Manuscript Title: Per capita sperm metabolism is density-dependent
Authors: Ashley Potter, Craig White, Dustin Marshall
Date updated: Tue 28 February 2023

This file contains information for all the datasets in the manuscript and can be used with 'RDE-Data-Accessibility.Rmd' and 'Supplemental_24_02.docx'

NOTE: For all datasets, NA's indicate no data in the cell

Please contact Ashley Potter if there are any other questions or concerns ashley.ashpot.potter (at) gmail.com

Csv name: RDE_data.csv

This dataset contains data on density-dependent sperm metabolism - how sperm metabolism changes across density

Description of the Data and file structure

Column names and descriptions

• Species
• Diluent_cat2: Diluent used to dilute sperm to a known concentration
• Phyla
• Class
• Order
• Family
• LNConc: actual sperm concentration (sperm per ml) that was used when metabolism was measured - [natural log transformed]
• LNMR: actual metabolic rate (microliters O2 per conc per hour) that was measured using the actual sperm concentration - [natural log transformed]
• LNpercap: per captia sperm metabolic rate (microliters O2 per spermatozoon per hour) - [natural log transformed]
• logConc: actual sperm concentration (sperm per ml) that was used when metabolism was measured - [log10 transformed]
• logMR: actual metabolic rate (microliters O2 per conc per hour) that was measured using the actual sperm concentration - [log10 transformed]
• logpercap: per captia sperm metabolic rate (microliters O2 per spermatozoon per hour) - [log10 transformed]
• Diluent_job: The job of the diluent. Used for sperm activation or extending sperm
• Extraction: Method of sperm extraction (ejaculated, extracted from the male or extracted from the female (stored))
• Sperm_MR_Note: Was sperm concentration transformed or was there no transformation needed?
• reference_MR: reference used to extract sperm metabolism data
• ref_number: number corresponding to the reference_MR
• Sperm_SD: Standard deviation of each measurement
• Sperm_SEM: Standard error of the mean for each measurement
• sample_size: Sample size used in each reference
• Fresh_or_Frozen: Sperm handling method. Was MR measured on fresh, frozen-thawed or cooled sperm?
• Endotherm_Ectotherm: Classified species as Endotherm or Ectotherm
• Internal_External: Classified species as Internal or External
• matched.species: species list for phylogeny
• Carbs: Contents of the diluent (carbohydrate-free or carbohydrate-containing)
• Sugar: Contents of the diluent shortened form (NS = No sugar, S = sugar)

Sharing/access Information

Data was collected from external sources which are references in the supplemental material Tables S1 and S3.

Title of phylogenetic tree: Phylogenentic tree that was used to run phylogenetic anayses

Csv name: RDE_tree.nwk

This represents the phylogenetic tree made from Open Tree of Life that was used in the phyogenetic analyses

Title of Dataset2: Sperm misestimation dataset

Csv name: Misestimation.csv

This dataset was used to determine the percent misestimation of sperm metabolism based on the fold change in reported sperm concentration relative to the actual sperm concentration

Description of the Data and file structure

Column names and descriptions:

• Actual_Conc: actual sperm concentration - sperm concentration (sperm per ml) that metabolism was measured at
• Stand_Conc: standardised concentration - concentration used to transform the metabolic rate using a standardised sperm concentration
• Actual_MR: actual metabolic rate (microliters O2 per sperm concentration per h) that was measured using the actual sperm concentration
• Stand_MR: standardised metabolic rate (microliters O2 per sperm concentration per h) that was reported in the paper but used a standardised concentration
• a - alpha: calculated using equation (2) in main text
• R - Respiration rate: calculated using equation (1) in main text
• Mis - misestimation: calculated using equation (3) in main text
• Percent_mis: Mis * 100
• Fold_IncDec: Fold change in concentration - calculated using equation (4) in main text
• LogFold_IncDec: log10(Fold_IncDec)

Title of Dataset3: Density-dependent estimates

Csv name: densitydep_slopes.csv

This dataset was used to compare the mean scaling exponents of density-dependent metabolism between spermatozoa, multicellular and unicellular organisms

Description of the Data and file structure

Column names and descriptions

• Type = Classification of Multicellular, unicellular or spermatozoa
• Ref = reference data was extracted from
• Slope = slope of the relationship between per-capita metabolic rate and population density

Title of Dataset4: Density-dependent sperm motility

Csv name: RDE_motility.csv

This dataset was used to understand the relationship between sperm density (sperm/ml) and motility (%)

Description of the Data and file structure

Column names and descriptions

• Motility_Percent: Percent motility that was recorded at initial activation of sperm
• Sperm_Conc: Sperm concentration (sperm per ml) that was used during measurements of sperm motility, velocity or both
• VCL: Curvilinear velocity (micrometers per second)
• VAP: Average path velocity (micrometers per second)
• VSL Straight line velocity (micrometers per second)
• MR.measures.: Does this references have concurrent measures of sperm metabolism (Y/N)?
• reference_MR: Reference used to extract metabolic rate data
• Ref_Vel_Mot: Reference used to extract motility data, velocity data or both

Sharing/access Information

Data from external sources was cited