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9 protocols using anti guinea pig cy3

1

Immunohistochemical Analysis of Hypoxia-Induced Changes

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Immunohistochemistry was performed as described previously[21 (link)] on 10 μm frozen sections of cold phosphate-buffered saline perfused brains taken from mice subject to normoxia (control) or hypoxia for 4, 7, and 14 days. Each slide contained mouse brains representing the four different time-points of hypoxia, to ensure consistent antibody incubation times across different time-points. The following rat monoclonal antibodies were obtained from BD Pharmingen (La Jolla, CA, USA): anti-CD31 (clone MEC13.3), anti-β4 integrin (clone 346-11A), and anti-CD151 (clone 455807). Other primary antibodies used included mouse anti-α-SMA-Cy3 conjugate (Sigma, clone 1A4), hamster anti-CD31 (clone 2H8, Abcam, Cambridge, MA, USA), rabbit anti-CD151 (Creative Diagnostics, Shirley, NY, USA), and guinea pig polyclonal anti-plectin (Progen, Heidelberg, Germany). Secondary antibodies used included anti-rat-Cy3, anti-rabbit-Cy3, and anti-guinea pig-Cy3 (Jackson ImmunoResearch, West Grove, PA, USA), anti-Armenian Hamster-Dy-Light 594 (BioLegend, San Diego, CA, USA), and anti-rat Alexa Fluor 488 and anti-guinea pig Alexa Fluor 488 (Invitrogen Corporation, Carlsbad, CA, USA).
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2

Developmental Analysis of Calbindin and GLAST in Mouse Brain

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Intact brains from postnatal day 3 (PD3), postnatal day 7 (PD7), 2 weeks, and 7 weeks old male mice were isolated from WT and nNOS−/− mice and immediately placed in 4% paraformaldehyde (PFA) for 48 h. Brains were subsequently transferred to a 30% sucrose solution for at least 48 h and then sagittally sectioned at a thickness of 80 μm using a vibratome, placed in a cryoprotectant solution, and stored in −20°C until stained. Slices were first washed with PBS, then permeabilized using a 0.25% Triton‐X solution for 5 min. Free‐floating slices were then blocked with a 10% normal donkey serum (NDS) solution for 1 h and incubated with the following primary antibodies overnight in 4°C: 1:500 goat anti‐calbindin (CalB) (Santa Cruz Biotechnology, Dallas, TX); 1:500 guinea pig anti‐GLAST (Synaptic Systems, Goettingen, Germany). Slices were washed and then incubated with the appropriate secondary antibodies for 2 h: 1:1000 anti‐goat AlexaFluor 488, or 1:500 anti‐guinea pig Cy3 (Jackson Immunoresearch, Burlington, ON). After incubation with the nuclear stain DAPI, slices were mounted on cover glass using Fluoromount‐G (Electron Microscopy Solutions, Hatfield, PA) and images were taken using the Olympus FV1000 confocal microscope at ×60 magnification using an oil‐immersion objective.
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3

Immunostaining protocol for hug-expressing neurons

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Dissected larval brains were fixed in paraformaldehyde (4%). For the antibody staining of hug-eYFP, primary antibody was rabbit-antiGFP (1∶500, Abcam plc) and the secondary antibody was rabbit-antiGFP Cy2 (1∶200, Dianova GmbH). The antibody staining of HugVNC>Cam2.1 was performed with chicken anti-GFP (1∶500, Abcam plc) and as secondary antibody anti-chicken Alexa488 (1∶200, Invitrogen) was used. Antibody staining of hugin was performed with guinea pig anti-Hugin (1∶200, Pankratz laboratory; for hug0.8>rpr/hid) or rabbit anti-Hugin (1∶500, Pankratz laboratory; hug0.8>eYFP). Antibody stainings for RNAi experiments were done using rabbit anti-Hugin (1∶500).Secondary antibodies were: anti-rabbit Cy3, anti-guinea pig Cy3 (1∶200, Jackson ImmunoResearch), and mouse anti-GFP (1∶500, Sigma-Aldrich). Nuclei were counter stained with DAPI or Draq5. Labeled larval brains were mounted in Mowiol. Imaging was carried out using Laser Scanning Microscope (ZEISS LSM780). The obtained images were arranged using Zen LE and Photoshop CS5 (Adobe) (for detailed staining procedures see [64] (link)).
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4

Immunofluorescence Analysis of Extracellular Matrix in Murine Bone

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Bones of 1-,3- and 6-month-old mice were fixed in 4% paraformaldehyde at 4 °C overnight, washed in phosphate-buffered saline (PBS) and embedded in OCT after decalcification for two weeks with a 14% EDTA solution. Ten µm slices were obtained with cryostat and processed for immunofluorescence. Slides of ST2 cells and primary MSC were fixed in 4% paraformaldehyde at room temperature for 5 min, washed in PBS and maintained at 4 °C until use. In brief, tissue slices were permeabilized using cold methanol/acetone for 5 min, washed three times in PBS, and incubated for 1 h with 4% bovine serum albumin (BSA) in PBS, to block unspecific binding of the antibodies. Samples were incubated overnight at 4 °C with the following primary antibodies diluted with 1% BSA in PBS: guinea pig anti-Emilin-2 (1:200 [45 (link)], rabbit anti-Emilin-2 (1:200 [45 (link)], rabbit anti-Collagen IV (1:200, Millipore). Slices were washed three times in PBS and then incubated for 1 h with the following secondary antibodies: anti-rabbit Cy3, anti-rabbit Cy5.5, anti-guinea pig Cy3 and anti-guinea pig 488 (all 1:400; Jackson ImmunoResearch). Hoechst 33258 (Invitrogen) was used for nuclear staining. After three washes in PBS, slices were mounted in glycerol 80%.
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5

Immunofluorescence Imaging of Oocytes

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Oocytes were fixed on coated coverslips with paraformaldehyde or glutaraldehyde, as described previously (Verlhac et al. 1994 (link), Terret et al. 2003 (link)). After incubation with the anti-SKAP (1:200) or rat monoclonal anti-tyrosinated α-tubulin antibody (YL1/2, 1:100, Abcam) and washes, oocytes were incubated with anti-guinea pig-Cy3 or anti-rat-Cy3 secondary antibodies respectively (Jackson ImmunoResearch Laboratories, Inc.). Coverslips were mounted in Prolong Gold with DAPI (Life Technologies). Image acquisition of fixed oocytes was performed using the SP5/AOBS confocal microscope equipped with a Plan APO 63×/1.4 N.A. objective.
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6

Maize PIN1 Protein Immunolocalization

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Purified protein of residues 188–407 of maize SoPIN1 and 188–414 of maize PIN1c were created as described in [55] (link) and injected into Guinea pigs (Cocalico, Reamstown, PA). Western blots with primary serum showed preference of anti-SoPIN1 for SoPIN1 recombinant protein and anti-PIN1c for PIN1a/b/c recombinant proteins (not shown). Serum was used directly for immuno-localization. Dilutions: 1∶200 anti-SoPIN1, 1∶200 anti-PIN1c. Tissue was fixed in FAA and imbedded in Steedman's wax (Electron Microscopy Sciences, http://www.emsdiasum.com/microscopy/default.aspx). 9 µm sections were mounted, dewaxed in ethanol, dried, rehydrated into PBS, blocked with 5% Donkey serum in PBS, then probed. Secondary antibody dilution: 1∶200 anti-Guinea Pig cy3 (Jackson ImmunoResearch, http://www.jacksonimmuno.com/). Washes were performed with 1% Fish Gelatin in PBS (Sigma, http://www.sigmaaldrich.com/).
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7

Circadian Rhythm Visualization in Drosophila

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Adult flies were entrained in LD for 4–5 days, and then they were collected at the indicated circadian time (CT) on the first day of DD. Flies were immediately fixed in 4% paraformaldehyde in PBS at room temperature for 1 h and further dissected in PBS containing 0.1% Triton-X100 (PBST). After three washes using PBST, fly brains were blocked in PBST with 10% normal goat serum at room temperature for 1 h. Next, they were incubated at 4°C overnight with primary antibodies: rabbit anti-PER (1:5000), guinea pig anti-CLK (1:2500), and mouse anti-PDF (C7, Developmental Studies Hybridoma Bank, 1:400). Secondary antibodies were diluted at 1:200 concentration with respect to anti-mouse 488, anti-rabbit 594, and anti-guinea pig Cy3 (Jackson Immuno Research). For dKDM2-EGFP expression, brains were dissected and stained with an anti-GFP antibody (Invitrogen, A6455; 1:200) and mouse anti-PDF (1:400). They were then imaged using a Leica TCS SP8 confocal microscope and the images were quantified using NIH Image2. Statistical significance was determined by two-tailed Student’s t-test at p < 0.05.
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8

Characterizing Neuronal Synaptic Connections

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All primary antibodies were incubated at 4°C overnight. In cases where rAAV‐mediated expression of GFP was restricted to 7 days, the GFP signal was amplified using an anti‐GFP antibody (A11122; Life Technologies) followed by a Goat Anti‐Rabbit‐488 secondary antibody (Life Technologies; both 1:500). In order to characterizes contacts onto interneurons, we stained with Rabbit anti‐vGlut1 (1:500; Synaptic Systems, #135303), Rabbit anti‐vGlut1/2 (1:500; Synaptic Systems, #135503), Guinea pig anti‐vGAT (1:1,000; Synaptic Systems, #131308), rabbit anti‐Synapsin (1:500; Millipore), and mouse anti‐Basson (1:200; ENZO) antibodies. In order to label moto neurons, we co‐stained with rabbit anti‐ChAT antibody (1:100; Abcam, #ab178850) and NeuroTrace435 (1:200; ThermoFisher, #N21479). Primary antibodies were diluted in 0.3% Triton 20 and PBS. All secondary antibodies were kept for 2 h at room temperature with gentle shaking. Secondary antibodies used are as follows: anti‐rabbit AF647 (1:500; ThermoFisher, #A32795), anti‐guinea pig Cy3 (1:500; Jackson ImmunoResearch, #706‐165‐148), anti‐guinea pig AF633 (1:500; Sigma Aldrich, #SAB4600129).
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9

Antibodies for Protein Localization

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Primary antibodies were: polyclonal guinea pig anti- PLEKHA7 (in-house gp2737, 1:500 IF); monoclonal mouse anti-GFP (Roche Applied Science, 11814460001, 1:100 IF), polyclonal rabbit anti-PDZD11 (in-house r29958 28, 1:50 IF), mouse anti-HA (Zymed Laboratories Inc., 32-6700, 1:1000 IB), and mouse anti-His (Invitrogen, catalog number 37-2900, 1:1500 IB). Secondary antibodies were anti-mouse Alexa Fluor 488, anti-rabbit Alexa Fluor 488, anti-rabbit Cy3, anti-mouse Cy3, and anti-guinea pig Cy3 (Jackson ImmunoResearch Europe, 1:250 IF), and HRP-conjugated anti-mouse (Promega, 1:20000, IB).
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