The Drosophila IKK-related kinase (Ik2) and Spindle-F proteins are part of a complex that regulates cytoskeleton organization during oogenesis
- Dikla Dubin-Bar†1,
- Amir Bitan†1,
- Anna Bakhrat1,
- Rotem Kaiden-Hasson2,
- Sharon Etzion3,
- Boaz Shaanan2 and
- Uri Abdu1Email author
© Dubin-Bar et al; licensee BioMed Central Ltd. 2008
Received: 30 April 2008
Accepted: 17 September 2008
Published: 17 September 2008
IkappaB kinases (IKKs) regulate the activity of Rel/NF-kappaB transcription factors by targeting their inhibitory partner proteins, IkappaBs, for degradation. The Drosophila genome encodes two members of the IKK family. Whereas the first is a kinase essential for activation of the NF-kappaB pathway, the latter does not act as IkappaB kinase. Instead, recent findings indicate that Ik2 regulates F-actin assembly by mediating the function of nonapoptotic caspases via degradation of DIAP1. Also, it has been suggested that ik2 regulates interactions between the minus ends of the microtubules and the actin-rich cortex in the oocyte. Since spn-F mutants display oocyte defects similar to those of ik2 mutant, we decided to investigate whether Spn-F could be a direct regulatory target of Ik2.
We found that Ik2 binds physically to Spn-F, biomolecular interaction analysis of Spn-F and Ik2 demonstrating that both proteins bind directly and form a complex. We showed that Ik2 phosphorylates Spn-F and demonstrated that this phosphorylation does not lead to Spn-F degradation. Ik2 is localized to the anterior ring of the oocyte and to punctate structures in the nurse cells together with Spn-F protein, and both proteins are mutually required for their localization.
We conclude that Ik2 and Spn-F form a complex, which regulates cytoskeleton organization during Drosophila oogenesis and in which Spn-F is the direct regulatory target for Ik2. Interestingly, Ik2 in this complex does not function as a typical IKK in that it does not direct SpnF for degradation following phosphorylation.
Protein kinases of the IκB kinase (IKK) family are known for their roles in innate immune response signaling pathways in both mammals and Drosophila [1–3]. All mammalian IKKs studied so far have roles in immune responses, but operate on different targets. IKKs are multi-subunit complexes consisting of two catalytic subunits (IKKα and IKKβ) and a structural component (IKKγ/NEMO). IKKα and IKKβ were identified in a protein complex that phosphorylates IκB and targets it for degradation, thereby allowing the nuclear localization and activation of NF-κB transcription factors [4–6]. The isoforms IKKε and TANK binding kinase 1 are required to for phosphrylation and activation of the transcription factor interferon regulatory factor 3 in response to viral infection [7–9]. Two members of the IKK family are known in Drosophila, namely DmIKKβ and Ik2 . DmIKKβ performs similarly to the mammalian IKKα and participates in antibacterial innate immune response [11, 12]. In contrast, ik2 (also known as DmIKKε) was shown to control actin and microtubule (MT) organization in an NF-κB-independent pathway [10, 13, 14].
Recently it was reported that Ik2 binds to Drosophila inhibitor of apoptosis 1 (DIAP1) and accelerates its degradation in a kinase-dependent manner . One of the nonapoptotic processes that Ik2 regulates through the DIAP1/caspase pathway is assembly of the actin cytoskeleton . In ik2 loss-of-function mutants, tracheal terminal cells, bristles, and the antenna arista laterals, all of which require accurate F-actin assembly for their polarized elongation, exhibited aberrantly branched morphology. These phenotypes were sensitive to a change in the dosage of DIAP1 and the caspase DRONC without apparent change in cell viability . In addition, over-expression of Ik2 destabilized F-actin based structures. These results suggest that Ik2 may act as a negative regulator of F-actin assembly, maintaining the fidelity of polarized elongation during cell morphogenesis by modulating the level of DIAP1.
A different aspect of the ik2 role in cytoskeleton related processes is revealed through oogenesis studies. During oogenesis, ik2 is required in an NF-κB-independent process for localization of oskar and gurken mRNAs . As a result, females that lack ik2 in the germline produce embryos that are bicaudal, ranging from headless embryos to embryos with a duplicated abdomen in place of the head and thorax. They also exhibit a ventralized phenotype. Abnormal mRNA localization in ik2 mutant oocytes could be attributed to defects in the organization of MT minus-ends. In addition, ik2 mutant oocytes and mutant escaper adults have abnormalities in the organization of the actin cytoskeleton . However, the regulatory target for ik2 in controlling the oocyte cytoskeleton is still unknown.
In a global two-hybrid screen, Ik2 was found to interact with Spindle-F (Spn-F) (CG12114) . Our previous work has shown that this newly discovered protein, Spn-F is part of a yet uncharacterized pathway leading to the organization of a distinct subset of MTs in the Drosophila oocyte . spn-F was first identified as a maternal effect mutation that affects the dorsal-ventral polarity of the eggshell . The asymmetric distribution of maternal determinants (gurken, bicoid and oskar mRNAs) in the oocyte was analyzed, and it was found that spn-F, like ik2, is required for proper localization of gurken during oogenesis. In addition to the maternal effect, spn-F, like ik2, also affects the bristle morphology of the adult fly. Moreover, in spn-F mutants, α-tubulin is abnormally associated with the oocyte nuclear periphery, and green fluorescent protein (GFP)-Tau fusion protein accumulates abnormally around the oocyte nucleus. spn-F was cloned and found to encode a novel coiled-coil protein, which co-localizes specifically to oocyte cortex regions, where the minus ends of MTs reside, and also occurs in a punctate granular pattern in the nurse cells . Thus, earlier work show that spn-F affects oocyte axis determination and the organization of a subset of MTs during Drosophila oogenesis.
Since ik2 mutants share many phenotypes with spn-F, including a very similar bristle phenotype, ventralized eggshells, and specific effects on MT organization in oogenesis , we decided to study the nature of the interaction between these two proteins. We show that Ik2 directly interacts with Spn-F and that the C-terminus of Spn-F is crucial for this interaction. We also demonstrate that Ik2 is capable of phosphorylating Spn-F, but that such phosphorylation is not essential for their interaction and also does not lead to Spn-F degradation. We find that Ik2 and Spn-F co-localize to the anterior ring of the oocyte and in a punctate structure in the nurse cells. Furthermore, we show that Spn-F and Ik2 are mutually required for this localization. We therefore conclude that Ik2 and Spn-F form a complex that regulates cytoskeleton organization during Drosophila oogenesis. Our finding that phosphorylation of Spn-F by Ik2 has no effect on Spn-F protein degradation, contrary to the degradation seen in the case of DIAP1, demonstrates a new mode of action for Ik2 in the germline.
Spn-F interacts physically with Ik2
The C-terminus of Spn-F is crucial for the interaction with Ik2
Spn-F protein is predicted to have two coiled-coil domains http://smart.embl-heidelberg.de/. The first domain extends from amino acid 32 to amino acid 114 and the second from amino acid 210 to amino acid 243 (Fig. 1C). In order to determine which domain is important for the interaction with Ik2, we fused the N-terminal part of Spn-F (1–162 aa) and the C-terminal (165–364 aa) of Spn-F to GFP. We co-expressed Myc-tagged Ik2 with each of the GFP-tagged truncated proteins in S2 cells. Extracts were immunoprecipitated with anti-GFP, and immunoblotting was done using anti-Myc. Myc tagged Ik2 was co-precipitated with the C-terminus of spn-F but not with the N-terminus of Spn-F (Fig. 1D). These results suggest that the C-terminus of Spn-F is crucial for the interaction with Ik2.
Spn-F and Ik2 are co-localized in punctate structures in S2R+
Biomolecular interaction analysis of Spn-F and Ik2 complex
Ik2 phosphorylates Spn-F
The interaction between Spn-F and Ik2 does not depend on phosphorylation
It was recently shown that Ik2 phosphorylates and interacts with DIAP1. The interaction between DIAP1 and Ik2 was not dependent on phosphorylation . Accordingly we proceeded to test the ability of Spn-F to interact with a kinase dead form of Ik2, Ik2 K41A . Western blot analysis showed that the mobility of Spn-F when expressed with Ik2 K41A was similar to the migration of Spn-F when expressed alone, proving that the kinase domain of Ik2 is inactivated in the mutant (Fig 4C, lane 2). Although Spn-F was not phosphorylated by Ik2 K41A, a specific interaction between the proteins did take place (Fig 4D), indicating that the interaction between Ik2 and Spn-F proteins does not depend on phosphorylation.
Ik2 does not promote Spn-F degradation
Ik2 protein is co-localized with Spn-F in punctate form in the nurse cells and at the anterior ring of the oocyte
IK2 and Spn-F are reciprocally required for localization to the anterior ring in the oocyte and to the punctate pattern in nurse cells
Recent studies implicate the Drosophila IKKε homologue ik2 in seemingly unrelated NF-κB functions. It was shown that ik2 modulates caspases for a nonapoptotic function and controls both actin and MT cytoskeletons [10, 13, 14], and also that it regulates the actin cytoskeleton through phosphorylation and degradation of DIAP1 . Moreover, it was reported that, in ik2 mutant oocytes, abnormal mRNA localization can be attributed to defects in organization of MT minus-ends, giving rise to ventralized and bicaudal phenotypes of mutant embryos . Whereas the control of actin polymerization appears to be mediated by a nonapoptotic function of DIAP1, the regulatory target of Ik2 in controlling cytoskeleton organization in the oocyte is still unknown. In this study we examined whether spn-F, which showed precisely the same ovarian and bristle phenotypes as ik2 mutants, might be an Ik2 target. In previous work we reported that spn-F encodes a novel protein that affects oocyte axis determination and the organization of MTs during Drosophila oogenesis . In this work we show that Ik2 physically interacts with Spn-F and forms a relatively stable complex. In addition, we show that Ik2 phosphorylates Spn-F but that the interaction between these two proteins is independent of phosphorylation. Thus, our results suggest that Spn-F is a putative regulatory substrate of Ik2. Moreover, our results indicate that the nature of the interaction between Spn-F and Ik2 is different from that attributed to Ik2 and DIAP1. We showed that Spn-F phosphorylation by Ik2 had no effect on its stability in S2 cells. Supporting this conclusion is the finding that over-expression of Ik2 in the ovaries had no effect on Spn-F stability or development [10; present study], indicating that over-expression of ik2 does not lead to Spn-F degradation. Furthermore, the ovarian phenotype of spn-F mutant is similar to the ovarian phenotype of ik2 [10, 16]. Thus, whereas Ik2 regulates organization of the actin cytoskeleton via phosphorylation and degradation of DIAP1, in the oocyte, rather than affecting Spn-F degradation, Ik2 and Spn-F form a complex that regulates the oocyte cytoskeleton.
How does the IK2/Spn-F complex function in the germline? In this study, we showed that Ik2 and Spn-F are co-localized both to the anterior ring during mid-oogenesis and to punctate structures in the nurse cells. Additionally, Ik2 and Spn-F are mutually required for correct localization in the germline. In ik2 germline clones, Spn-F protein localization along the anterior cortex is significantly reduced relative to the wild-type egg chamber and Spn-F aggregates in the oocyte; also, there is a higher accumulation of the punctate structures containing Spn-F protein in the nurse cells as compared with the wild type. Furthermore, we found that Ik2 localization to the anterior end of the oocyte and to the punctate structure in the nurse cells depends on spn-F. Thus, we suggest that the correct localization of Spn-F and Ik2 complex to special compartment within the oocyte is an essential requirement for organization of oocyte cytoskeleton. The defects observed in ik2 and spn-F mutants oocyte are most likely due to misslocalization of the Ik2/Spn-F complex.
Immunostaining has shown that Spn-F protein localizes to the minus end of the MT network in the oocyte and also to granules in the nurse cells. In our previous work we found that depolymerization of MT and mutations in Dynein heavy chain cause a significant loss of Spn-F localization at the oocyte anterior cortex . In addition, these treatments results in substantial increase in both the number and the size of Spn-F granules in the nurse cells. These observations suggest that Spn-F is transported from the nurse cells to the oocyte and that this transport could be mediated by Dynein. In the present study we found that when Ik2 was expressed alone in S2R+ cells, it was evenly distributed in the cytoplasm whereas Spn-F localized to cytoplasmic punctate structures. When both proteins were co-expressed in S2R+, Ik2 was co-localized to the cytoplasmic punctate structures along with Spn-F. Moreover, we found a higher accumulation of punctate structures containing Spn-F protein in the nurse cells in ik2 mutants as compared with the wild type, similarly to our observation in Dynein heavy chain mutant. Taking all of our results into account, we would like to propose that Spn-F is required for localization of Ik2 to cytoplasmic transport vesicles while Ik2 is required for correct transport of the complex from nurse cells to oocyte. Once the complexes are in the oocyte, they may accumulate at certain cortical sites where they promote the interaction of MTs and the actin cytoskeleton.
In conclusion, we have demonstrated that Ik2 and Spn-F form a complex which regulates cytoskeleton organization during Drosophila oogenesis and in which Spn-F is the direct regulatory target for Ik2. Unlike other IKK proteins, Ik2 phosphorylates Spn-F without promoting its degradation.
Oregon-R and Canton-S were used as a wild-type control. The following mutant and transgenic flies were used: spn-F1, spn-F2, pUASp HA tagged spn-F , ik21 . Germline expression was performed with nanos-Gal4-VP16  and ubiquitous expression with Act5C-GAL4 (Bloomington). Germline clones for ik2 were generated using the ovoD-FLP technique and FRT40A (2L) . To induce expression of FLP recombinase, flies were mated for 24 hours, and second instar larvae were heat shocked in a 37°C water bath for two hours on three consecutive days.
Constructs and transgenic flies
The entire coding sequence of enhanced green fluorescent protein (EGFP) (Invitrogen) was amplified by PCR using modified primers to create a KpnI restriction site at the 5' end (EGFP-KPN-F-5' GGTACCATGGTGAGCAAGGGCGAGGAGC 3') and an Xba I site at the 3' end (EGFP Xba R – 5' TCTAGACTTGTACAGCTCGTCCATGCCG 3'). The resulting PCR product was digested using Kpn I and XbaI and was cloned into pBlueScript to create the EGFP pBlueScript vector. This vector was later used to clone all of the pUASp GFP-tagged constructs. The full length spn-F coding sequence was amplified by PCR from EST (LD01470) using modified primers to create an Xba I restriction site at the 5' end (5' TCTAGAATGGAGGCATCTGCTGCCAAAATC 3') and an Not I site at the 3' end (5' GCGGCCGCCTGGGTCAGAAGTCACC 3'). To create the N-truncated GFP-tagged form of spn-F, the coding sequence from 1–486 bp was amplified by PCR using modified primers to create an XbaI restriction site at the 5' end (5' TCTAGAATGGAGGCATCTGCTGCCAAAATC 3') and an NotI restriction site at the 3' end (5' GCGGCCGCTCATTGGCATCTGGTTCACT 3'). To create the C-truncated GFP-tagged form of spn-F, the coding sequence from 495–1095 bp was amplified by PCR using modified primers to create an XbaI restriction site at the 5' end (5' TCTAGAACGCAGCACTCCCCCAATCCTCACC 3') and an NotI restriction site at the 3' end (5' GCGGCCGCCTGGGTCAGAAGTCACC 3'). To create a full length GFP-tagged form of Ik2, the entire coding sequence of Ik2 was amplified by PCR from EST (SD10041) using modified primers to create an Xba I restriction site at the 5' end (5' TCTAGAATGTCCTTCCTGCGCGGTTCCGTAAGC 3') and an Not I site at the 3' end (5' GCGGCCGCCTAACTACTTTCCAGACTTCCG 3'). All of the above PCR products were digested using Xba I and NotI and were cloned into EGFP-pBlueScript. The resulting pBlueScript vectors were cut using KpnI and NotI and the inserts cloned into pUASp vectors. To create an mCherry-tagged Spn-F, mCherry in pCS2 was amplified by PCR, using modified primers to create Kpn I restriction sites at both ends (5' CGGGGTACC ATGGTGAGCAAGGGCGAGG 3' and 5' CGGGGTACC CTTGTACAGCTCGTCCATGCCGC 3'). The resulting PCR product was digested with Kpn I and then inserted into a pUASp vector containing Spn-F coding sequence from EST (LD-01470). P-element-mediated germline transformation of this construct was carried out according to standard protocols . Ten independent lines were established from each construct.
Ovaries were dissected in PBS, then fixed for 20 minutes (3.8% formaldehyde in PBS and Heptane) and washed 3 × 10-min in PBST (PBS, 0.3% Triton X-100). The ovaries were incubated for 1 h in PBS, 1% Triton X-100, and blocked for 1 hr in 3% BSA, PBST. After overnight incubation at 4°C with primary antibody in appropriate dilution and PBST washes, the ovaries were incubated with secondary antibody for 1 h, washed, and mounted in 50% glycerol. As a primary antibody we used monoclonal mouse anti-Spn-F (1:10; clones 8C10, 4E6 and 10C5). The secondary antibody, Cy3 goat α-mouse, was used at 1:100 (Jackson Immunoresearch). Egg chambers were imaged on a Zeiss LSM510 laser-scanning confocal microscope.
Egg chamber live imaging
Female flies were mated and fed dry yeast for at least 3 days after eclosion. Ovaries and egg chambers were dissected in a Halocarbon oil 700 (Sigma) drop placed on a 24 × 66 mm cover glass. Confocal images were taken within 40 min after the dissection on an Olympus FV1000 laser-scanning confocal microscope.
Cell culture and transfections
S2 or S2R+ cells were cultured in Schneider's cells Drosophila medium (Biolabs Industries, Israel) containing 10% fetal bovine serum (Biolabs industries, Israel) and penicillin (10,000 u/ml)-streptomycin (10 mg/ml)-amphotericin B (0.025 mg/ml) solution (1:100, Biolabs Industries, Israel). Cells were maintained at 25°C under normal atmosphere. 4*106 cells were transfected with 1 μg pUASp-based expression vectors and the Act 5C-Gal4 driver by using Escort IV (Sigma). The transfected cells were cultured in Schneider's cells Drosophila medium without Bovine serum and antibiotics for 24 h. For western blot analysis the cells were treated in SDS sample buffer. For co-localization assay cells were fixed for 15 min (3.8% formalin in PBS), then washed 3 × 10 min in PBS and mounted in 50% glycerol. Cells were imaged on confocal microscope.
Western blot analysis
Proteins were loaded onto a 10% polyacrylamide gel. Following electrophoresis, proteins were transferred to nitrocellulose membranes (PROTRAN, Schleicher & Schuell) for 1 h at 300 mA. The nitrocellulose membranes were blocked by incubation in TTBS (0.2 M Tris, 1.5 M NaCl, 9 mM Tween 20) containing 5% nonfat dry milk, for 30 min at room temperature followed by 1 h incubation in primary antibody. The membranes were washed in TTBS and incubated for 30 min with either a horseradish peroxidase (HRP)-labelled anti-rabbit or anti-mouse antibodies (Amersham) at a 1:2000 dilution each. The signals were visualized using ECL detection kit (biological industries). Primary antibodies used were: anti-HA (1:500, Santa Cruz Biotechnology), polyclonal anti Spn-F (1:1000), anti-GFP (1:1000, Roche diagnostic), anti-Myc (1:1000, Santa Cruz Biotechnology), anti α-tubulin (1:1000, Sigma). For phosphatase treatment, cell extracts were incubated with calf intestinal phosphatase (10 units, New England Biolabs) at 37°C for 15 min. The reaction was stopped by the addition of sample buffer.
Ovaries from GFP-Ik2; HA-Spn-F/nanos- Gal4 or HA-Spn-F/nanos Gal4 expressing flies were dissected in PBS. Lysates were prepared by grinding 10 ovaries for 15 sec in 50 μl cold lysis; PB, 1% NP-40 and protease inhibitors (Sigma). The lysate was spun for 5 min in a microcentrifuge at maximum speed, and 5 μl of the supernatant was set aside for use as a whole cell lysate control. The remaining lysate was pre-cleared with protein A coated beads (Adar Biotech). After a 30 min incubation on ice, the pre-cleared lysates were incubated with anti-GFP (1:250, Roch Diagnostic) and protein A coated beads. After incubation, beads were washed in lysis buffer, resuspended in an equal volume of protein gel loading buffer, and loaded onto 10% polyacrylamide gel. To detect interaction between proteins, western blot with anti-HA antibody was performed.
Cells expressing constructs as described in the text were treated with lysis buffer (PBS, 1%Triton X-100 and protease inhibitors). Pre-cleared extracts were incubated overnight at 4°C with anti-myc (1:250, Santa Cruz) or anti-GFP (1:250, Roche Diagnostic) mouse monoclonal antibodies. Immunocomplexes were recovered by incubation with protein A coated beads (Adar Biotech) for 2 h at 4°C. To detect interaction between proteins, western blot with α-HA antibody or α-myc antibody was performed. As a negative control, the ovarian lysate was precipitated by protein A-coated beads without antibody.
Immunocomplex Kinase Assay
Cells were treated with lysis buffer containing 20 mM Tris-HCl pH 7.5, 12 mM β-glycerophosphate, 150 mM NaCl, 5 mM EGTA, 10 mM NaF, 1% Triton X-100, 1 mM DTT, 1 mM sodium orthovanadate, 1 mM PMSF, and 1.5% aprotinin. The cell extracts were clarified by centrifugation, and the supernatants were immunoprecipitated with anti-GFP. The immunocomplexes were incubated with [γ-32P] ATP and purified His-tagged Spn-F recombinant protein  that was used as a substrate. The kinase assay was done in a final volume of 20 μl of a solution containing 20 mM Tris-HCl pH 7.5, 20 mM MgCl2, and 100 μM ATP. The kinase reactions were stopped by adding SDS sample buffer and analyzed by SDS-PAGE. The gel was exposed to X-ray film for 24 h and visualized by a Fuji LAS3000 image analyzer.
Protein stability assay in S2R+
For studying the effect of increasing levels of Ik2 on Spn-F stability, S2R+ cells were transfected with different concentrations of pUASp-GFP-Ik2 vector (0, 200, 500, 1000 ng) and pUASp-GFP-Spn-F (1000 ng). The expressions of the proteins were driven by Actin-GAL4 (1000 ng). Empty pUASp vector was added to adjust the total amount of expression plasmid to 3000 ng/well. Cell extracts were subjected to western blot analysis with anti-GFP antibody.
Protein Expression and Purification
The open reading frame encoding Spn-F from EST (LD01470 was amplified by PCR using modified primers to create an EcoRI restriction site at the 5' end (5' CGAATTCATGGAGGCATCTGCCTG 3') and HindIII restriction site at the 3' end (5' CGTCAAGCTTTCAGAAGTCACCCAC 3'). The open reading frame encoding Ik2 from EST (SD10041) was amplified by PCR using modified primers to create a BamHI restriction site at the 5' end (5' CGGATCCCATGTCCTTCCTGCGCGG 3') and an SalI restriction site at the 3' end(5' GCCGTCGACCTAACTACTTTCCAGACTTC 3'). The PCR products were digested with the appropriate restriction enzymes and cloned into pMBPHis-Parallel1  vector, containing N terminal MBP-His6 tags followed by a TEV proteolysis site. The plasmids coding for the fusion proteins were overexpressed in BL21 DE3 Escherichia coli cell, grown in 2.4l 2xYT media (containing 200 mg ampicillin). The culture was grown at 37°C to an approximate A600 O.D. of 0.4–0.6. Protein expression was induced by addition of 0.4 mM IPTG (Bio-Labs, USA), and the culture was further incubated for 2 h at 37°C. Cells were harvested at 4°C by centrifugation at 12,000 rpm. The cell pellets were resuspended in lysis buffer (Tris-HCl 20 mM pH 8, NaCl 200 mM, EDTA 1 mM, β-mercaptoethanol 5 MM, sudium azide 0.02%) containing protease inhibitors PMSF (1 mM) and E64 (10 μM) (Sigma, USA). Cells were lysed by sonication (Sonics & Materials, USA). The cell lysates were centrifuged at 12,000 rpm for 25 min. at 4°C. The supernatant solution was loaded onto an Amylose High Flow (New England bio-labs, England) column pre-equilibrated with loading buffer (Tris-HCl 20 mM pH 8, NaCl 200 mM, EDTA 1 mM, β-mercaptoethanol 5 mM,. The protein was eluted with the same buffer with the addition of 10 mM maltose. The fusion protein Ik2-MBPHis was dialysed against loading buffer containing NaCl 50 mM and eluted from an ion exchange HiTrap ANX FF column (Amersham, SwedenS) in a salt gradient of 0.05–1 M NaCl. Ik2-MBPHis was obtained in the unbound fraction. Spn-F fusion protein was further cleaved with TEV (tobacco etch virus) protease in cleavage buffer (Tris-HCl 0.5 M pH 8, EDTA 5 mM, DDT 1 mM) at 4°C overnight. The cleaved Spn-F was dialysed against loading buffer (Tris-HCl 20 mM pH 8, NaCl 200 mM, β-mercaptoethanol 5 mM, sodium azide 0.002%), and loaded onto a nickel HiTrap IMAC FF column (GEHealthcare, USA). The unbound Spn-F was dialysed against loading buffer containing NaCl 50 mM and eluted from an ion exchange HiTrap ANX FF column (Amersham, Sweden) in a salt gradient of 0.05–1 M NaCl. To verify the complete removal of MBPHis tag from Spn-F sample, western analysis with an anti-His antibody was performed; no signal was detected. Furthermore, MALDI-TOF analysis confirmed that the sample contained only pure Spn-F. Finally, the proteins Spn-F and Ik2-MBPHis were dialysed against buffer PBS.
Binding affinities of Spn-F toward Ik2 were measured using the ProteOn XPR36 Protein Interaction Array system (Bio-Rad, USA) based on surface plasmon resonance (SPR) technology [18, 26]. As negative control we used Sec13-MBP protein (Dictybase ID-DDB0235182). A solution of 0.005% Tween 20 in PBS, pH 7.4, was used as running buffer at a flow rate of 30 μl/min, at 25°C. Three channels (GLC sensor chip) were activated for 5 min with a mixture of 0.2 M EDC (1-ethyl-3-(3-dimethylaminopropyl)carbodimide hydrochloride) and 0.05 M sulfo-NHS (solfo-N-hydroxysuccinimide). Immediately after activation of the surfaces, Ik2-MBPHis (1 μg in 10 mM sodium acetate, pH 5.5) and Sec13-MBP (1 μg in 10 mM sodium acetate, pH 4.5) were injected across channel 2 and 3, respectively. This resulted in Ik2-MBPHis coupled at response levels of 1400 RU and Sec13-MBP coupled at response levels of 5500 RU. Channel 1 served as reference. Finally, all 3 channels were blocked with 1 M ethanolamine-HCl (pH 8.5). Spn-F was then injected perpendicular to ligands, at six different concentrations, using a twofold dilution series within a range of 0.1625 to 5 μM. The six concentrations were injected simultaneously at a flow rate of 65 ul/min for 2.5 min of association phase followed by 10 min of dissociation phase at 25°C. The GLC sensor chip was regenerated with short injection of 50 mM NaOH between consecutive measurements. Results are expressed in arbitrary resonance units (RU) with subtraction of RU values from channel 1. Data were analyzed with ProteOn managerTM software, using the Langmuir model (A + B ↔ AB) for fitting kinetic data .
Drosophila inhibitor of apoptosis 1
green fluorescent protein
maltose binding protein
co-immunoprecipitation, HA: hemagglutinin
AMP-activated protein kinase
rat acetyl-CoA carboxylase-1.
We thank Trudi Schüpbach, Shigeo Hayashi, Masayuki Miura, Shari Carmon, Ben-Zion Shilo and the Bloomington stock center for generously providing fly strains and reagents. We also thank Trudi Schüpbach for comments on the manuscript. This research was supported by Israel Science Foundation Grant 166/06 (to UA).
- Ghosh S, Karin M: Missing pieces in the NF-kappaB puzzle. Cell. 2002, 109: S81-S96. 10.1016/S0092-8674(02)00703-1.View ArticlePubMed
- Peters RT, Maniatis T: A new family of IKK-related kinases may function as I kappa B kinase kinases. Biochim Biophys Acta. 2001, 1471: M57-M62.PubMed
- Silverman N, Maniatis T: NF-kappaB signaling pathways in mammalian and insect innate immunity. Genes Dev. 2001, 15: 2321-2342. 10.1101/gad.909001.View ArticlePubMed
- DiDonato JA, Hayakawa M, Rothwarf DM, Zandi E, Karin M: Cytokine-responsive IkappaB kinase that activates the transcription factor NF-kappaB. Nature. 1997, 388: 548-554. 10.1038/41493.View ArticlePubMed
- Mercurio F, Zhu H, Murray BW, Shevchenko A, Bennett BL, Li J, Young DB, Barbosa M, Mann M, Manning A: IKK-1 and IKK-2: cytokine-activated IkappaB kinases essential for NF-kappaB activation. Science. 1997, 278: 860-866. 10.1126/science.278.5339.860.View ArticlePubMed
- Zandi E, Rothwarf DM, Delhase M, Hayakawa M, Karin M: The IkappaB kinase complex (IKK) contains two kinase subunits, IKKalpha and IKKbeta, necessary for IkappaB phosphorylation and NF-kappaB activation. Cell. 1997, 91: 243-252. 10.1016/S0092-8674(00)80406-7.View ArticlePubMed
- Fitzgerald KA, McWhirter SM, Faia KL, Rowe DC, Latz E, Golenbock DT, Coyle AJ, Liao SM, Maniatis T: IKKepsilon and TBK1 are essential components of the IRF3 signaling pathway. Nat Immunol. 2003, 4: 491-496. 10.1038/ni921.View ArticlePubMed
- McWhirter SM, Fitzgerald KA, Rosains J, Rowe DC, Golenbock DT, Maniatis T: IFN-regulatory factor 3-dependent gene expression is defective in Tbk1-deficient mouse embryonic fibroblasts. Proc Natl Acad Sci USA. 2004, 101: 233-238. 10.1073/pnas.2237236100.PubMed CentralView ArticlePubMed
- Sharma S, tenOever BR, Grandvaux N, Zhou GP, Lin R, Hiscott J: Triggering the interferon antiviral response through an IKK-related pathway. Science. 2003, 300: 1148-1151. 10.1126/science.1081315.View ArticlePubMed
- Shapiro RS, Anderson KV: Drosophila Ik2, a member of the I kappa B kinase family, is required for mRNA localization during oogenesis. Development. 2006, 133: 1467-1475. 10.1242/dev.02318.View ArticlePubMed
- Silverman N, Zhou R, Stöven S, Pandey N, Hultmark D, Maniatis T: A Drosophila IkappaB kinase complex required for Relish cleavage and antibacterial immunity. Genes Dev. 2000, 14 (19): 2461-71. 10.1101/gad.817800.PubMed CentralView ArticlePubMed
- Lu Y, Wu LP, Anderson KV: The antibacterial arm of the drosophila innate immune response requires an IkappaB kinase. Genes Dev. 2001, 15: 104-110. 10.1101/gad.856901.PubMed CentralView ArticlePubMed
- Kuranaga E, Kanuka H, Tonoki A, Takemoto K, Tomioka T, Kobayashi M, Hayashi S, Miura M: Drosophila IKK-related kinase regulates nonapoptotic function of caspases via degradation of IAPs. Cell. 2006, 126: 583-96. 10.1016/j.cell.2006.05.048.View ArticlePubMed
- Oshima K, Takeda M, Kuranaga E, Ueda R, Aigaki T, Miura M, Hayashi S: IKK epsilon regulates F actin assembly and interacts with Drosophila IAP1 in cellular morphogenesis. Curr Biol. 2006, 16: 1531-7.View ArticlePubMed
- Giot L, Bader JS, Brouwer C, Chaudhuri A, Kuang B, Li Y, Hao YL, Ooi CE, Godwin B, Vitols E, Vijayadamodar G, Pochart P, Machineni H, Welsh M, Kong Y, Zerhusen B, Malcolm R, Varrone Z, Collis A, Minto M, Burgess S, McDaniel L, Stimpson E, Spriggs F, Williams J, Neurath K, Ioime N, Agee M, Voss E, Furtak K, Renzulli R, Aanensen N, Carrolla S, Bickelhaupt E, Lazovatsky Y, DaSilva A, Zhong J, Stanyon CA, Finley RL, White KP, Braverman M, Jarvie T, Gold S, Leach M, Knight J, Shimkets RA, McKenna MP, Chant J, Rothberg JM: A protein interaction map of Drosophila melanogaster. Science. 2003, 302: 1727-1736. 10.1126/science.1090289.View ArticlePubMed
- Abdu U, Bar D, Schüpbach T: Spn-F encodes a novel protein that affects oocyte patterning and bristle morphology in Drosophila. Development. 2006, 133: 1477-1484. 10.1242/dev.02319.View ArticlePubMed
- Tearle R, Nüsslein-Volhard C: Tübingen mutants stock list. Dros Inf Serv. 1987, 66: 209-226.
- Bravman T, Bronner V, Lavie K, Notcovich A, Papalia GA, Myszka DG: Exploring "one-shot" kinetics and small molecule analysis using the ProteOn XPR36 array biosensor. Anal Biochem. 2006, 358: 281-288. 10.1016/j.ab.2006.08.005.View ArticlePubMed
- Phizicky E, Fields S: Protein-protein interactions: Methods for detection and analysis. Microbiol Rev. 1995, 59 (1): 94-PubMed CentralPubMed
- Canziani GA, Klakamp S, Myszka DG: Kinetic screening of antibodies from crude hybridoma samples using biacore. Analytical Biochemistry. 2004, 2/15;325 (2): 301-7. 10.1016/j.ab.2003.11.004.View Article
- Scott JW, Norman DG, Hawley SA, Kontogiannis L, Hardie DG: Protein kinase substrate recognition studied using the recombinant catalytic domain of AMP-activated protein kinase and a model substrate. Journal of Molecular Biology. 2002, 3/22;317 (2): 309-23. 10.1006/jmbi.2001.5316.View Article
- Chou TB, Perrimon N: Use of a yeast site-specific recombinase to produce female germline chimeras in Drosophila. Genetics. 1992, 131: 643-653.PubMed CentralPubMed
- Van Doren M, Williamson AL, Lehmann R: Regulation of zygotic gene expression in Drosophila primordial germ cells. Curr Biol. 1998, 8: 243-246. 10.1016/S0960-9822(98)70091-0.View ArticlePubMed
- Spradling AC, Rubin GM: Transposition of cloned P elements into Drosophila germ line chromosomes. Science. 1982, 218: 341-7. 10.1126/science.6289435.View ArticlePubMed
- Sheffield P, Garrard S, Derewenda Z: Overcoming expression and purification problems of RhoGDI using a family of "parallel" expression vectors. Protein Expr Purif. 1999, 15: 34-39. 10.1006/prep.1998.1003.View ArticlePubMed
- McDonnell JM: Surface plasmon resonance: towards an understanding of the mechanisms of biological molecular recognition. Chem Biol. 2001, 5: 572-577.
This article is published under license to BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.