Oecologia Special Issue: Parasites in Aquatic Ecology
https://doi.org/10.1007/s00442-024-05520-3

Summary

The data presented in this paper is split into three distinct parts, Behavior study, Field Survey, and Survival Study. Data and Software files are named in accordance. The Behavior study was an analysis of the frequency of certain behaviors performed by grass shrimp with various parasite infections when exposed to a predator or not. The Field Survey was simple survey of grass shrimp parasite populations in four local tidal creeks. The Survival Study measured survival of grass shrimp with varying parasite infections.

See the full publication for further methodological detail.

DataFiles

BehaviorData - csv of main behavior data sheet, compiled from the raw data

trial - individual number of trial (order that they were performed in)

date - date of trial being performed

time - time of video trial taking place (all times are PM)

length - length of grass shrimp in millimeters

numTrem - number of trematode metacercaria in the individual shrimp

pred - whether a mummichog predator was included in the trial (Y) or not (N)

bop - whether the shrimp was infected with a bopyrid parasite (Y) or not (N)

trem - whether the shrimp was infected with over 10 trematode cysts (Y) or not (N)

infection - category of shrimp parasite infection (uninf = N Bop, N Trem; Bop = Y Bop, N trem; Trem = N Bop, Y Trem; Double = Y Bop, Y Trem)

swimhovdef - percentage of time budget where shrimp was swimming, hovering, or defensive

swimhov - percentage of time budget where shrimp was hovering or swimming (more obvious)

defense per - percent of budget where a defense activity occurred at a time stamp

defense - number of time stamps where a defensive behavior was occurring (used to calculate percentage)

swim - percentage of time spent swimming alone

active - percentage of time where shrimp was swimming, walking, or defensive

activeper - active * 100 (percentage instead of decimal)

defense - number of instances where grass shrimp showed a defensive behavior such as jabbing or backward thrusting (note: this is any instance of defensive behavior, not only during the 30 sec time stamps)

captive - approximate time that the grass shrimp individual spent in captivity before being used in the trial

title - title of video of trial

predOrigin - collection site of the mummichog predator (if present)

fish.length - length of the mummichog predator in millimeters (averaged from fish sharing a tank so as to reduce instances of
stress on fish); trials that did not include a fish have ‘n/a’ listed for fish.length

approxDate - approximate date of collection of the grass shrimp

shrimpOrigin - which sampling collection trip the grass shrimp were collected during

notes - misc notes on out of the ordinary happenings in videos

BehaviorDataRaw.xlsx

Excel sheet with multiple pages, shows shrimp activity for each trial video. Sheets titled after videos (i.e. 420_Double_N) are breakdowns of activity budgets for each video (type of activity at each time), note: time is not the timestamp of the video, instead it is measured from the “start” which is specified under “Timestamp”. Column 1 ‘Timestamp’ only has two entries, recording when the ‘time’ began on the video, and when behavior types were recorded. Defensive behaviors are recorded in cells that approximate the time when they occurred with actual time included in parenthesis. Blank cells indicate no defensive behavior occurring at that time. A table is included after a blank column, used to record instances of each type of behavior, used to calculate percentages. Time is recorded in minutes.

FieldSurveyData.csv

date - date when sample was collected (2021)

Month- month of sampling (each site was collected from each month ‘grouping’, the grouping usually but not always corresponded with the month it was sampled, i.e. if sites were sampled late in the month, Mott Creek’s sample may have been collected on the first of the next month instead

site - tidal creek location where sample was collected from (TW = Town, ML = Mallory, LP = Lilliput, MT = Mott)

Obs- individual number of shrimp sampled from each site each month

Length (mm) - measure of grass shrimp host length in mm from rostrum to telson

Bopyrid - number of bopyrid infections in the individual shrimp

Trematode - number of trematode cysts in each individual shrimp

Microsporidia - number of trematode cysts infected with *Haplosporidia

Opacity? - whether shrimp was opaque or not, difficult to see-through

broken - whether shrimp rostrum was broken, or if other parts were shortened (impact length)

Disease - signs of other illness, i.e. “rust disease”

Gravid - if shrimp was gravid (had visible signs of carrying eggs) or not

Notes - misc notes for individual shrimp

temp (Celsius) - from metadata, for each collection event

sal (ppt) - from metadata, for each collection event

DO - from metadata, for each collection event

DoPer - from metadata, for each collection event

Researcher - which researcher processed the individual shrimp

Other Obs - scored data from collections with sample size that was too low, these observations were not included in data analysis

FieldSurveyTripSummary.xlsx

Collection Date - Date of the collection trip

Site - Tidal creek where shrimp were collected from

Acronym - acronym for each tidal creek location

Water Temp (C) - temperature in Celsius of the water taken from the boat at the time of collection

Salinity (ppt) - salinity of the water in the tidal creek at the time of collection

DO - dissolved oxygen measure from the creek at time of collection, ‘-‘ indicate times when no measure was taken

DO Percent - percent dissolved oxygen from the creek at time of collection, ‘-‘ indicate times when no measure was taken

Number Collected - number of grass shrimp total collected during the sampling trip

Number Processed - number of grass shrimp that were available to be processed (did not die before processing began)

Date Processed - Date on which the collected sample was scored, n/a used when no processing occured

Collected By - who collected the shrimp from the boat

Processed By - who scored the sample, n/a used when no processing occured

Notes - misc notes, includes number dead, or qualitative assessment of sites during collection

SurvivalData.csv

Jar # - 5 shrimp of each infection status (see below) were included in the first block, 3 of each in the second. Each shrimp was placed in a jar and labelled with the date they started (block), infection status, and number

Inf Status - Refers to the category each shrimp was placed into, based on which parasites it was infected with. Uninf = Uninfected (neither parasite), Bop = infected with only the bopyrid, trem = infected with more than 10 trematode metacercaria, Double = infected with bopyrid and more than 10 trematode metacercaria

bop - whether shrimp had a bopyrid (1) or not (0)

trem - number of trematode metacercaria in each shrimp

length - length of shrimp host from rostrum to telson in mm

status - used in coxph, alive (0) or dead (1) at ‘time’; all shrimp died

time - days from the beginning of the trial to death for all shrimp

Start Date - shrimp were placed into the trial in two blocked starting dates, 5 of each infection status began on 31-May 2022, 3 of each were placed into the trial on 12-Jun

Death Date - date when grass shrimp was found dead

Water Changes - dates when water changes were performed (shrimp were fed for ~30 minutes before water changes)

Extra Columns with Uninf/Bop/etc. - show number of trematode metacercaria and host, were used to perform ANOVA and t-tests in excel

SoftwareFiles

BehaviorCode.R
R code for processing data and generating figures for the behavior study using BehaviorData.csv

FieldSurveyCode.R
R code for processing data and generating figures for the field survey using FieldSurveyData.csv

SurvivalCode.R
R code for processing data and generating figures for the mortality study using SurvivalData.csv