Data from: Vocal and tongue exercise in early to mid-stage Parkinson disease using the Pink1-/- rat
Data files
Nov 13, 2024 version files 232.39 KB
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10mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx
11.33 KB
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6mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx
11.06 KB
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NP_6mo_USV_IDs_Removed.xlsx
63.04 KB
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NP_USV_10mo_IDs_Removed.xlsx
53.94 KB
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NP6_10Tongue_IDs_Removed.xlsx
49.35 KB
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Optical_Density_Procedure_1.28.2022.docx
18.76 KB
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README.md
24.90 KB
Abstract
Vocal and swallowing deficits are common in Parkinson disease (PD). Because these impairments are resistant to dopamine replacement therapies, vocal and lingual exercise are the primary treatment, but not all individuals respond to exercise and neural mechanisms of treatment response are unclear. To explore putative mechanisms, we used the progressive Pink1-/- rat model of early to mid-stage PD and employed vocal and lingual exercises at 6- and 10-months of age in male Pink1-/- and wild type (WT) rats. We hypothesized that vocal and lingual exercise would improve vocal and tongue use dynamics and increase serotonin (5HT) immunoreactivity in related brainstem nuclei. Rats were tested at baseline and after 8 weeks of exercise or sham exercise. At early-stage PD (6 months), vocal exercise resulted in increased call complexity, but did not change intensity, while at mid-stage (10 months), vocal exercise no longer influenced vocalization complexity. Lingual exercise increased tongue force generation and reduced relative optical density of 5HT in the hypoglossal nucleus at both time points. The effects of vocal and lingual exercise at these time points are less robust than in prodromal stages observed in previous work, suggesting that early exercise interventions may yield greater benefit. Future work targeting optimization of exercise at later time points may facilitate clinical translation.
Description of the data, software, and file structure
We have uploaded the relative optical density averages for the 6month old animals (6mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx), the relative optical density averages for the 10 month old animals (10mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx), the USV statistical data for the 6 month old animals (NP_6mo_USV_IDs_Removed.xlsx), the USV statistical data for the 10 month old animals (NP_USV_10mo_IDs_Removed.xlsx), the tongue force data for both the 6 and 10 month old animals (NP6_10Tongue_IDs_Removed.xlsx), and the protocol used for collecting the relative optical density (Optical_Density_Procedure_1.28.2022.docx).
Abbreviations
WT- Wild type
RoD- Relative Optical Density
12N- Hypoglossal Nucleus
Rob- Nucleus Raphe Obscurus
N/A- Not applicable, used to fill cells that were missing/did not have data for them.
Software_Descriptions
1)Image J
This program was used to process and analyze the captured microscopic images of the stained brain tissues.
2)DeepSqueak
This program was used to analyze, characterize and draw values for statistical analysis from calls collected using and ultrasonic microphone. This program is accessed through the MatLab program.
File_Description
1)6mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx
ID- Randomized number assigned to identify an animal. Removed to de-identify the data.
12N_RoD_Average- The average relative optical density found in the hypoglossal nucleus.
Rob_RoD_Average- The average relative optical density found in the nucleus raphe obscurus.
Condition-
Pink_Exercise- Pink1-/- animals that underwent exercise conditions.
Pink_Non- Pink1-/- animal that did not ungerdo any exericise conditions.
WT_Control- Wild type animal used as a control.
2)10mo_RoD_Averages_Master_Sheet_IDs_Removed.xlsx
ID- Randomized number assigned to identify an animal.
12N_RoD_Averages- The average relative optical density found in the hypoglossal nucleus.
Rob_RoD_Averages- The average relative optical density found in the nucleus raphe obscurus.
Condition-
Pink_Exercise- Pink1-/- animals that underwent exercise conditions.
Pink_Sham- Pink1-/- animal that did not undergo any exercise conditions.
WT_Sham- Wild Type animal used as a control.
3)NP_6mo_USV_IDs_Removed.xlsx
ID- Randomized number assigned to identify an animal. Removed to de-identify the data.
Timpepoint-
Baseline- The initial testing day.
Final- Final testing day.
Condition-
Pink_non- Pink1 knockout animals that did not undergo exercise conditions.
Pink_exercise- Pink1 knockout animals that underwent exercise conditions.
WT- Wild type animals used as a control.
Total_Calls_All- The total amount of calls the animal made.
Average_Duration_All- The average duration of calls measured in miliseconds.
Max_Duration_All- The max duration for all calls made.
Top_10 _Duration_All- The average of the top 10 calls with the longest duration for all calls made.
Average _Bandwidth_All- The average bandwidth for all calls the animal made. Measured in kHz.
Max_Bandwidth_All- The maximum bandwidth of all calls the animal made. Measured in kHz.
Top_10_Bandwidth_All- The average bandwidth of the top 10 of all calls the animals made. Measured in kHz.
Average_Intensity_All- The average intensity of all calls made.
Max_Intensity_All- The maximum intensity of all calls the animal made.
Top_10-Intensity_All- The average intenstity of the top 10 of all calls the animal made.
Average_Peak_Frequency_All- The average peak frequency of all calls the animal made. Measured in kHz.
Max_Peak_Frequency_All- The maximum peak frequency of all the calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_All- The average of the top 10 peak frequencies of all the calls the animal made.
Percent_Complex_All- The percentage of calls the animal made that fell into the complex category.
Range_of_Intensity_All- The range of intensity of all calls the animal made.
Call_Rate_All- The rate at which the animal called for all calls made.
Total_Calls_Simple- The total amount of simple calls the animal made.
Average_Duration_Simple- The average duration of simple calls the animal made measured in miliseconds.
Max_Duration_Simple- The max duration for all simple calls made.
Top_10_Duration_Simple- The average of the top 10 calls with the longest duration for all simple calls made.
Average_Bandwidth_Simple- The average bandwidth for all simple calls the animal made. Measured in kHz.
Max_Bandwidth_Simple- The maximum bandwidth of all simple calls the animal made. Measured in kHz.
Top_10_Bandwidth_Simple- The average bandwidth of the top 10 of all simple calls the animals made. Measured in kHz.
Average_Intensity_Simple- The average intensity of all simple calls made.
Max_Intensity_Simple- The maximum intensity of all simple calls the animal made.
Top_10_Intensity_Simple- The average intenstity of the top 10 of all simple calls the animal made.
Average_Peak_Frequency_Simple- The average peak frequency of all simple calls the animal made. Measured in kHz.
Max_Peak_Frequency_Simple- The maximum peak frequency of all simple calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Simple- The average of the top 10 peak frequencies of all simple calls the animal made. Measured in kHz.
Percent_Complex_Simple- The percentage of simple calls the animal made that fell into the complex category.
Range_of_Intensity_Simple- The range of intensity of all simple calls the animal made.
Call_Rate_Simple- The rate at which the animal called for all calls made.
Total_Calls_Simple_cmpd- The total amount of simple compound calls the animal made.
Average_Duration_Simple_cmpd- The average duration of simple compound calls the animalmade measured in miliseconds.
Max_Duration_Simple_cmpd- The max duration for all simple compound calls made.
Top_10_Duration_Simple_cmpd- The average of the top 10 calls with the longest duration for all simple compound calls made.
Average_Bandwidth_Simple_cmpd- The average bandwidth for all simple compound calls the animal made. Measured in kHz.
Max_Bandwidth_Simple_cmpd- The maximum bandwidth of all simple compound calls the animal made. Measured in kHz.
Top_10_Bandwidth_Simple_cmpd- The average bandwidth of the top 10 of all simple compound calls the animals made. Measured in kHz.
Average_Intensity_Simple_cmpd- The average intensity of all simple compound calls made.
Max_Intensity_Simple_cmpd- The maximum intensity of all simple compound calls the animal made.
Top_10_Intensity_Simple_cmpd- The average intenstity of the top 10 of all simple compound calls the animal made.
Average_Peak_Freq_Simple_cmpd- The average peak frequency of all simple compound calls the animal made. Measured in kHz.
Max_Peak_Frequency_Simple_cmpd- The maximum peak frequency of all simple compound calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Simple_cmpd- The average of the top 10 peak frequency simple compound calls the animal made. Measured in kHz.
Percent_Complex_Simple_cmpd- The percentage of simple compound calls the animal made that fell into the complex category.
Range_of_Intensity_Simple_cmpd- The range of intensity of all simple compound calls the animal made.
Call_Rate_Simple_cmpd- The rate at which the animal called for all simple compound calls made.
Total_Calls_Harmonic- The total amount of harmonic calls the animal made.
Average_Duration_Harmonic- The average duration of harmonic calls in miliseconds.
Max_Duration_Harmonic- The max duration for all harmonic calls made.
Top_10_Duration_Harmonic- The average of the top 10 calls with the longest duration for all harmonic calls made.
Average_Bandwidth_Harmonic- The average bandwidth for all harmonic calls the animal made. Measured in kHz.
Max_Bandiwdth_Harmonic- The maximum bandwidth of all harmonic calls the animal made. Measured in kHz.
Top_10_Bandwidth_Harmonic- The average bandwidth of the top 10 of all harmonic calls the animals made. Measured in kHz.
Average_Intensity_Harmonic- The average intensity of all harmonic calls made.
Max_Intensity_Harmonic- The maximum intensity of all harmonic calls the animal made.
Top_10_Intensity_Harmonic- The average intenstity of the top 10 of all harmonic calls the animal made.
Average_Peak_Frequency_Harmonic- The average peak frequency of all harmonic calls the animal made. Measured in kHz.
Max_Peak_Frequency_Harmonic- The maximum peak frequency of all harmonic calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Harmonic- The average of the top 10 peak frequencies of all harmonic calls the animal made. Measured in kHz.
Percent_Complex_Harmonic- The percentage of harmonoic calls the animal made that fell into the complex category.
Range_of_Intensity_Harmonic- The range of intensity of all harmonic calls the animal made.
Call_Rate_Harmonic- The rate at which the animal called for all harmonic calls made.
Total_Calls_FM- The total amount of frequency modulated calls the animal made.
Average_Duration_FM- The average duration of frequency modulated calls in miliseconds.
Max_Duration_FM- The max duration for all frequency modulated calls made.
Top_10_Duration_FM- The average of the top 10 calls with the longest duration for all frequency modulated calls made.
Average_Bandwidth_FM- The average bandwidth for all frequency modulated calls the animal made. Measured in kHz.
Max_Bandiwdth_FM- The maximum bandwidth of all frequency modulated calls the animal made. Measured in kHz.
Top_10_Bandwidth_FM- The average bandwidth of the top 10 of all frequency modulated calls the animals made. Measured in kHz.
Average_Intensity_FM- The average intensity of all frequency modulated calls made.
Max_Intensity_FM- The maximum intensity of all frequency modualted calls the animal made.
Top_10_Intensity_FM- The average intenstity of the top 10 of all frequency modulated calls the animal made.
Average_Peak_Frequency_FM- The average peak frequency of all frequency modulated calls the animal made. Measured in kHz.
Max_Peak_Frequency_FM- The maximum peak frequency of all frequency modulated calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_FM- The average of the top 10 peak frequencies of all frequency modulated calls the animal made. Measured in kHz.
Percent_Complex_FM- The percentage of frequency modulated calls the animal made that fell into the complex category.
Range_of_Intensity_FM- The range of intensity of all frequency modulated calls the animal made.
Call_Rate_FM- The rate at which the animal called for all frequency modulated calls made.
Proportion_of_Calls_Simple- The proportion of all calls made that were categorized as simple.
Proportion_of_Calls_Simple_cmpd- The proportion of all calls made that were categorized as simple compound.
Proportion_of_Calls_Harmonic- The proportion of all calls made that were categorized as harmonic.
Proportion_of_Calls_FM- The proportion of all calls made that were categorized as frequency modulated.
4)NP_USV_10mo_IDs_Removed.xlsx
ID- Randomized number assigned to identify an animal. Removed to de-identify the data.
Timpepoint-
Baseline- The initial testing day.
Final- Final testing day.
Condition-
Pink_non- Pink1 knockout animals that did not undergo exercise conditions.
Pink_exercise- Pink1 knockout animals that underwent exercise conditions.
WT- Wildetype animals used as a control.
Total_Calls_All- The total amount of calls the animal made.
Average_Duration_All- The average duration of calls measured in miliseconds.
Max_Duration_All- The max duration for all calls made.
Top_10 _Duration_All- The average of the top 10 calls with the longest duration for all calls made.
Average _Bandwidth_All- The average bandwidth for all calls the animal made. Measured in kHz.
Max_Bandwidth_All- The maximum bandwidth of all calls the animal made. Measured in kHz.
Top_10_Bandwidth_All- The average bandwidth of the top 10 of all calls the animals made. Measured in kHz.
Average_Intensity_All- The average intensity of all calls made.
Max_Intensity_All- The maximum intensity of all calls the animal made.
Top_10-Intensity_All- The average intenstity of the top 10 of all calls the animal made.
Average_Peak_Frequency_All- The average peak frequency of all calls the animal made. Measured in kHz.
Max_Peak_Frequency_All- The maximum peak frequency of all the calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_All- The average of the top 10 peak frequencies of all the calls the animal made. Measured in kHz.
Percent_Complex_All- The percentage of calls the animal made that fell into the complex category.
Range_of_Intensity_All- The range of intensity of all calls the animal made.
Call_Rate_All- The rate at which the animal called for all calls made.
Total_Calls_Simple- The total amount of simple calls the animal made.
Average_Duration_Simple- The average duration of simple calls the animal made measured in miliseconds.
Max_Duration_Simple- The max duration for all simple calls made.
Top_10_Duration_Simple- The average of the top 10 calls with the longest duration for all simple calls made.
Average_Bandwidth_Simple- The average bandwidth for all simple calls the animal made. Measured in kHz.
Max_Bandwidth_Simple- The maximum bandwidth of all simple calls the animal made. Measured in kHz.
Top_10_Bandwidth_Simple- The average bandwidth of the top 10 of all simple calls the animals made. Measured in kHz.
Average_Intensity_Simple- The average intensity of all simple calls made.
Max_Intensity_Simple- The maximum intensity of all simple calls the animal made.
Top_10_Intensity_Simple- The average intenstity of the top 10 of all simple calls the animal made.
Average_Peak_Frequency_Simple- The average peak frequency of all simple calls the animal made. Measured in kHz.
Max_Peak_Frequency_Simple- The maximum peak frequency of all simple calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Simple- The average of the top 10 peak frequencies of all simple calls the animal made. Measured in kHz.
Percent_Complex_Simple- The percentage of simple calls the animal made that fell into the complex category.
Range_of_Intensity_Simple- The range of intensity of all simple calls the animal made.
Call_Rate_Simple- The rate at which the animal called for all calls made.
Total_Calls_Simple_cmpd- The total amount of simple compound calls the animal made.
Average_Duration_Simple_cmpd- The average duration of simple compound calls the animalmade measured in miliseconds.
Max_Duration_Simple_cmpd- The max duration for all simple compound calls made.
Top_10_Duration_Simple_cmpd- The average of the top 10 calls with the longest duration for all simple compound calls made.
Average_Bandwidth_Simple_cmpd- The average bandwidth for all simple compound calls the animal made. Measured in kHz.
Max_Bandwidth_Simple_cmpd- The maximum bandwidth of all simple compound calls the animal made. Measured in kHz.
Top_10_Bandwidth_Simple_cmpd- The average bandwidth of the top 10 of all simple compound calls the animals made. Measured in kHz.
Average_Intensity_Simple_cmpd- The average intensity of all simple compound calls made.
Max_Intensity_Simple_cmpd- The maximum intensity of all simple compound calls the animal made.
Top_10_Intensity_Simple_cmpd- The average intenstity of the top 10 of all simple compound calls the animal made.
Average_Peak_Freq_Simple_cmpd- The average peak frequency of all simple compound calls the animal made. Measured in kHz.
Max_Peak_Frequency_Simple_cmpd- The maximum peak frequency of all simple compound calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Simple_cmpd- The average of the top 10 peak frequency simple compound calls the animal made. Measured in kHz.
Percent_Complex_Simple_cmpd- The percentage of simple compound calls the animal made that fell into the complex category.
Range_of_Intensity_Simple_cmpd- The range of intensity of all simple compound calls the animal made.
Call_Rate_Simple_cmpd- The rate at which the animal called for all simple compound calls made.
Total_Calls_Harmonic- The total amount of harmonic calls the animal made.
Average_Duration_Harmonic- The average duration of harmonic calls in miliseconds.
Max_Duration_Harmonic- The max duration for all harmonic calls made.
Top_10_Duration_Harmonic- The average of the top 10 calls with the longest duration for all harmonic calls made.
Average_Bandwidth_Harmonic- The average bandwidth for all harmonic calls the animal made. Measured in kHz.
Max_Bandiwdth_Harmonic- The maximum bandwidth of all harmonic calls the animal made. Measured in kHz.
Top_10_Bandwidth_Harmonic- The average bandwidth of the top 10 of all harmonic calls the animals made. Measured in kHz.
Average_Intensity_Harmonic- The average intensity of all harmonic calls made.
Max_Intensity_Harmonic- The maximum intensity of all harmonic calls the animal made.
Top_10_Intensity_Harmonic- The average intenstity of the top 10 of all harmonic calls the animal made.
Average_Peak_Frequency_Harmonic- The average peak frequency of all harmonic calls the animal made. Measured in kHz.
Max_Peak_Frequency_Harmonic- The maximum peak frequency of all harmonic calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_Harmonic- The average of the top 10 peak frequencies of all harmonic calls the animal made. Measured in kHz.
Percent_Complex_Harmonic- The percentage of harmonoic calls the animal made that fell into the complex category.
Range_of_Intensity_Harmonic- The range of intensity of all harmonic calls the animal made.
Call_Rate_Harmonic- The rate at which the animal called for all harmonic calls made.
Total_Calls_FM- The total amount of frequency modulated calls the animal made.
Average_Duration_FM- The average duration of frequency modulated calls in miliseconds.
Max_Duration_FM- The max duration for all frequency modulated calls made.
Top_10_Duration_FM- The average of the top 10 calls with the longest duration for all frequency modulated calls made.
Average_Bandwidth_FM- The average bandwidth for all frequency modulated calls the animal made. Measured in kHz.
Max_Bandiwdth_FM- The maximum bandwidth of all frequency modulated calls the animal made. Measured in kHz.
Top_10_Bandwidth_FM- The average bandwidth of the top 10 of all frequency modulated calls the animals made. Measured in kHz.
Average_Intensity_FM- The average intensity of all frequency modulated calls made.
Max_Intensity_FM- The maximum intensity of all frequency modualted calls the animal made.
Top_10_Intensity_FM- The average intenstity of the top 10 of all frequency modulated calls the animal made.
Average_Peak_Frequency_FM- The average peak frequency of all frequency modulated calls the animal made. Measured in kHz.
Max_Peak_Frequency_FM- The maximum peak frequency of all frequency modulated calls the animal made. Measured in kHz.
Top_10_Peak_Frequency_FM- The average of the top 10 peak frequencies of all frequency modulated calls the animal made. Measured in kHz.
Percent_Complex_FM- The percentage of frequency modulated calls the animal made that fell into the complex category.
Range_of_Intensity_FM- The range of intensity of all frequency modulated calls the animal made.
Call_Rate_FM- The rate at which the animal called for all frequency modulated calls made.
Proportion_of_Calls_Simple- The proportion of all calls made that were categorized as simple.
Proportion_of_Calls_Simple_cmpd- The proportion of all calls made that were categorized as simple compound.
Proportion_of_Calls_Harmonic- The proportion of all calls made that were categorized as harmonic.
Proportion_of_Calls_FM- The proportion of all calls made that were categorized as frequency modulated.
5)NP6_10Tongue_IDs_Removed.xlsx
Group- Randomly assigned group number
Timepoint-
Baseline- Initail testing day
Final- Final testing day
Animal_ID- Randomized number assigned to identify an animal. Removed to de-identify the data.
Max_Press- Highest pressed value in grams
Max_Press_mN- Highest pressed value in milinewtons
Avg_Top_Ten- Average of 10 highest presses
SD_Top_Ten- Standard deviation for the 10 highest presses
Avg_All- Average press force for whole session
SD_All- Standard deviation for all tongue presses.
Coefficient_of_Variation- Statistical measure to express the relative dispersion of data points around the mean.
Weight- Weight of the animal
Genotype-
Pink1- Animal that is a Pink1 gene knockout
WT- Standard wildtype rat
End_Point- Age of animal in months at time of Final collection timepoint
Treatment-
Pink_Exercise- Pink1 knockout animals that underwent exercise conditions
Pink_non- Pink1 knockout animals that did not undergo exercise conditions
WT- Wildetype animals used as a control
Pressrate30- Number of presses from 0-30 seconds
Pressrate60- Number of presses from 31-60 seconds
Pressrate90- Number of presses from 61-90 seconds
Pressrate120- Number of presses from 91-120 seconds
Pressrate150- Number of presses from 121-150 seconds
Pressrate180- Number of presses from 151-180 seconds
Pressrate210- Number of presses from 181-210 seconds
Pressrate240- Number of presses from 211-240 seconds
Pressrate270- Number of presses from 241-270 seconds
Pressrate300- Number of presses from 271-300 seconds
Pressure30- Amount of pressure in milinewtons from 0-30 seconds
Pressure60- Amount of pressure in milinewtons from 31-60 seconds
Pressure90- Amount of pressure in milinewtons from 61-90 seconds
Pressure120- Amount of pressure in milinewtons from 91-120 seconds
Pressure150- Amount of pressure in milinewtons from 121-150 seconds
Pressure180- Amount of pressure in milinewtons from 151-180 seconds
Pressure210- Amount of pressure in milinewtons from 181-210 seconds
Pressure240- Amount of pressure in milinewtons from 211-240 seconds
Pressure270- Amount of pressure in milinewtons from 241-270 seconds
Pressure300- Amount of pressure in milinewtons from 271-300 seconds
6)Optical_Density_Procedure_1.28.2022.docx
Word document (.docx) that contains a walkthrough of the process and steps used to evaluate the tissue collected to find the relative optical density values.
Experimental design
Table 1. Distribution of rats by condition and genotype in the 6 month and 10 month cohorts.
6 Month Cohort | ||
---|---|---|
Condition | Genotype | N |
Exercise | Pink1-/- | 12 |
Sham Exercise | Pink1-/- | 12 |
Sham Exercise | WT | 12 |
10 Month Cohort | ||
Condition | Genotype | N |
Exercise | Pink1-/- | 14 |
Sham Exercise | Pink1-/- | 8 |
Sham Exercise | WT | 8 |
Tongue Excercise
Tongue force and timing behaviors testing & analysis
Vocal Excercise
USV analysis
Tissue Processing
Tissue Slicing
Immunohistochemistry
Microscopy and relative optical density analysis