
Next, we examined the spermatozoa in the cauda epididymis and found that the sperm count in the Ccdc113 -/-cauda epididymis was significantly decreased compared to the control group (Figure 3A and B).The motility of the released spermatozoa from Ccdc113 +/+ and Ccdc113 -/- cauda epididymis showed that Ccdc113 -/-spermatozoa were completely immotile (Figure 3C).H&E staining of the cauda epididymis showed fewer hematoxylin-stained sperm heads in the Ccdc113 -/-cauda epididymis compared to the Ccdc113 +/+ cauda epididymis.Notably, unlike the control group, which exhibited linear eosin staining in the epididymal lumen, the Ccdc113 -/-mice showed numerous coiled eosin-stained structures without sperm heads in the epididymal lumen (Figure 3A, red circles).To determine the morphological characteristics of the spermatozoa, we conducted single-sperm immunofluorescence using an anti-α/β-tubulin antibody to label the sperm flagellum and lectin peanut agglutinin (PNA) to visualize the sperm acrosome (Nakata et al., 2015).We noticed that Ccdc113 -/-spermatozoa showed severe morphological malformations, including sperm head-tail detachment (type 1), abnormal sperm head with curly tail (type 2), normal sperm head with curly tail (type 3) (Figure 3D and     E).To determine the role of CCDC113 in flagellum assembly, we analyzed flagellum formation during spermiogenesis.We found that in Ccdc113 -/-mice, diffuse and curly axonemal signals were observed in testicular germ cells starting from the round spermatid stage (Figure 3F).Overall, these findings suggest that the deletion of CCDC113 leads to sperm flagellum deformities and detachment of the sperm head-to-tail linkage, resulting in a unique type of acephalic spermatozoa, which may be responsible for the Ccdc113 -/-male infertility.

CCDC113 localizes on the sperm neck and flagellum regions
To gain further insights into the functional role of CCDC113 during spermiogenesis, we examined its expression in different tissues and found that CCDC113 was predominantly expressed in mouse testis (Figure 4-figure supplement 1A and B).CCDC113 was first detected in testis at postnatal day 7 (P7), with expression levels increasing continuously from P21 onward, peaking in adult testes (Figure 4A), suggesting that CCDC113 is highly expressed throughout spermiogenesis.We then conducted immunofluorescence analysis of CCDC113 in Ccdc113 +/+ and Ccdc113 -/-germ cells to determine its precise localization during spermatogenesis.CCDC113 appeared as punctate signals near the nuclei of spermatocyte and round spermatids, and localized to the manchette, sperm neck and flagellum regions in elongating and elongated spermatids (Figure 4-figure supplement 1C).
To further validate these findings, we co-stained CCDC113 with α/β-tubulin, which marks the manchette and flagellum in spermatids (Lehti & Sironen, 2016) (Figure 4B).The immunofluorescence analysis showed that CCDC113 localized to the manchette surrounding the spermatid head from step 9 to step 14, as well as to the sperm neck and flagellum in the testes (Figure 4B).Given that CCDC113 was initially identified as a component of centriolar satellites (Firat-Karalar et al., 2014), the punctate signals of CCDC113 in spermatocyte and spermatids may be localized around the centrosome.To test this, we performed the immunofluorescent staining of CCDC113 and centrosomal protein CENTRIN1/2 in spermatocytes and spermatids, and found that the signal of CCDC113 partially colocalized with CENTRIN1/2 (Figure 4C).Thus, CCDC113 is localized to the centrosome, manchette, sperm neck and flagellum regions in the developing germ cells.
Next, we examined the localization of CCDC113 in mature spermatozoa, and found that CCDC113 was localized in the sperm neck and flagellum regions (Figure 4D).Similar localization of CCDC113 was also observed in human mature spermatozoa (Figure 4E).The consistent localization of CCDC113 at the sperm neck and flagellum in mature spermatozoa suggests its importance for maintaining the integrity of the sperm flagellum and head-to-tail connection.

Ccdc113 knockout results in the disorganization of the sperm flagellum structures
To delineate the sperm flagellar defects in Ccdc113 -/-mice, we conducted transmission electron microscopy (TEM) examination of longitudinal sections of Ccdc113 -/-spermatozoa.
TEM analysis revealed a significant presence of unremoved cytoplasm, including disrupted mitochondria, damaged axonemes, and large vacuoles in Ccdc113 -/-spermatozoa (Figure 5A, red asterisks).Cross sections of the principal piece of Ccdc113 -/-spermatozoa further revealed partial loss or unidentifiable "9+2" axonemal structures, along with the disruption of the fibrous sheath and outer dense fibers (Figure 5A).We further examined the axonemal structure in Ccdc113 -/-testicular spermatids using TEM and found disorganized axonemal microtubules were detected in Ccdc113 -/-testicular spermatids (Figure 5B).In contrast to the regular positioning of the CP and nine peripheral DMTs in the Ccdc113 +/+ spermatid axoneme, the Ccdc113 -/-spermatids exhibited a scattered arrangement of DMTs, and no distinct radial spokes were observed (Figure 5B, red arrowheads).These results indicate CCDC113 is essential for the integrity of sperm flagellum.
CCDC113 has been shown to localize at the base of the RS3 and interact with adjacent axoneme-associated proteins (Figure 1B-H).Given the disorganized "9+2" axonemal structure was detected in cross-sectioned Ccdc113 -/-flagellar specimen (Figure5A and B), we speculated that CCDC113 likely served as an adaptor to connect the neighboring axonemeassociated proteins to DMTs.To test this, we examined the flagellar localization of CFAP91 in Ccdc113 -/-spermatozoa, which is positioned in close proximity to CCDC113 at the root region of RS3 and is critical for the localizations of calmodulin-associated and spokeassociated complex (CSC) proteins CFAP61 and CFAP251 (Bicka et al., 2022;Meng et al., 2024).Immunofluorescence results indicated that the absence of Ccdc113 leads to the abnormal distribution of CFAP91 on the axoneme, where CFAP91 could not colocalize with DMTs.(Figure 5C, white asterisks, E and F).Given that DRC2 serves as the core component of the axonemal N-DRC (Jreijiri et al., 2023) and CCDC113 could bind to DRC2 (Figure 1G), we further examined DRC2 localization in the Ccdc113 +/+ and Ccdc113 -/-spermatozoa.
Immunofluorescence analysis showed that DRC2 exhibited distinct signals that did not colocalize with DMTs of Ccdc113 -/-spermatozoa (Figure 5D, white asterisks, G and H).
These findings collectively indicate that CCDC113 is indispensable for the connection of CFAP91 and DRC2 to the DMTs, which is required for structural integrity of the sperm axoneme.

Ccdc113 knockout impairs head-to-tail anchorage of the spermatids
To explore the mechanism behind acephalic spermatozoa in Ccdc113 knockout mice, we first examined where the flagellum detached from sperm head in Ccdc113 -/-mice.The proportion of decapitated tails in the caput, corpus and cauda of Ccdc113 -/-epididymis was similar (Figure 6A), suggesting the separation of the sperm head and tail in Ccdc113 -/-mice may occur either within the seminiferous tubules or upon entering the caput of the epididymis.To confirm this, we performed PAS staining to examine spermiogenesis stages in Ccdc113 +/+ and Ccdc113 -/-testes (Figure 6B).We found that in Ccdc113 +/+ testes, sperm heads at stages VII-VIII were oriented towards the basal membrane, whereas in Ccdc113 -/-testes, sperm heads were oriented towards the tubule lumen during these stages (Figure 6C, arrows and D), which may be due to the separation of sperm heads from the flagellum during spermiogenesis.
Additionally, mature sperm heads were still present at stages IX-X in Ccdc113 -/-testes, whereas mature spermatozoa were released into the lumen of the seminiferous tubule at stage VIII in Ccdc113 +/+ testes (Figure 6B, red asterisk).These results suggest that the sperm head and flagellum separation may occur during spermiation in the Ccdc113 -/-testes.
Further observation of the HTCA structure revealed the absence of segmented columns and capitulum plate; only dense material surrounding the proximal centriole and basal plate could be detected (Figure 6E, white arrow).The basal plates were abnormally distant from their native implantation site on the nucleus of Ccdc113 -/-elongating and elongated spermatids (Figure 6E).Taken together, our results indicate that the disruption of Ccdc113 causes the destroyed coupling apparatus detachment from the sperm head during spermiogenesis, and CCDC113 is required for the integrity of the sperm HTCA.
GFP-tagged CCDC113 and FLAG-tagged HTCA-associated proteins were co-transfected into HEK293T cells, followed by the immunoprecipitation with anti-GFP antibody.We found that CCDC113 interacted with SUN5 and CENTLEIN, but not with PMFBP1 and SPATA6 (Figure 7A-C and F).We further conducted co-IP assays in the reverse direction and verified that both SUN5 and CENTLEIN could bind to CCDC113 (Figure 7D and E).To investigate the localization of CCDC113 within the HTCA, we co-stained mature spermatozoa with antibodies against CCDC113 and SUN5, which has been reported to be localized at the root connecting the HTCA to the nuclear envelope (Shang et al., 2017;Zhang et al., 2021).
CCDC113 was found positioned below SUN5, showed partial overlap with it (Figure 7G).
The centriolar protein CENTLEIN was localized to the HTCA and served as the critical linker protein between SUN5 and PMFBP1 in the elongating and elongated spermatid (Zhang et al., 2021)).Given that CENTLEIN disappears in mature spermatozoa (Zhang et al., 2021), we performed the immunofluorescent staining of CCDC113 and CENTLEIN in elongated spermatids and found that CCDC113 partially colocalized with CENTLEIN at the HTCA (Figure 7H).Thus, CCDC113 interacts with both SUN5 and CENTLEIN and localizes at the sperm HTCA.
The HTCA localization of CCDC113 may be responsible for maintaining HTCA integrity.To test this hypothesis, we examined the localization of classical HTCA component SPATA6 in Ccdc113 -/-and Ccdc113 +/+ spermatozoa using immunofluorescent staining.We found that SPATA6 was not attached to the implantation fossa of the sperm nucleus in Ccdc113 -/- spermatozoa (Figure 7I and J), indicating that CCDC113 is essential for the integrity of the sperm HTCA.To further elucidate the functional relationships among CCDC113, SUN5, CENTLEIN, and PMFBP1 at the sperm HTCA, we examined the localization of CCDC113 in Sun5 -/-, Centlein -/-, and Pmfbp1 -/-spermatozoa.Compared to the control group, CCDC113 was predominantly localized on the decapitated flagellum in Sun5 -/-, Centlein -/-, and Pmfnp1 - /-spermatozoa (Figure 7K and L), indicating SUN5, CENTLEIN, and PMFBP1 are crucial for the proper docking of CCDC113 to the implantation site on the sperm head.Taken together, these data demonstrate that CCDC113 cooperates with SUN5 and CENTLEIN to stabilize the sperm HTCA and anchor the sperm head to the tail.

Discussion
CCDC113 is a highly evolutionarily conserved component of motile cilia/flagella.Studies in the model organism, Tetrahymena thermophila, have revealed that CCDC113 connects RS3 to dynein g and the N-DRC, which plays essential role in cilia motility (Bazan et al., 2021;Ghanaeian et al., 2023).Recent studies have also identified the localization of CCDC113 within the 96-nm repeat structure of the human respiratory epithelial axoneme, and localizes to the linker region among RS, N-DRC and DMTs (Walton et al., 2023).In this study, we reveal that CCDC113 is indispensable for male fertility, as Ccdc113 knockout mice produce spermatozoa with flagellar defects and head-tail linkage detachment (Figure 3D).CCDC113 is localized to the sperm neck and flagellum regions in the elongating and elongated spermatids.In the sperm flagellum, CCDC113 interacts with both CFAP57 and CFAP91, serving as an adaptor protein to connect RS, N-DRC, and DMTs, thereby stabilizing sperm flagellum.At the sperm head to tail connecting piece, CCDC113 binds to SUN5 and CENTLEIN to stabilize sperm HTCA and anchor the sperm head to the tail.Thus, CCDC113 is essential for maintaining the integrity of both the sperm axoneme and the sperm HTCA.
Recent cryo-EM analysis of the axonemes from Tetrahymena thermophila cilia and human respiratory cilia revealed that CCDC113 is localized at the linker region between RS3, N-DRC and DMTs (Bazan et al., 2021;Ghanaeian et al., 2023).We also found that CCDC113 interacts with adjacent axoneme-associated proteins, CFAP57 and CFAP91 (Figure 1C and     D).CFAP57 has been identified as the adaptor protein responsible for assembling dynein g and d, and it can interact with both N-DRC and RS3 (Ghanaeian et al., 2023;Ma et al., 2023).
Previous studies have demonstrated that CFAP91 extends from the base of RS2 through the N-DRC base plate to RS3, playing a crucial role in stabilizing and localizing RS2 and RS3 on the DMT (Bicka et al., 2022;Dymek et al., 2011;Gui et al., 2021).The CFAP91 ortholog, FAP91, interacts with three N-DRC subunits (DRC1, DRC2, and DRC4), facilitating the docking of the N-DRC in Chlamydomonas (Gui et al., 2021).In humans, pathogenic mutations in CFAP91 and DRC2 disrupt sperm flagellum structure and result in MMAF (Jreijiri et al., 2023;Martinez et al., 2020).TEM and immunostaining experiments in spermatozoa showed severe CP and radial spokes defects in CFAP91 mutant patients (Martinez et al., 2020).In this study, we found that the absence of CCDC113 results in severe axonemal disorganization characterized by defective RSs, scattered DMTs, and misplaced CP.
Further analysis demonstrated that the CCDC113 deficiency disrupts the localization of CFAP91 and DRC2 on DMTs.Thus, CCDC113 may function as an adaptor protein to stabilize CFAP91 and DRC2 on DMTs, facilitating the docking of RS and N-DRC to DMTs and thereby maintaining the integrity of sperm axoneme.
Recent analyses have revealed that certain centrosomal proteins play crucial roles in the assembly and maintenance of sperm HTCA (Avasthi et al., 2013;Liska et al., 2009;Zhang et al., 2021).In early round spermatids, the centriole pair initially localizes to the caudal nuclear pole and expands the electron-dense material, some of which exhibits striation (Wu et al., 2020).As spermatids develop, the dense material around the centrioles gradually transforms into a well-organized structure, clearly identified as the basal plate, capitulum plate and segmented columns (Dooher & Bennett, 1973;Wu et al., 2020).CCDC113 was initially identified through the isolation of centriolar proteins from bovine sperm (Firat-Karalar et al., 2014).During spermiogenesis, CCDC113 colocalizes with CENTRIN1/2 at the centrosome in developing spermatids and continues to localize to the sperm neck region in elongating and elongated spermatids (Figure 4B and C).Additionally, CCDC113 can bind to HTCA associated centrosomal protein, CENTLEIN, and the disruption of Centlein impairs the attachment of CCDC113 to the sperm head.In Ccdc113 -/-spermatids, the capitulum plate and segmented columns are absent, and the basal plate is detached from the implantation site on the nucleus of Ccdc113 -/-elongating and elongated spermatids during spermiogenesis (Figure 6E).These observations raise the possibility that CCDC113 is an HTCA associated centrosomal protein crucial for maintaining the structural integrity of the HTCA.
SUN5 is a transmembrane protein located in the nuclear envelope, and acts as the root connecting the HTCA to the sperm nuclear envelope (Shang et al., 2017).CENTLEIN can directly bind to both SUN5 and PMFBP1, serving as a linker between SUN5 and PMFBP1 to maintain the integrity of HTCA (Zhang et al., 2021).CCDC113 can interact with SUN5 and CENTLEIN, but not PMFBP1 (Figure 7A-C), and left on the tip of the decapitated tail in Sun5 -/-and Centlein -/-spermatozoa (Figure 7K and L).Furthermore, CCDC113 colocalizes with SUN5 in the HTCA region, and immunofluorescence staining in spermatozoa shows that SUN5 is positioned closer to the sperm nucleus than CCDC113 (Figure 7G and H).Therefore, SUN5 and CENTLEIN may be closer to the sperm nucleus than CCDC113.PAS staining revealed that Ccdc113 -/-sperm heads are abnormally oriented in stages V-VIII seminiferous epithelia (Figure6 C and D), and TEM analysis further demonstrated that the disruption of CCDC113 causes the detachment of the destroyed coupling apparatus from the sperm head in step 9-11 spermatids (Figure 6E).All these results suggest that the detachment of sperm head and tail in Ccdc113 -/-mice may not be a secondary effect of sperm flagellum defects.
Overall, we identified CCDC113 as a structural component of both the flagellar axoneme and the HTCA, where it performs dual roles in stabilizing the sperm axonemal structure and maintaining the structural integrity of HTCA.Given that the cryo-EM of sperm axoneme and HTCA could powerfully strengthen the role of CCDC113 in stabilizing sperm axoneme and head-tail coupling apparatus, it a valuable direction for future research.Ccdc113 -/-mice did not exhibit other ciliopathies, such as situs inversus, hydrocephalus, or abnormal ciliogenesis of tracheal cilia (Figure 2-figure supplement 1B-E), which suggests that CCDC113 may specifically function in spermiogenesis.

Phylogenetic analysis and structural similarity analysis
The amino acid sequence of CCDC113 of seven species were downloaded from UniProt.The phylogenetic trees were constructed using MEGA 10.0 (Kumar et al., 2018) with the Neighbor-Joining (NJ) method (Saitou & Nei, 1987).3D structures of CCDC113 orthologs of seven species were obtained from AlphaFold Protein Structure Database (Varadi et al., 2022).
Structural similarity Z scores were derived through the DALI webserver for all against all structure comparison (Holm & Laakso, 2016).
All the animal experiments were performed according to approved institutional animal care and use committee (IACUC) protocols (# 08-133) of the Institute of Zoology, Chinese Academy of Sciences.

Assessment of fertility
Fertility was assessed in 2-month-old male mice of various genotypes.Each male was paired with two WT females (6-8 weeks old), and vaginal plugs were checked each morning.
Females with a vaginal plug were separated and housed individually, and their pregnancy outcomes were recorded.If a female did not give birth by day 22 postcoitus, it was considered not pregnant and euthanized for confirmation.Each male participated in six cycles of the breeding assay with different females.

Human adult sperm sample preparation
The sperm donation candidates in this study were healthy young Chinese men.Each participant underwent a thorough medical examination and completed an extensive medical and social questionnaire to ensure the exclusion of individuals with genetic or significant medical issues, as outlined in the Basic Standard and Technical Norms of Human Sperm Bank published by the Chinese Ministry of Health.Individuals who smoked, abused drugs, or were heavy drinkers were also excluded from the study.Those who remained eligible signed informed consent forms for voluntary sperm donation and agreed to reside in Beijing for a minimum of six months.The sperm bank documented each participant's age, date of birth, and date of semen collection.Ethical approval for this study was granted by the Reproductive Study Ethics Committee of Peking University Third Hospital (2017SZ-035).Semen samples were processed using a 40% density gradient of PureSperm (Nidacon International, Molndal, Sweden) through centrifugation at room temperature (500 × g, 30 min) and washed three times with phosphate-buffered saline (PBS).The obtained spermatozoa were utilized for immunofluorescence staining.

Sperm motility and sperm count assays
The cauda epididymis was isolated from the male mice of the different genotypes.Sperm were released in phosphate-buffered saline (PBS, Gibco, C14190500BT) from the incisions of the cauda epididymis for 10 min at 37°C.And then the swim-up suspension was used for the analysis of sperm motility with a microscope through a 20x phase objective.Viewing areas in each chamber were imaged using a CCD camera.The samples were analyzed via computerassisted semen analysis (CASA) using the Minitube Sperm Vision Digital Semen Evaluation System (12500/1300, Minitube Group, Tiefenbach, Germany) and were also analyzed by CASA.The incubated sperm number was counted with a hemocytometer.

Histology staining
As previously reported (Wang et al., 2018), the testes and cauda epididymis were dissected after euthanasia, and fixed with Bouin's fixative for 24 h at 4°C, then the testes were dehydrated with graded ethanol and embedded in paraffin.For histological analysis, the 5 μm sections were cut and covered on glass slides.Sections were stained with H&E and PAS for histological analysis after deparaffinization.

Electron microscopy analysis
The cauda epididymis and testis were dissected and fixed in 2.5% (vol/vol) glutaraldehyde in 0.1 M cacodylate buffer at 4°C overnight.After washing in 0.1 M cacodylate buffer, samples were cut into small pieces of approximately 1 mm 3 , then immersed in 1% OsO4 for 1 h at 4°C.Samples were dehydrated through a graded acetone series (50%, 60%, 70%, 80%, 90%, 95%, 100%) and embedded in resin (DDSA, NMA, enhancer, 812) for staining.Ultrathin sections were cut and stained with uranyl acetate and lead citrate.Images were acquired and analyzed using a JEM-1400 transmission electron microscope.

Scanning electron microscopy
The trachea was fixed in 2.5% glutaraldehyde solution overnight, and dehydrated in graded ethanol, subjected to drying and coated with gold.The images were acquired and analyzed using SU8010 scanning electron microscope.

Immunofluorescence staining
The testis albuginea was peeled and incubated with collagenase IV and hyaluronidase in PBS for 15 min at 37°C, then washed twice with PBS.Next, fixed with 4% PFA for 5 min, and then coated on slide glass to dry out.The slides were washed with PBS three times and then treated with 0.5% Triton X-100 for 5 min, and blocked with 5% BSA for 30 min.Added the primary antibodies and incubated at 4°C overnight, followed by incubating with a second antibody and DAPI.The images were taken using LSM880 and SP8 microscopes.
The mouse testis was immediately dissected and fixed with 2% paraformaldehyde in 0.05% PBST (PBS with 0.05% Triton X-100) at room temperature for 5 min.The fixed sample was placed on a slide glass and squashed by placing a cover slip on top and pressing down.The sample was immediately flash frozen in liquid nitrogen, and the slides were stored at −80°C for further immunofluorescence experiments.After removing the coverslips, the slides were washed with PBS three times and then treated with 0.1% Triton X-100 for 10 min, rinsed three times in PBS, and blocked with 5% bovine serum albumin (Amresco, AP0027).The primary antibody was added to the sections and incubated at 4°C overnight, followed by incubation with the secondary antibody.The nuclei were stained with DAPI.The immunofluorescence images were taken immediately using an LSM 780 microscope (Zeiss) or SP8 microscope (Leica).Spermatozoa were released from the cauda epididymis in PBS at 37°C for 15 min, then were spread on glass slides for morphological observation or immunostaining.After air drying, spermatozoa were fixed in 4% PFA for 5 min at room temperature, and slides were washed with PBS three times and blocked with 5% BSA for 30 min at room temperature.The primary antibodies were added to the sections and incubated at 4°C overnight, followed by incubation with the secondary antibody.The nuclei were stained with DAPI and images were taken using an LSM 880 microscope (Zeiss) or SP8 microscope (Leica).

Immunoprecipitation
Transfected cells were lysed in a lysis buffer (50mM HEPES, PH 7.4, 250mM NaCl, 0.1% NP-40 containing PIC and PMSF) on ice for 30 min and centrifugated at 12000 rpm at 4°C for 15 min, cell lysates were incubated with primary antibody about 12 hours at 4°C and then incubated with protein A-Sepharose (GE, 17-1279-03) for 3 hours at 4°C, then washed three times with lysed buffer and subjected to immunoblotting analysis.

Statistical analysis
All the experiments were repeated at least three times, and the results are presented as the mean ± SD.The statistical significance of the differences between the mean values for the different genotypes was measured by the Student's t-test with a paired, 2-tailed distribution.
The data were considered significant when the P-value was less than 0.
Figures and Figure legends

Figure 1
Figure 1 CCDC113 is an evolutionarily conserved axoneme-associated protein.(A) Multiple species phylogenetic tree of CCDC113.Structural similarity scores (Z scores) of CCDC113 orthologs in Homo sapiens, Mus musculus, Phascolarctos cinereus, Danio rerio, Chlamydomonas reinhardtii and Tetrahymena thermophila were derived through the DALI webserver for pairwise structure comparisons (Holm & Laakso, 2016).(B) Positioning of CCDC113 within the 96-nm repeat of human axoneme (Walton et al., 2023).CCDC113 forms a complex with CCDC96, is located at the base of RS3, and is adjacent to CFAP91 and CFAP57.CFAP91 originates at the base of RS2 and links the RS3 subunits (CFAP251 and CFAP61).(C-H) Neighboring axoneme-associated proteins were expressed alone or coexpressed with CCDC113 in HEK293T cells, and the interactions between CCDC113 and CFAP57, CFAP91, TUBB5, DRC1, DRC2, or DRC3 were examined by coimmunoprecipitation.IB: immunoblotting; IP: immunoprecipitation.The % Input is displayed below the corresponding figures for quantification.n = 3 independent experiments.Data are presented as mean ± SD; *P < 0.05, **P < 0.01, ***P < 0.001.