This Gryllus_firmus_aerobic_scope_and_mito_readme.txt file was generated on 2021-09-29 by Lisa A. Treidel


GENERAL INFORMATION

1. Title of Dataset: Gryllus firmus Aerobic Scope and Mito

2. Author Information
	A. Principal Investigator Contact Information
		Name: Lisa A Treidel 
		Institution: UC Berkeley, Department of Integrative Biology 
		Address: 3040 Valley Life Sciences Building, Berkeley, CA 94720
		Email: lisa.treidel@berkeley.edu

	B. Associate or Co-investigator Contact Information
		Name: Caroline M. Williams
		Institution: UC Berkeley, Department of Integrative Biology
		Address: 3040 Valley Life Sciences Building, Berkeley, CA 94720
		Email: cmw@berkeley.edu

	
3. Date of data collection (single date, range, approximate date): 2017-12 to 2019-07

4. Geographic location of data collection: Data collected at University of California, Berkeley, California 94720

5. Information about funding sources that supported the collection of the data: Work funded by the Society of Integrative and Comparative Biology, University of California Berkely Department of Integrative Biology, and the Hellman Family Foundation 


SHARING/ACCESS INFORMATION

1. Licenses/restrictions placed on the data: NA

2. Links to publications that cite or use the data: NA

3. Links to other publicly accessible locations of the data: NA

4. Links/relationships to ancillary data sets: NA

5. Was data derived from another source? no
	A. If yes, list source(s): 

6. Recommended citation for this dataset: 
Treidel, Lisa A.; Quintanilla Ramirez, Gessen S.; Chung, Dillon J.; Menze, Michael A.; Vázquez-Medina, José P.; Williams, Caroline, M. (2022), Gryllus firmus Aerobic Scope and Mito, Dryad, Dataset, 

DATA & FILE OVERVIEW

1. File List: 
a) treadmill.csv- Metadata file with organismal metabolic rates, running performance, and tissue specific citrate synthase measures
b) mito.csv- Metadata file with oxygen consumption rates in state 2, state 3,state 3u, state 4, rcr for isolated fatbody mitochondria from G. firmus 5 day old crickets when respiring on pyruvate + malate, glutamate + malate, and palmitoylcarnatine + malate. Also have cox activity measured using ascorbate-tmpd in run with pyruvate+ malate
c) cox.csv- Metadata file with normalized cytochrome c-coxidase subunit IV expression levels from immunoblot of fatbody mitochondria isolated from indvidual G. firmus 5 day old crickets
d) Complete Analysis.R- R script used to analyze the data from three csv. files

2. Are there multiple versions of the dataset? no
	A. If yes, name of file(s) that was updated: 
		i. Why was the file updated? 
		ii. When was the file updated? 


METHODOLOGICAL INFORMATION

1. Description of methods used for collection/generation and processing of data: 
All detials of methods used for data collection and processing can be found in the Materials and Methods Section of Treidel et al. 2021.Selection on dispersal drives evolution of metabolic capacities for energy production in the wing-polymorphic sand field cricket, Gryllus firmus

2. Instrument- or software-specific information needed to interpret the data: 
R Version 4.0.0 or later. All packages required for analysis are included in "Complete Analysis.R" file.


DATA-SPECIFIC INFORMATION FOR: treadmill.csv

1. Number of variables: 19

2. Number of cases/rows: 55 individuals

3. Variable List: 
1) cricket- randomly assigned unique identifier- LW-W samples excluded 
2) morph- wing morph- LW= long wing, SW= short wing
3) m.color- status of flight muscle- p= pink and functional, w= white and non-functional
4) temp- ambient temperature of room taken at time of running trial (degrees C)
5) mass- body weight (g)
6) pronotum- length of pronotum (um)
7) maxspeed- fastest speed on treadmill reached before exhaustion (rpm)
8) time- time to exhaustion (min)
9) rmr- resting metabolic rate (ml of O2/h)
10) mmr- maximal metabolic rate (ml of O2/h)
11) leg- mass of leg muscle collected (mg)
12) fatbody- mass of fatbody collected (mg)
13) dvm- mass of dorsal ventral muscle collected (mg)
14) cs.leg- citrate synthase activity of leg mucle (umol citrate/min
15) cs.leg.p- protein content of leg tissue homogenate used in cs assay
16) cs.fatbody- citrate synthase activity of fatbody (umol citrate/min)
17) cs.fatbody.p- protein content of fatbody tissue homogenate used in cs assay
18) cs.dvm- citrate synthase activity of dvm (umol citrate/min)
19) cs.dvm.p- protein content of dvm tissue homogenate used in cs assay

4. Missing data codes: appear as blank

DATA-SPECIFIC INFORMATION FOR: mito.csv

1. Number of variables: 11

2. Number of cases/rows: 60 (20 samples each run 3X with different substrates)

3. Variable List: 
1) sample- id # of the sample
2) morph- LW= long wing or SW= short wing
3) substrate- PM= Pyruvate and Malate; PalM= Palmitoylcarnitine and Malate; GM= Glutamate and Malate
4) chamber- O2k chamber that sample was put in
5) run- 1, 2, or 3; each sample was run 3X with substrate order randomized. Run number denotes this order
6) s2- State 2 respiration; oxygen consumed in presence of substrates but no ADP
7) s3- State 3 respiration; oxygen consumed with substrate + ADP; Max oxphos 
8) s4- State 4 respiration; proton leak
9) s3u- State 3 Uncoupled; maximum rates of oxygen consumption following uncoupling
10) cox- Apparent Cytochrome c Oxidase capapacity measured by the addition of Ascorbate and Tmpd 
11) rcr- Respiratory Control Ratio; State 3/ State 4

4. Missing data codes: appear as blank

DATA-SPECIFIC INFORMATION FOR: cox.csv

1. Number of variables: 6

2. Number of cases/rows: 17

3. Variable List: 
1) sample- randomly assigned unique identifier
2) morph- wing morph- LW= long wing, SW= short wing
3) tissue- mass of fatbody collected (mg) for mitochondrial isolation
4) protein- protein concentration of mitochondrial isolate (mg/ml). 50 mg were loaded in every well
5) raw.cox- optical density of the COX-IV band on the gel
6) norm.cox- levels of expression corrected for protein loaded + normalized to SW