Fin ray microchemistry of fishes to evaluate upstream fish passage

This study examined evidence of native fish passage through Brandon Road Lock and Dam (BRLD) on the Des Plaines River, Illinois, in light of proposed modifications to prevent the upstream passage of invasive carps. Direct evidence of upstream passage by native fishes at BRLD is lacking and could help to inform assessment of the impacts of barrier technology installation. Fin ray microchemistry was used to assess upstream BRLD passage in the native taxa Centrarchidae, Catostomidae, Ictaluridae, and Lepisosteidae. The fin ray edge strontium : calcium ratio (Sr:Ca) of fish sampled from the Des Plaines River upstream of BRLD and in rivers downstream of BRLD was used to characterize ranges of river-specific fin ray Sr:Ca for each taxon.

bt.snyder.2022

Format

The data frame 67,874 × 10 contains the following columns:

fish_id	integer	fish identifier
sr_ca	numeric	fin ray Strontium:Calcium along the entire laser ablation transect for each fish (entire life history) as mmol/mol
species	character	scientic name
common_name	character	common name

Details

This dataset contains Sr:Ca of water and fin ray samples of native fish to evaluate upstream fish passage through a navigation lock in the Des Plaines River (Brandon Roads Lock and Dam). Fin ray samples from several native fish taxa (catostomids, ictalurids, centrarchids, and lepisosteids) were collected in two river reaches downstream of Brandon Roads Lock and Dam, and in a river reach upstream of Brandon Roads Lock and Dam. Fin ray Sr:Ca derived from microchemistry analyses of fin ray materials from a laser ablation transect is included as both edge values and entire transect (including edge).

Instrument: LA-ICP-MS (laser ablation-inductively coupled plasma mass spectrometry)

Beam diameter: 25um

Scan speed: 5um/s

Reference materials: NIST1486 (National Institutes of Standards and Technology) and MACS-3 (United States Geological Survey microanalytical carbonate standard pressed pellet)

Source

Snyder, C. E., Oliver, D. C., Knights, B. C., Pescitelli, S. M., & Whitledge, G. W. (2022). Assessment of Native Fish Passage through Brandon Road Lock and Dam, Des Plaines River, Illinois, Using Fin Ray Microchemistry. Transactions of the American Fisheries Society, 151(2), 172-184. https://doi.org/10.1002/tafs.10345

Data availability are available at https://doi.org/10.5066/P9NIH1WC

Traversing the paper's information via Semantic Scholar ID 0399e14cf871ad43d7151609fd1e3148da9cf574 using S2miner package

Author

Liuyong Ding, ly_ding@126.com

Concepts

Fin ray, trace element, Sr/Ca

Examples

### copy data into 'dat'
dat <- bt.snyder.2022
tibble::tibble(dat)
#> # A tibble: 67,874 × 5
#>    fish_id sr_ca common_name      species              river                  
#>    <chr>   <dbl> <chr>            <chr>                <chr>                  
#>  1 D2-44   0.682 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  2 D2-44   0.677 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  3 D2-44   0.678 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  4 D2-44   0.674 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  5 D2-44   0.683 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  6 D2-44   0.682 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  7 D2-44   0.674 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  8 D2-44   0.681 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#>  9 D2-44   0.676 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#> 10 D2-44   0.684 Bigmouth Buffalo Ictiobus cyprinellus Upper Des Plaines River
#> # ℹ 67,864 more rows

if (FALSE) {
### load package
library(dplyr)
library(ggplot2)

### Fin ray sr/ca
n <- dat |>
  group_by(fish_id) |>
  count()
distance <- list()
for (i in 1:nrow(n)) {
  distance[[i]] <- seq(1, n$n[i]) / n$n[i]
}
dat$distance <- unlist(distance)

ggplot(data = dat, aes(distance, sr_ca)) +
  geom_line(aes(colour = species, group = fish_id), show.legend = F, na.rm = T) +
  facet_wrap(species ~ ., scales = "free_y") +
  xlab("Relative distance from cores to edges of the fin ray") +
  ylab("Fin ray sr:ca (mmol/mol)") +
  theme_bw() +
  theme(
    panel.grid.major = element_blank(), panel.grid.minor = element_blank(),
    panel.background = element_blank(), axis.line = element_line(colour = "black"),
    text = element_text(size = 10), legend.title = element_blank(),
    plot.title = element_text(face = "bold")
  )
}