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BRIT1/MCPH1 Is Essential for Mitotic and Meiotic Recombination DNA Repair and Maintaining Genomic Stability in Mice

  • Yulong Liang,

    Affiliation The Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, Texas, United States of America

  • Hong Gao,

    Affiliation The Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, Texas, United States of America

  • Shiaw-Yih Lin,

    Affiliation Department of Systems Biology, M. D. Anderson Cancer Center, Houston, Texas, United States of America

  • Guang Peng,

    Affiliation Department of Systems Biology, M. D. Anderson Cancer Center, Houston, Texas, United States of America

  • Xingxu Huang,

    Current address: Model Animal Research Center, Nanjing University, Nanjing, China

    Affiliation Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas, United States of America

  • Pumin Zhang,

    Affiliation Department of Molecular Physiology and Biophysics, Baylor College of Medicine, Houston, Texas, United States of America

  • John A. Goss,

    Affiliation The Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, Texas, United States of America

  • Francis C. Brunicardi,

    Affiliation The Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, Texas, United States of America

  • Asha S. Multani,

    Affiliation Department of Molecular Genetics, M. D. Anderson Cancer Center, Houston, Texas, United States of America

  • Sandy Chang,

    Affiliation Department of Molecular Genetics, M. D. Anderson Cancer Center, Houston, Texas, United States of America

  • Kaiyi Li

    kli@bcm.tmc.edu

    Affiliation The Michael E. DeBakey Department of Surgery, Baylor College of Medicine, Houston, Texas, United States of America

BRIT1/MCPH1 Is Essential for Mitotic and Meiotic Recombination DNA Repair and Maintaining Genomic Stability in Mice

  • Yulong Liang, 
  • Hong Gao, 
  • Shiaw-Yih Lin, 
  • Guang Peng, 
  • Xingxu Huang, 
  • Pumin Zhang, 
  • John A. Goss, 
  • Francis C. Brunicardi, 
  • Asha S. Multani, 
  • Sandy Chang
PLOS
x

Abstract

BRIT1 protein (also known as MCPH1) contains 3 BRCT domains which are conserved in BRCA1, BRCA2, and other important molecules involved in DNA damage signaling, DNA repair, and tumor suppression. BRIT1 mutations or aberrant expression are found in primary microcephaly patients as well as in cancer patients. Recent in vitro studies suggest that BRIT1/MCPH1 functions as a novel key regulator in the DNA damage response pathways. To investigate its physiological role and dissect the underlying mechanisms, we generated BRIT1−/− mice and identified its essential roles in mitotic and meiotic recombination DNA repair and in maintaining genomic stability. Both BRIT1−/− mice and mouse embryonic fibroblasts (MEFs) were hypersensitive to γ-irradiation. BRIT1−/− MEFs and T lymphocytes exhibited severe chromatid breaks and reduced RAD51 foci formation after irradiation. Notably, BRIT1−/− mice were infertile and meiotic homologous recombination was impaired. BRIT1-deficient spermatocytes exhibited a failure of chromosomal synapsis, and meiosis was arrested at late zygotene of prophase I accompanied by apoptosis. In mutant spermatocytes, DNA double-strand breaks (DSBs) were formed, but localization of RAD51 or BRCA2 to meiotic chromosomes was severely impaired. In addition, we found that BRIT1 could bind to RAD51/BRCA2 complexes and that, in the absence of BRIT1, recruitment of RAD51 and BRCA2 to chromatin was reduced while their protein levels were not altered, indicating that BRIT1 is involved in mediating recruitment of RAD51/BRCA2 to the damage site. Collectively, our BRIT1-null mouse model demonstrates that BRIT1 is essential for maintaining genomic stability in vivo to protect the hosts from both programmed and irradiation-induced DNA damages, and its depletion causes a failure in both mitotic and meiotic recombination DNA repair via impairing RAD51/BRCA2's function and as a result leads to infertility and genomic instability in mice.

Author Summary

The repair of DNA breaks in cells is critical for maintaining genomic integrity and suppressing tumor development. DNA breaks can arise from exogenous agents such as ionizing radiation (IR) or can form during the process of germ cell (sperm and egg) generation. BRIT1 protein (also known as MCPH1) is a recently identified DNA damage responding protein, and its mutations or reduced expression are found in primary microcephaly (small brain) patients, as well as in cancer patients. To investigate BRIT1's physiological functions and dissect the underlying molecular mechanism, we used a genetic approach (gene targeting technology) to delete BRIT1 gene in mice and generated a mouse model with BRIT1 deficiency (called BRIT1-knockout mice). Here, we showed that BRIT1 knockout mice are more sensitive to IR due to their inability to repair the IR-induced DNA breaks. These mice are also infertile, and their DNA repair during the process of germ cell generation was impaired substantially. Thus, in this study, we generated a novel mouse model (BRIT1 knockout mice) with striking phenotypes related to defective DNA repair and clearly demonstrated the essential role of BRIT1 in DNA repair at organism level.

Introduction

The repair of DNA double-strand breaks (DSBs) is critical for maintaining genomic integrity [1],[2]. DSBs can arise from exogenous agents such as ionizing radiation (IR) [3] and endogenous factors such as stalled replication forks [4]. In addition, DSBs can form in a programmed manner during development including meiosis and immunoglobin rearrangements [5],[6]. During meiosis, DSBs are generated to initiate recombination between homologous chromosomes which leads to the reciprocal exchange of genetic materials between parental genomes. The inability for hosts to respond properly to the breaks or to repair them may trigger physiological defects such as infertility or cause genomic instability.

DNA damage response (DDR) pathways activated as a result of DSBs conceptually have three components, some with overlapping functions: sensors, signal transducers, and effectors [7],[8]. Damaged DNA is recognized by sensors; the signal is brought to transducers, which then in turn activate or inactivate the effectors that trigger cell cycle checkpoints, DNA repair or apoptosis. In response to DNA damage, many proteins involved in DDR pathway, including ATM [8], MDC1 [9], H2AX [10], NBS1 [11], 53BP1 [12],[13], RAD51 [14], BRCA1 [15], and BRCA2 [16], quickly accumulate to damage sites and form large nuclear aggregates that appear as IR-induced nuclear foci (IRIF) observed microscopically. A variety of evidence suggests that IRIF are required for precise and efficient DSB repair in the context of chromatin.

Recent studies suggest that BRIT1 (BRCT-repeat inhibitor of hTERT expression) is a key regulator for DNA damage response pathways [17],[18]. The sequence of BRIT1 was derived from a hypothetical protein that was later matched to a putative disease gene called microcephalin (MCPH1), one of at least six loci implicated in the autosomal recessive disease primary microcephaly [19]. BRIT1 protein contains three BRCT (BRCA1 carboxyl terminal) domains, one in N-terminal and two in C-terminal. Many DDR and DNA repair proteins such as BRCA1, BRCA2, MDC1 and NBS1 contain BRCT domains, suggesting that BRIT1 may also play a role in DDR. In fact, knockdown of BRIT1 by specific siRNA in cells showed that BRIT1 was required for DNA damage-induced intra-S and G2/M checkpoints [17],[20],[21]. BRIT1 is also a chromatin-binding protein that forms IRIF, which co-localize with ATM, γ-H2AX, MDC1, NBS1 and 53BP1, and depletion of BRIT1 by its siRNA impairs the IRIF formation of ATM, MDC1, NBS1, and 53BP1 [17],[18], indicating that BRIT1 may exert a direct role in transmitting DNA damage signals. In addition, expression levels of BRIT1 are decreased in several types of human cancer including breast and ovarian cancers [18], suggesting that BRIT1 may function as a novel tumor suppressor gene. To better define its physiological role, here we generated BRIT1−/− mice and demonstrated BRIT1's essential role in regulation of both programmed and IR-induced DNA damage responses.

Results

Generation of BRIT1-deficient mice

To characterize the physiological function of BRIT1, we generated BRIT1−/− mice by gene targeting (Figure 1A). The mice with germ-line transmission of the targeted conditional allele were crossed with Flp mice to eliminate the Neo cassette. To generate the global knockout mice, these mice were bred with transgenic mice carrying a Cre gene under the control of β-actin promoter to eventually generate BRIT1−/− mice, where exon 2 of BRIT1 was deleted, leading to out of reading frame mutation of BRIT1.

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Figure 1. Generation and growth retardation of BRIT1-deficient mouse.

(A) Schematic diagram of the BRIT1 targeting strategy. The BRIT1 targeting was described in detail in Materials and Methods. The positions of 5′ and 3′ flanking probes were shown as diagonally striped boxes. E1, E2, and E3 were the first three exons of BRIT1. (B) Genotyping of BRIT1+/+, BRIT1+/− and BRIT1−/− mice. Genotyping was performed by Southern blot analyses. A 6 kb fragment was detected for WT and a 4 kb fragment was for the mutant mice. (C) Disruption of BRIT1 transcript in BRIT1−/− mice. Total testes RNA from the indicated mice were extracted and subjected to RT-PCR. The products of RT-PCR were 514 bp (WT allele) and 422 bp (mutant allele). M, DNA marker. (D) Loss of BRIT1 protein in BRIT1−/− mice. Total proteins from the indicated tissues were extracted and subjected to Western blot using an anti-BRIT1 antibody. Arrow, the full-length BRIT1 protein. (E) BRIT1−/− mice were growth-retarded. Body weights of BRIT1+/+ and BRIT1−/− littermates (n = 50 for each genotype in each age group) were measured at the postnatal day (P) 7, P14, P21, P35, and P56. *, P<0.05 compared with WT. (F) Lower birth rate of BRIT1−/− mice. Birth rates of BRIT1+/+, BRIT1+/− and BRIT1−/− mice were calculated from the offspring of self-cross of BRIT1+/− mice (n = 400).

http://dx.doi.org/10.1371/journal.pgen.1000826.g001

We confirmed the loss of both BRIT1 alleles in BRIT1−/− mice by Southern blot analysis (Figure 1B). RT-PCR with primers flanking exon 2 followed by DNA sequencing also revealed the disruption of BRIT1 transcript in BRIT1−/− mice (Figure 1C). We also developed a rabbit antibody specifically against the C-terminal fragment of mouse BRIT1 and anti-BRIT1 Western blot confirmed the loss of BRIT1 in BRIT1−/− mice (Figure 1D).

BRIT1−/− mice were able to survive to adulthood, but they were growth-retarded (Figure 1E). The weight of BRIT1−/− mice at postnatal days 56 (P56) was only 80% compared to wild type (WT). In addition, birth rate of the BRIT1−/− mice was ∼10% among the offspring of self-cross of heterozygous mice (Figure 1F), which was much lower than normal Mendelian ratio (∼25%), suggesting that BRIT1 deficiency may affect early development in mice.

BRIT1-deficient mice and MEFs were hypersensitive to IR and defective in homologous recombination

One of the hallmarks of defective DNA damage response is increased radiation sensitivity. To assess whether the loss of BRIT1 expression renders mice hypersensitive to IR, we irradiated BRIT1+/+, BRIT1+/− and BRIT1−/− mice with the dose of 7 Gy. All BRIT1−/− mice died within 9 days after irradiation, while 80% of BRIT1+/− or BRIT1+/+ mice were still alive 4 weeks after irradiation (Figure 2A). We also examined BRIT1−/− MEFs' sensitivity to IR. Passage 2 primary MEFs were used to expose to different dosages of IR. The surviving cells were counted at the 6th day after IR. BRIT1−/− MEFs were more sensitive to IR as compared to BRIT1+/+ cells (Figure 2B). Thus, both BRIT1−/− mice and the MEFs derived from those mice are more sensitive to irradiation.

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Figure 2. BRIT1-deficient mice and MEFs showed hypersensitive to γ-irradiation.

(A) BRIT1−/− mice were hypersensitive to γ-irradiation (IR). BRIT1+/+, BRIT1+/− and BRIT1−/− littermates (n = 30 for each genotype) were exposed to 7 Gy of whole-body IR, and were then monitored for 4 weeks. (B) BRIT1−/− MEFs were more sensitive to IR. Radiosensitivity of BRIT1+/+ and BRIT1−/− MEFs was plotted as the fraction of surviving cells relative to unirradiated cells of the same genotype. (C,D) Enhanced chromosome aberrations in BRIT1−/− MEFs. BRIT1+/+ and BRIT1−/− MEFs were γ-irradiated with 1 Gy, collected at 3 h or 20 h after IR, and subjected to metaphase spread assay. At least 30–35 metaphase spreads were analyzed for chromosome aberrations for each genotype. The main type of chromosome aberrations is chromatid breaks. Representative aberrations in BRIT1+/+ and BRIT1−/− MEFs at 3 h post-IR were shown in (D). Arrows represent chromatid breaks.

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To explore if genomic instability occur in BRIT1−/− cells, we performed metaphase spread assay to examine chromosome aberrations in both BRIT1+/+ and BRIT1−/− MEFs shortly (3 h) and longer time (20 h) after IR. Metaphase spread showed that most of BRIT1−/− MEFs had DNA breaks, while only fewer of BRIT1+/+ cells had breaks at as early as 3 h after IR (Figure 2C and 2D). Remarkably, at 20 h after IR, we still observed more chromosomal aberrations in BRIT1−/− than BRIT1+/+ MEFs (Figure 2C). To assess if BRIT1 plays a role in regulating spontaneous DNA damage, we isolated T cells from both wild-type (WT) and mutant mice spleens and compared their genomic stability by metaphase spread, and found more chromosomal aberrations in the BRIT1−/− T cells than in WT (Table S1). While other types of chromosomal aberrations (e.g. translocations, polyploidy) also occurred in IR-treated BRIT1−/− MEFs or T lymphocytes, the majority aberration in these cells was chromatid breaks, a phenomenon associated with defective homologous recombination (HR) [22],[23]. Together with our previous studies [24],[25], these results indicate that loss of BRIT1 leads to defective DNA repair in homologous recombination, and eventually cause genomic instability. Thus, BRIT1 is involved in regulating both spontaneous and IR-induced DNA damage responses.

BRIT1-deficient mice were infertile and exhibited meiotic defects

BRIT1−/− male mice failed to yield any pregnancies when crossed with the WT female mice, suggesting that BRIT1−/− mice are infertile. Consistently, we found that BRIT1−/− testes were much smaller than WT, especially in the mutant mice at the age of 3- week or older (Figure 3A and Figure S1). The testicular tubes in BRIT1−/− mice were significantly smaller and thinner than those in WT, and much fewer spermatocytes were produced in BRIT1−/− seminiferous tubules (Figure 3C, compared with Figure 3B), suggesting spermatogenesis is dysregulated due to loss of BRIT1. In addition, BRIT1−/− female mice are also infertile, and consistently, these mice harbored the smaller ovaries with none of ovarian follicles (Figure S2).

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Figure 3. BRIT1-deficient male were infertile and exhibited meiotic defects.

(A) Smaller testes in BRIT1−/− mice. Shown here are the testes from the indicated mice at P28. Scale bar, 5 mm. (B,C) Thinner seminiferous epithelia in BRIT1−/− mice. Testes sections from BRIT1+/+ (B) and BRIT1−/− (C) mice at P28 were stained with haematoxylin-eosin (H&E). Arrows, the seminiferous tubules; L, lumen of the seminiferous tubules. Scale bar, 50 µm. (D) Mitosis was not defective in BRIT1−/− spermatogonia and Sertoli cells. Testes at P7 were either stained with H&E or double-stained with anti-Tra98 and anti-Sox9 antibodies using immunofluorescent staining. Scale bar, 50 µm. (E) Meiotic dysregulation in BRIT1−/− spermatocytes. H&E staining was performed in testis sections from BRIT1+/+ and BRIT1−/− littermates at P14, P21, and P56. Black arrows: spermatocytes at leptotene/zygotene (a, b, d, f); white arrows: spermatocytes at diplotene (c); green arrows: elongate spermatids (e). Scale bar, 50 µm.

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In the male mice, spermatogenesis is divided into several distinct stages: mitotic proliferation of spermatogonia, meiotic division of spermatocytes, and spermiogenesis of spermatids [26],[27]. To determine which stage of spermatogenesis is disrupted in BRIT1−/− mice, we collected the BRIT1+/+ and BRIT1−/− testes at various developmental stages for histological analysis. At postnatal days 7 (P7), major cells were Sertoli or Sertoli-like cells (the supporting cells for testes) and spermatogonia, but no spermatocytes were found in either BRIT1+/+ or BRIT1−/− testes (Figure 3D, H&E panel), consistent with the fact that spermatocytes do not form in mouse testes until around P10 [26],[27]. Testes sections at P7 were also double-immunostained with anti-Tra98 and anti-Sox9 antibodies to detect spermatogonia and its surrounding Sertoli cells, respectively. The number of both spermatogonia (Figure 3D, Tra98 panel) and Sertoli cells (Figure 3D, Sox9 panel) was comparable between BRIT1−/− and BRIT1+/+ testes, indicating that BRIT1 deficiency does not impair spermatogonia or Sertoli cell proliferation.

We next examined the development of spermatocytes using the mice at the age of 2- week or older. In testes at P14, P21 and P28, although spermatocytes had taken place in seminiferous tubules in both BRIT1−/− and BRIT1+/+ testes, there were considerably fewer spermatocytes in BRIT1−/− as compared to BRIT1+/+, especially after around P21 (panels c and d in Figure 3E). At P56, in addition to much smaller seminiferous tubules, remarkably fewer spermatocytes and no spermatids were found in BRIT1−/− testes (panels e and f in Figure 3E). In contrast to seminiferous tubules in WT with a full spectrum of spermatogenic cells (panels a, c and e in Figure 3E), BRIT1−/− tubules just contained two or three layers of darkly stained zygotene-like germ cells and exhibited a complete lack of pachytene spermatocytes and postmeiotic germ cells (panels b, d and f in Figure 3E), suggesting that meiosis in BRIT1−/− spermatocytes may arrest prior to the pachytene stage. Moreover, TUNEL assay revealed dramatically increased apoptosis in BRIT1-deficient tubules (Figure S1), suggesting degenerated spermatocytes in BRIT1−/− testes may be eliminated through apoptosis. Together, these data indicate spermatocyte meiosis is impaired due to loss of BRIT1, as a result, leads to the male infertility.

BRIT1-deficient spermatocytes were arrested prior to the pachytene stage with aberrant chromosomal synapsis

To determine the cause of meiotic arrest in BRIT1−/− spermatocytes, we sought to define the actual meiotic stage that was defected in the mutant by examining the assembly of the synaptonemal complex (SC). SC morphology in spermatocyte nuclei can be assessed by immunostaining of synpatonemal complex protein 3 (SCP3), an integral component of the axial/lateral elements in the SCs [28],[29]. SCP3-immunostaining of the spermatocyte nuclei spreads showed that all the substages of spermatocytes in meiotic prophase I were detected in WT mice such as leptotene (Figure 4A), zygotene (Figure 4C), pachytene (Figure 4E). In BRIT1−/− mice, spermatocytes at leptotene (Figure 4B) or zygotene (Figure 3D) stage were also detected. However, no typical pachytene chromosome morphology was detected though there were aberrant pachynema in BRIT1−/− spermatocytes (Figure 4F). In addition, there were much more zygotene spermatocytes found in the mutant testes as compared to those in WT (Figure 4G), indicating that loss of BRIT1 leads to meiotic arrest prior to the pachytene stage. Furthermore, in contrast to WT spermatocytes in which synapsis initiated typically at the distal ends (or in subtelomeric regions) of the acrocentric chromosomes [30] (Figure 4C), many mutant spermatocytes in mid- and late- zygotene were characteristic of interstitial initiation of synapsis with asynapsis on either side of the contact (Figure 4D and 4F). Also, the bivalents in the late zygotene or aberrant pachytene were prone to be fragmented (Figure 4F). To confirm the synapsis defects in BRIT1−/− spermatocytes, we performed anti-SCP1/SCP3 double-staining assay. SCP1 mediates synapsis via uniting homologous chromosomes during zygotene and pachytene stages. The accumulation of SCP1 on/around the axial/lateral elements of the whole SCs (indicated by SCP3) is a hallmark for complete synapsis [31]. In the mutant spermatocytes, SCP1/SCP3 double-staining assay showed incomplete, dashed-line like SCP1 pattern occurred in many individual homologs at the late zygotene or zygotene/pachytene transition stage (panel b in Figure 4H) while in WT, the intact accumulation of SCP1 protein around the whole SCs was detected (panel a in Figure 4H), revealing a defective synapsis existed in BRIT1-deficient spermatocytes. Collectively, these results indicate that meiosis in BRIT1−/− spermatocytes is arrested prior to the pachytene stage and BRIT1 is required for completing chromosomal synapsis during male meiosis.

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Figure 4. Meiosis in BRIT1-deficient spermatocytes was arrested prior to the pachytene stage with aberrant chromosomal synapsis.

The staging of spermatocytes was examined in three pairs of WT and mutant mice by using anti-SCP3 immunostaining of the spermatocyte nuclei spread. (A,B) No defects in BRIT1−/− leptotene spermatocytes. The leptotene spermatocytes were detected in WT (A) and BRIT1−/− testes (B). Scale bar, 10 µm. (C,D) Aberrant bivalents in BRIT1−/− zygotene spermatocytes. Compared to the WT (C) with normal synapsis initiated typically at the distal ends of the acrocentric chromosomes, many mutant bivalents showed interstitial initiation of synapsis with asynapsis on either side of the contact (D). Red arrow, sex body; yellow arrows, interstitial synapsis. (E,F) BRIT1−/− spermatocytes were prone to be fragmented prior to the pachytene stage. Unlike WT with typical pachytene morphology (E), the mutant (F) was arrested prior to the pachytene stage or zygotene/pachytene transition stage and showed fragmented chromosome (white arrows). Red arrow, sex body; yellow arrows, interstitial synapsis; Z/P represents aberrant late zygotene/pachytene transition stage; white arrows, fragmented bivalents. (G) BRIT1−/− spermatocytes were dramatically arrested prior to the pachytene stage. Three to five hundred spermatocytes at meiosis I during the first wave were counted. Data are plotted as average percentage (mean±SD) determined from three pairs of mutant and WT mice. *, P≤0.01 (mutant versus WT). (H) Defective synapsis in BRIT1−/− spermatocytes. Synapsis here was determined by SCP1 staining. The complete bivalents were detected at zygotene/pachytene transition in WT spermatocytes (a). However, the mutant spermatocytes exhibited incomplete, dashed-line shape bivalents in many homologs during zygotene or zygotene/pachytene transition stage (b). Green arrow represents the incomplete, dashed-line shape synapsis (bivalents). Scale bar, 10 µm.

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Recombination DNA repair was impaired in BRIT1-deficient spermatocytes

To further assess BRIT1's role in meiotic recombination, we examined BRIT1 expression pattern in seminiferous tubules as well as its foci formation in response to DSB during meiosis. We found that BRIT1 protein was expressed both in spermatogonia and spermatocytes (Figure S3A). Spermatocyte-chromosome spreading assay showed that BRIT1 foci were formed on the meiotic chromosomes during both leptotene and zygotene. In contrast, during pachytene where synapsis is completed, BRIT1 foci were not found on the chromosomes except in telomeres and non-synapsed sex body (Figure S3B). These data together indicate that BRIT1 is involved in repair of the DSBs occurring at leptotene and zygotene stages during meiotic recombination.

To investigate the mechanism mediating the meiotic defect due to loss of BRIT1, we examined if DSB formation and meiotic recombination repair was impaired. During meiosis, DSBs are introduced by SPO11 at leptotene for initiating meiotic recombination in spermatocytes [32], and γ-H2AX is an important protein involved in recognition and signaling of the DSBs [33],[34]. In mice, ∼300 DSBs are generated by SPO11 at leptotene/zygotene in each nucleus [35]. As shown in the Figure 5A, SPO11 foci had the similar pattern in WT and mutant spermatocytes, suggesting DSBs were normally formed in BRIT1-deficient testes. In response to the DSBs, γ-H2AX foci responded equally well and appeared at the damage sites during the leptotene stage of both the WT (panel a in Figure 5B) and the BRIT1 mutant (panel b in Figure 5B) testes with the same staining pattern and comparable intensity. In consistent with previous report [36], at late zygotene/pachytene stage of WT spermatocytes, γ-H2AX staining disappeared from synapsed autosomal chromosomes though it still resided in the largely asynapsed sex chromosomes of the XY body (panel c in Figure 5B). However, γ-H2AX staining in the BRIT1-mutant spermatocytes was sustained in asynapsed autosomal homologs at late zygotene (Figure 5B and 5C). Thus, these data suggests that DSBs are normally formed, while DSBs cannot be properly repaired without functional BRIT1.

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Figure 5. Recombination DNA repair was impaired in BRIT1-deficient spermatocytes.

BRIT1+/+ and BRIT1−/− spermatocytes were obtained from the indicated mice (P17.5–P22.5), and subjected for chromosome spreading and then double-stained immunofluorescently with anti-SCP3/anti-SPO11, anti-SCP3/anti-γ-H2AX, anti-SCP3/anti-RAD51, or anti-SCP3/anti-BRCA2 antibodies, respectively. Anti-SCP3 staining was used to determine the stage of each spermatocyte. Total around 400 chromosome spreads from three sets of mice were analyzed. Scale bar, 10 µm. (A) DNA double-strand breaks (DSBs) formation in meiosis is not affected by loss of Brit1. SPO11 foci had the similar pattern in WT and BRIT1-deficient spermatocytes. (B) γ-H2AX foci formation at leptotene/zygotene was comparable between WT and mutant spermatocytes. Both WT (a) and mutant (b) spermatocytes exhibited abundant γ-H2AX foci in response to DSBs at leptotene/zygotene stages, although γ-H2AX foci disappeared at the late zygotene/pachytene stage except in the XY body in WT (c), and they were sustained on asynapsed autosomal homologs in the mutant spermatocytes at late zygotene (d). (C) Retained γ-H2AX foci during late zygotene spermatocyte in BRIT1-deficient spermatocytes. Value shown here represents the mean±SD from ∼50 late zygotene spermatocytes for each genotype. (D) RAD51 foci were dramatically decreased in zygotene stage of BRIT1−/− spermatocytes. RAD51 foci were formed intensively on zygotene homologs in WT (a) while few foci were detected in the BRIT1−/− zygotene (b). (E) Remarkable reduction in the number of RAD51 foci per leptotene/zygotene spermatocyte in BRIT1-deficient spermatocytes. Value shown here represents the mean ± SD from ∼50 leptotene/zygotene spermatocytes for each genotype. (F) BRCA2 foci formation was disrupted in BRIT1−/− spermatocytes. BRCA2 foci were formed intensively on bivalents at zygotene in WT (a) but not in the BRIT1−/− zygotene (b). (G) Substantial reduction in the number of BRCA2 foci per leptotene/zygotene spermatocyte in BRIT1-deficient spermatocytes. Value shown here represents the mean ± SD from ∼50 leptotene/zygotene spermatocytes for each genotype.

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We next analyzed the homologous recombination process to address why DSBs are not repaired in BRIT1−/− spermatocytes. RAD51 is the homolog of E. coli RecA which binds to DSBs and plays a critical role in both mitotic and meiotic recombination DNA repair [37],[38]. In response to DNA damages, BRCA2 can facilitate RAD51's loading to the damages sites via their physical interaction and these two proteins form nuclear foci at the DSB sites and execute the DNA repair process [16]. We examined RAD51 foci formation on meiotic chromosomes using by immunostaining of chromosomes from spermatocytes. Interestingly, in BRIT1−/− leptotene/zygotene spermatocytes, the number of RAD51 foci was greatly decreased as compared to the number in WT (Figure 5D and 5E). We found that 80% of leptotene/zygotene spermatocytes in WT contained ∼100–250 RAD51 foci (Figure 5D and 5E). In contrast, 60% of the mutant spermatocytes at these stages exhibited no or only a few RAD51 foci (Figure 5D and 5E). In addition, RAD51 protein level was not changed in BRIT1−/− testes (Figure S4). Thus, reduction of RAD51 foci on chromosomes in BRIT1-deficient testes might be attributed to decreased localization of RAD51 onto the DSB sites. Furthermore, we found that BRCA2 foci formation in spermatocytes was also disrupted due to BRIT1 deficiency (Figure 5F and 5G). Collectively, these data indicate that depletion of BRIT1 disrupts meiotic recombination repair through abolishing the recruiting and the function of RAD51/BRCA2, and as a result leads to the catastrophic meiosis failure in BRIT1−/− spermatocytes.

BRIT1 is required for recruitment of RAD51/BRCA2 to the IR-induced DNA damage sites

To further explore how BRIT1 regulates DNA repair, we assessed the ability of RAD51/BRCA2 to form nuclear foci and their chromatin association in BRIT1−/− MEFs. We first analyzed the IR-induced nuclear foci (IRIF) formation of RAD51 and BRCA2 in BRIT1+/+ and BRIT1−/− MEFs. As shown in Figure 6A, we observed typical RAD51 and BRCA2 foci in the BRIT1+/+ MEFs, whereas only diffused pattern of RAD51 and BRCA2 were seen in the BRIT1−/− MEFs, indicating the IRIF formation of RAD51 and BRCA2 was abolished in the BRIT1 null background. In addition, in comparison to WT, the amount of chromatin-bound RAD51 was markedly reduced with or without IR treatment, indicating the requirement of BRIT1 for the basal and IR-induced Rad51 chromatin association. The basal chromatin-binding of BRCA2 was also significantly reduced in the BRIT1 null background while the IR-induced BRCA2 association to the chromatin was modest reduced (Figure 6B). The protein levels of RAD51 and BRCA2 were not altered due to lack of BRIT1 (Figure 6C). These data indicate that BRIT1 is required for increased basal chromatin affinity and the physical assembly of RAD51 and BRCA2 to the DNA damage loci though there is different degree of BRIT1 dependency in terms of IR-induced chromatin binding between RAD51 and BRCA2. Notably, we found that BRIT1 physically associated with RAD51 and BRCA2, suggesting BRIT1 being directly involved in DNA repair (Figure 6D). During the course of our study, a very recent report also shows that BRIT1 binds to BRCA2/RAD51 complex and disruption of the interaction between BRIT1 and BRCA2 leads to substantially reduced BRCA2/RAD51 at the DNA repair sites [39]. Altogether, these data indicate that BRIT1 may be directly involved in DNA repair via mediating RAD51/BRCA2's recruitment to the damage sites.

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Figure 6. BRIT1 is required for recruitment of RAD51/BRCA2 to the IR-induced DNA damage sites.

(A) RAD51/BRCA2 foci formation was inhibited in IR-treated BRIT1−/− MEFs. The WT and mutant MEFs on the coverslips were treated with or without ionizing radiation (5 Gy), then subjected to immunofluorescent staining 30 min later. IR-induced RAD51 foci were diminished in BRIT1−/− MEFs (d) compared to those in WT (b). Similarly, compared to WT (j), BRCA2 foci in mutant MEFs (l) were barely formed in response to IR. Scale bar, 10 µm. (B) Chromatin-bound RAD51 and BRCA2 were dramatically reduced in IR-treated BRIT1−/− MEFs. MEFs were treated with or without ionizing radiation (8Gy) and collected 1 h later. Chromatin pellets were then subjected to chromatin isolation and Western blot analysis, and probed with antibodies against BRIT1, RAD51, BRCA2, p-ATM, ATM or ORC2, respectively. ORC2 was used as a loading control. Chromatin-bound p-ATM or ATM remained the same between the WT and the mutant cells. However, there was much fewer RAD51 or BRCA2 bound to chromatin in the mutant MEFs as compared to the WT. p-ATM: phosphorylated ATM. (C) RAD51 or BRCA2 protein expression was not altered due to loss of BRIT1. Total protein lysates from indicated MEFs were used to detect the protein levels of RAD51/BRCA2. RAD51/BRCA2 expression was comparable between the WT and mutant MEFs. (D) BRIT1 physically associated with RAD51/BRCA2. The immortalized BRIT1+/+ MEFs were transfected with vector or FLAG-BRIT1 and the cell lysates were collected 1 h after irradiation (8Gy), subjected to anti-FLAG immunoprecipitation assay, separated by SDS-PAGE, and blotted with anti-FLAG, anti-RAD51, or anti-BRCA2 antibodies, respectively.

http://dx.doi.org/10.1371/journal.pgen.1000826.g006

Discussion

In this report, we generate a BRIT1 knockout (BRIT1−/−) mouse model and clearly demonstrate that BRIT1 is crucial for maintaining genomic stability in vivo to protect the hosts from both programmed and irradiation-induced DNA damages. Our studies on BRIT1 null mice also provide convincing evidence to identify a novel and important function of BRIT1 in meiotic recombination DNA repair. BRIT1−/− mice showed significant genomic instability, exemplified by chromosomal aberrations in T lymphocytes and MEFs. In addition, BRIT1−/− mice exhibited growth retardation, male infertility, and increased radiation sensitivity. These phenotypes are virtually identical to those of ATM−/−, MDC1−/− and H2AX−/− mice [40][42], suggesting that these molecules integrate closely in the DDR pathway.

Importantly, this is the first reported evidence demonstrating that BRIT1 indeed plays a crucial physiological role in programmed DNA damage response and HR DNA repair in vivo. Our data presented here clearly reveal that BRIT1 is essential for meiotic recombination DNA repair in spermatocytes. We first demonstrated that the male infertility in null mice was caused by catastrophic meiosis failure in spermatocytes and accordingly, no spermatids could be generated (Figure 3E). We also showed that BRIT1−/− spermatocytes exhibited aberrant chromosomal synapsis, and meiosis was arrested before or at the transition of zygotene to pachytene of meiotic prophase I (Figure 4). In addition, we found that localization of RAD51/BRCA2 to meiotic chromosomes was severely impaired in the mutant spermatocytes while their protein levels were not altered due to loss of BRIT1 (Figure 5 and Figure S4). Thus, these data together indicate that the DSB generated by SPO11 at leptotene can not be repaired properly and as a result, leads to aberrant chromosomal synapsis and meiosis arrest at late zygotene stage. Interestingly, unlike MDC1 or H2AX whose deficiency only leads to male infertility [41],[42], loss of BRIT1 also lead to female infertility with much smaller ovary (Figure S2), suggesting that BRIT1 may also function as a key regulator in oocyte meiotic recombination.

During meiosis, DSB is generated by SPO11 that leads to the initiation of meiotic recombination (HR DNA repair) [32]. In the null mice, BRIT1 deficiency only affected foci formation of RAD51/BRCA2, but not those of SPO11 and γ-H2AX, at leptotene/zygotene stages, Thus, our data support a model in which BRIT1 functions downstream of the SPO11-mediated DSB formation but upstream of RAD51/BRCA2-midiated DSB repair during meiotic recombination. In addition to meiosis, we also found that in response to DSBs induced by IR, the association of RAD51/BRCA2 to chromatin and their foci formation was impaired in MEFs with BRIT1 deficiency while their protein levels were not altered (Figure 6). All these in vivo and in vitro studies together therefore demonstrate that Brit1 is critical for DNA repair during both meiosis and mitosis. The impaired RAD51 foci formation in both BRIT1−/− MEFs and spermatocytes is not due to the changes of RAD51 protein levels (Figure 5 and Figure 6). Although BRIT1 has been reported to regulate RAD51 expression [43], we observed no altered RAD51 protein levels in either BRIT1−/− MEFs or the BRIT1−/− mouse testes which is consistent with our previous studies in BRIT1 knockdown human cells [25].

The mechanisms mediating BRIT1's function on DNA repair may be through multiple levels. Firstly, BRIT1 can be indirectly involved in DNA repair process via regulation of chromatin structure. We recently found that BRIT1 was associated with Condensin II, which modulates BRIT1-mediated HR repair [24]. In addition, we demonstrated BRIT1 being involved in chromatin remodeling via interacting with SWI/SNF, and this interaction relaxes the chromatin structure and increases the access of the repair proteins, including RAD51, to the DNA damage sites [25]. Indeed, this chromatin remodeling function of BRIT1 may also contribute to the increased accessibility of many other DNA damage responsors, such as ATM, ATR, NBS1, MDC1, 53BP1, RPA as we previously observed [18]. In addition to the generally increased affinity of DNA damage responsors and DNA repair proteins to chromatin, BRIT1 may further directly participate into DNA repair via interacting and recruiting RAD51/BRCA2 complex to the damage sites. Here, we observed that BRIT1 can physically associate with RAD51 or BRCA2 and in the absence of BRIT1, recruitment of RAD51 and BRCA2 to chromatin was remarkably reduced while their protein levels were not altered, suggesting that BRIT1 being directly involved in DNA repair (Figure 6). Consistently, in the course of our study, a very recent report also shows that BRIT1 binds to BRCA2/RAD51 complex and this binding is required for recruitment or retention of BRCA2/RAD51 complex at the DNA repair sites [39]. Thus, BRIT1 also functions directly in DNA repair via directing BRCA2/RAD51 foci to the DSBs. In consistent with the role of BRIT1 in regulating the DNA repair function of BRCA2/RAD51, the meiotic phenotypes in BRIT1−/− mice are virtually the same as those observed in mice with deficiency of BRCA2 [44] and DMC1 (a homologue of RAD51) [45],[46]. In these mice, spermatocytes are also arrested before or at the transition of zygotene to pachytene with aberrant chromosomal synapsis. In fact, like BRIT1−/− spermatocytes, BRCA2−/− spermatocytes also form DSBs without the consequent recruitment of RAD51 to the meiotic chromosome [44].

Our previous studies show that BRIT1 deficiency is correlated with genomic instability and breast cancer development [18]. Although our BRIT1 knockout mice within one and half years old did not develop any tumor, when we crossed BRIT1 knockout mice to the p53 null background, we found a significant effect of BRIT1 deficiency in enhancing cancer susceptibility (unpublished data). Notably, our very recent preliminary data indicate that low dosage of irradiation can readily induce breast tumors in the mice with conditional knockout of BRIT1 in the mammary gland but not in the control littermates. It will be very interesting to investigate if and to what extent BRIT1 deficiency may contribute to the initiation and progression of cancer with the existence of oncogenic or genotoxic stress. For example, we can assess whether crossing an activated Ras or HER2 allele into the BRIT1 deficient background will result in increased genomic instability and tumorigenesis compared to either mouse strain alone. Thus, our BRIT1 null mouse will be a very valuable model for further assessing BRIT1's role in genome maintenance and tumor suppression in the future.

Materials and Methods

Generation of BRIT1−/− mice and MEFs

We isolated BRIT1 BAC clones from a 129/SvEv genomic library to construct the conditional targeting vector (Figure 1A). A 0.5 kb fragment consisting of exon 2 (E2), 3′ end of intron 1 and 5′ end of intron 2 was inserted between two loxP sites in the targeting vector, which allows to remove E2 after introduction of Cre in mice. A 3.0 kb fragment from intron 2 was cloned into the same vector as the 3′ homologous arm. A 5′ homologous arm (a 3.0 kb fragment containing E1 and 5′ of intron 1) was subsequently cloned into the vector. The Neo selection marker can be excised via the recombination of the Frt sites after introduction of Flp recombinase, which could avoid any unexpected effect of Neo cassette on the normal splicing of BRIT1. The targeting vector was linear zed by PacI and electroporated into AB2.2 ES cells. Neomycin-resistant colonies were selected with Geneticin and analyzed for the expected homologous recombination by EcoRV digestion followed by Southern blot analysis using a 5′ flanking probe. The targeted clones were then confirmed using a 3′ flanking probe after BamHI digestion of the genomic DNA.

To generate the mice with BRIT1 conditional targeting allele, two targeting ES cells were injected into C57BL/6J mouse blastocysts. The injection was carried out by the Engineered Mouse Core in department of Molecular and Human Genetics at Baylor College of Medicine [47]. Male chimeras with 95% agouti color were bred with C57BL/6J females and germ-line transmission of the BRIT1 targeting allele was confirmed by agouti coat color in F1 animals and by Southern blot analysis on mouse tail DNA using the two flanking probes for BRIT1. These heterozygous mice were crossed with Flp mice to generate the mice carrying one BRIT1 conditional allele with the excision of the Neo cassette (BRIT1+/co). These mice were then bred with transgenic mice carrying a Cre gene under the control of β-actin promoter to generate BRIT1+/− mice. BRIT1+/− mice were further bred to generate BRIT1−/− mice.

Primary MEFs were obtained from embryonic days E14.5 by a standard procedure. MEFs were grown in DMEM supplemented with 10% FBS, 1% penicillin/streptomycin and 0.1% Fungazone and kept at a low passage for future use.

Radiosensitivity of MEFs and whole mice

Three plates of BRIT1+/+ or BRIT1−/− MEFs were exposed to IR (0, 2, 4, or 6 Gy), and survival rates were calculated 6 days after IR. Whole-body γ-irradiation of mice was carried out as described previously [48]. Ten pairs of BRIT1+/+/BRIT1+/− and BRIT1−/− littermates were irradiated with 7 Gy of whole body IR, and survival rates were calculated every two days after irradiation.

Metaphase spreads of lymphocytes and MEFs

Mice were sacrificed at postnatal day P42, and splenocytes were crushed though a mesh into a collection tube, and lymphocytes were separated using Lymph-M method (Accurate Chemical & Scientific Corp). The separated lymphocytes were activated with ConA and IL-2. MEFs were γ-irradiated with a dose of 1 Gy, and then collected for metaphase spread 3 hr or 20 hr post-IR. Cytological preparation of the activated T cells and γ-irradiated MEFs was made as described previously [49]. From each sample, at least 30–35 metaphase spreads were analyzed.

Immunofluoresent staining of γ-irradiation induced foci formation

MEFs on coverslips were treated with or without IR, and underwent immunoflurorescent (IF) staining at the indicated time points as described previously [18]. The primary antibodies used here were anti-RAD51 (BD pharmingen) and anti-γ-H2AX (Bethyl). The coverslips were finally mounted onto glass slides with VectaShield antifade (Vector Laboratories) and visualized by using a Zeiss Axiovert 40 CFL fluorescence microscope.

Histological and immunoflurescent staining of testes sections

Testes were obtained from BRIT1+/+ and BRIT1−/− mice at different ages (P7, P14, P21, P28, and P56), fixed in 4% paraformaldehyde at 4°C, and routinely embedded in paraffin. Haematoxylin-eosin (H&E) staining was performed according to the standard procedure. Slides were de-paraffinized and rehydrated, and antigen retrieval was carried out by incubating the slides in 0.01 M sodium citrate buffer (pH 6.1) in a hot water bath at 95°C for 30 min. If necessary, endogenous peroxidase activity was quenched with 3% hydrogen peroxide in methanol for 10 min at room temperature. Primary antibodies used here are anti-SOX-9, anti-Tra98 (gifts from Drs. Pumin Zhang and Xingxu Huang, Baylor College of Medicine, Houston, TX). Sections were finally visualized using a Zeiss Axiovert 40 CFL microscope, and images were captured with a Zeiss AxioCam MRc5 digital camera.

Surface-spread and immunofluoresent analyses

Seminiferous tubules were collected from 2- to 4-month-old mice, and tubule segments were isolated in 1×DPBS. Chromosome spread of spermatocytes was made following the protocol elsewhere [50],[51]. The following primary antibodies were used for immunofluorescent analyses: rabbit anti-SPO11 (Santa Cruz), rabbit anti-γ-H2AX (Bethyl), rabbit anti-RAD51 (Sigma), rabbit anti-SCP1 (GeneTex), rabbit anti-SCP3 (GeneTex) and guinea pig anti-SCP3 (gift from Dr. Ricardo Benavente, University of Würzburg, Würzburg, Germany). Alexa 488-coupled anti-rabbit IgG and/or Alexa 594-conjugated anti-guinea pig IgG were used as secondary antibodies. The slides were finally counterstained and mounted with antifade mounting medium with DAPI (Vector Laboratories). Foci were visualized microscopically with oil-immersed objectives, captured with a digital camera (Zeiss AxioCam MRc5), and processed with Photoshop (Adobe).

Chromatin isolation

Chromatin isolation assay were performed as previously described [18]. Briefly, MEFs (totally 5×106 cells) were treated with or without IR (8 Gy), collected 1 h later, and then washed with PBS. The cells pellets were resuspended in 200 µl of solution A (10 mM HEPES [pH 7.9], 10 mM KCl, 1.5 mM MgCl2, 0.34 M sucrose, 10% glycerol, 1mM dithiothreitol, 10m MNaF, 1mM Na2VO3, and protease inhibitors). Triton X-100 was added to a final concentration of 0.1%, and the cells were incubated for 5 min on ice. Cytoplasmic proteins were separated from nuclei by low-speed centrifugation. The isolated nuclei (P1) were washed once with solution A and then lysed in 200 µl of solution B (3 mM ethylenediamine tetraacetic acid, 0.2 mM EGTA, 1 mM dithiothreitol, and protease inhibitors). Insoluble chromatin was collected by centrifugation, washed once in solution B, and centrifuged again for 1 min. The final chromatin pellets (P3) were digested by resuspending nuclei in solution A containing 1 mM CaCl2 and 50 units of micrococal nuclease and incubated at 37°C for 1 min, after which the nuclease was stopped by addition of 1 mM EGTA. The chromatin pellets (MNase-digested P3) were resuspended in 2× Laemmli buffer and boiled 10 min at 70°C. Following centrifugation at high speed (13,000 rpm), the chromatin associated proteins in the supernatant were analyzed by SDS-PAGE/Western blotting assay.

Supporting Information

Figure S1.

Smaller testes and more apoptotic spermatogenic cells in BRIT1-deficient mice. (A) BRIT1-deficient testes were much smaller than WT after postnatal days 21 (P21). (B–D) BRIT1-deficient spermatogenic cells were prone to be apoptotic. The apoptotic cells were determined with TUNEL assay. The representative apoptotic spermatogenic cells from WT and mutant testes at P28 were shown in (B). Although the percentage of apoptotic tubules between mutant and WT was only significantly different in P28 (C), the apoptotic cells were dramatically increased in BRIT1-deficient testes after P14 (D). Scale bar in B, 100 µm. * P<0.05 compared with the wild-type control.

doi:10.1371/journal.pgen.1000826.s001

(7.16 MB TIF)

Figure S2.

BRIT1-deficient ovaries were smaller with no ovarian follicles. (A) BRIT1-deficient ovaries were much smaller than WT. The relative weight of ovaries from BRIT1+/+ and BRIT1−/− mice at P35 were calculated. (B) There was no ovarian follicles in BRIT1-deficient ovaries. The WT and mutant ovary tissues were sectioned and stained with H&E. Here shown were the ovaries at postnatal days 8. Black arrows, the whole ovaries; blue arrows, primary follicles. Scale bar, 0.2 mm.

doi:10.1371/journal.pgen.1000826.s002

(4.88 MB TIF)

Figure S3.

Expression pattern of BRIT1 in WT testicular tubules and foci formation in WT spermatocytes. (A) BRIT1 expressed in both spermagonia and spermatocytes of meiosis prophase I in WT. The WT-testes sections from indicated ages were stained using anti-BRIT1 antibody. BRIT1 was strongly expressed in spermagonia (blue arrow) and spermatocytes (black arrow). No BRIT1 was detected in BRIT1-deficient testes. Scale bar: 50 µm. (B) BRIT1 foci were abundantly formed on leptotene/zygotene chromosomes in WT spermatocytes. BRIT1 foci formation occurred at leptotene and peaked during zygotene. During pachytene when spermatocytes complete the synapsis, BRIT1 foci mainly localized at the non-synapsed sex body (white arrow) and the telomeres. Scale bar, 10 µm.

doi:10.1371/journal.pgen.1000826.s003

(6.92 MB TIF)

Figure S4.

RAD51 protein expression was not altered in BRIT1-deficient testes. Total protein lysates from indicated testes were used to detect the protein levels of RAD51. RAD51 expression was comparable between the WT and mutant testes. Actin was detected as a loading control.

doi:10.1371/journal.pgen.1000826.s004

(0.29 MB TIF)

Table S1.

Chromosomal aberrations increased in activated T cells from BRIT1−/− spleens.

doi:10.1371/journal.pgen.1000826.s005

(0.04 MB DOC)

Acknowledgments

We thank R. Benavente for providing guinea pig anti-mouse SCP3 antibody and thank S. Elledge for valuable discussion.

Author Contributions

Conceived and designed the experiments: KL. Performed the experiments: YL HG GP XH ASM. Analyzed the data: YL SYL KL. Contributed reagents/materials/analysis tools: SYL PZ JAG FCB SC. Wrote the paper: YL KL.

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