The aging systemic milieu negatively regulates neurogenesis and cognitive function methods
Aim. Evidence-backed execution summary for The aging systemic milieu negatively regulates neurogenesis and cognitive function methods from The aging systemic milieu negatively regulates neurogenesis and cognitive function.
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mouse
Subject model for the experiment.
- Use
- confirm full cohort details in the source paper
Methods Summary
reagent used in the protocol.
- Use
- Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described proc...
Methods Summary
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described proc...
- Use
- Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described proc...
Cranial Irradiation
Adult mice (8-12 weeks) were sham irradiated (controls) or irradiated at 5 Gy three times over eight days using the Mark I gamma irradiator and sacrificed at 8-10 weeks after irradiation to collect brains for immunohistochemical analyses. Each mouse was placed in a restrainer that was fitted into a slot...
- Use
- Adult mice (8-12 weeks) were sham irradiated (controls) or irradiated at 5 Gy three times over eight days using the Mark I gamma irradiator and sacrificed at 8-10 weeks after irradiation to collect brains for immunohistochemical analyses. Each mouse was placed in a restrainer that was fitted into a slot...
Methods Summary
Software used for acquisition, scoring, statistics, or reporting.
- Use
- Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described proc...
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Methods Summary
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described procedures with the addition that peritonea between animals were surgically connected. Immunohistochemistry followed standard published techniques. Extracellular electrophysiology was performed as previously described. Spatial learning and memory was assayed with the RAWM paradigm as previously published. Contextual fear conditioning was assayed as previously published. Relative plasma concentrations of cytokines and signaling molecules in mice and humans were measured using antibody-based multiplex immunoassays at Rules Based Medicine, Inc. Statistical analysis was perform...
Parabiosis and flow cytometry
Parabiosis surgery followed previously described procedures. Pairs of mice were anesthetized and prepared for surgery. Mirror-image incisions at the left and right flanks, respectively, were made through the skin. Shorter incisions were made through the abdominal wall. The peritoneal openings of the adjacent parabionts were sutured together. Elbow and knee joints from each parabiont were sutured together and the skin of each mouse was stapled (9mm Autoclip, Clay Adams) to the skin of the adjacent parabiont. Each mouse was injected subcutaneously with Baytril antibiotic and Buprenex as directed for pain and monitored during recovery. Flow cytometric analysis was done on fixed and permeabilized blood plasma cells from GFP and non-GFP parabionts. Approximately 40-60% of cells in the blood of either parabiont were GFP-positive two weeks after parabiosis surgery. We observed 70̵...
Cranial Irradiation
Adult mice (8-12 weeks) were sham irradiated (controls) or irradiated at 5 Gy three times over eight days using the Mark I gamma irradiator and sacrificed at 8-10 weeks after irradiation to collect brains for immunohistochemical analyses. Each mouse was placed in a restrainer that was fitted into a slot in the lead brick shield so that the back of the skull was facing the source of radiation when positioned in the radiation chamber. The shield is constructed of lead bricks such that only the hippocampal/midbrain area were exposed to radiation. Calibration for 5 Gy radiation was done using nanoDot. Shielded areas were protected with an exposure rate 10 times lower than the exposed area. RAWM studies were done on irradiated mice at least 6 weeks after the radiation procedure. This time frame ensured adequate recovery of the animals. All data were from 8 irradiated and 10 sha...
Measurement outputs
What raw and processed outputs should exist?
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance wi...
- Raw artifact
- Per-sample or per-animal endpoint measurements collected during the experiment
- Processed artifact
- Structured table with cleaned measurements ready for comparison
- Reported as
- Summary statistics and between-group or across-timepoint comparisons
Parabiosis surgery followed previously described procedures. Pairs of mice were anesthetized and prepared for surgery. Mirror-image incisions at the left and right flanks, resp...
- Raw artifact
- Field or section images captured from matched samples
- Processed artifact
- Selected representative panels with quantified intensity, counts, or area measurements
- Reported as
- Per-group imaging summaries with representative figures and quantified endpoints
Analysis plan
How should the outputs become interpretable results?
Acquisition
Collect raw experimental outputs with enough metadata to preserve sample identity, condition, and timing.
inferred from protocolPreprocessing / cleaning
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory).
from paperScoring or quantification
Quantify the primary readouts for this experiment: Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance wi...; Parabiosis surgery followed previously described procedures. Pairs of mice were anesthetized and prepared for surgery. Mirror-image incisions at the left and right flanks, resp....
from paperStatistical comparison
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance wi...
from paperReporting output
Report representative outputs alongside summary comparisons for Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance wi..., Parabiosis surgery followed previously described procedures. Pairs of mice were anesthetized and prepared for surgery. Mirror-image incisions at the left and right flanks, resp....
inferred from protocolStructured statistical methods
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance wi...
source structuredSource and audit
What supports the facts on this page?
Evidence quotes (3)
Animals: C57BL/6 (Jackson Laboratory), C57BL/6 aged mice (National Institutes of Aging), Dcx-Luc, and C57BL/6J-Act-GFP (Jackson Laboratory). All animal use was in accordance with institutional guidelines approved by the VA Palo Alto Committee on Animal Research. Parabiosis surgery followed previously described procedures with the addition that peritonea between animals were surgically connected. Immunohistochemistry followed standard published techniques. Extracellular electrophysiology was performed as previously described. Spatial learning and memory was assayed with the RAWM paradigm as previously published. Contextual fear conditioning was assayed as previously published. Relative plasma concentrations of cytokines and signaling molecules in mice and humans were measured using antibody-based multiplex immunoassays at Rules Based Medicine, Inc. Statistical analysis was performed with Prism 5.0 software (GraphPad Software). Plasma protein correlations were analyzed with the Significance Analysis of Microarray software ( SAM 3.00 algorithm; http://www.stat.stanford.edu/~tibs/SAM/index.htm ). Experiments were carried out by investigators blinded to the treatment of animals.
Parabiosis surgery followed previously described procedures. Pairs of mice were anesthetized and prepared for surgery. Mirror-image incisions at the left and right flanks, respectively, were made through the skin. Shorter incisions were made through the abdominal wall. The peritoneal openings of the adjacent parabionts were sutured together. Elbow and knee joints from each parabiont were sutured together and the skin of each mouse was stapled (9mm Autoclip, Clay Adams) to the skin of the adjacent parabiont. Each mouse was injected subcutaneously with Baytril antibiotic and Buprenex as directed for pain and monitored during recovery. Flow cytometric analysis was done on fixed and permeabilized blood plasma cells from GFP and non-GFP parabionts. Approximately 40-60% of cells in the blood of either parabiont were GFP-positive two weeks after parabiosis surgery. We observed 70-80% survival rate in parabionts five weeks post parabiosis surgery.
Adult mice (8-12 weeks) were sham irradiated (controls) or irradiated at 5 Gy three times over eight days using the Mark I gamma irradiator and sacrificed at 8-10 weeks after irradiation to collect brains for immunohistochemical analyses. Each mouse was placed in a restrainer that was fitted into a slot in the lead brick shield so that the back of the skull was facing the source of radiation when positioned in the radiation chamber. The shield is constructed of lead bricks such that only the hippocampal/midbrain area were exposed to radiation. Calibration for 5 Gy radiation was done using nanoDot. Shielded areas were protected with an exposure rate 10 times lower than the exposed area. RAWM studies were done on irradiated mice at least 6 weeks after the radiation procedure. This time frame ensured adequate recovery of the animals. All data were from 8 irradiated and 10 sham irradiated mice.
Machine-readable layer
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