bt.vu.2022a.RdIn order to examine the life-history strategies of key pangasiid catfishes in the Mekong River, the authors collected otoliths from 126 specimens belonging to four species in the Lower Mekong Basin. The authors analysed the otolith microchemical structure using two methods (Laser Ablation-Inductively Coupled Plasma Mass Spectrometry and Scanning X-ray Fluorescence Microscopy) to identify evidence of diadromy (movements between the ocean and upstream waters).
bt.vu.2022aThe data frame 27,522 × 13 contains the following columns:
| fish_id | character | shark identifier |
| species | character | mekong pangasiid catfishes |
| distance | numeric | distance from core to edge of otolith (um) |
| value | numeric | otolith element(E):Ca (Ba/Ca x1000;Sr/Ca x1000) |
| element | character | sr_ca or ba_ca |
| technology | character | analysis technology |
| sampling_date | character | date of sampling |
| latitude | numeric | latitude of capture |
| longitude | numeric | longitude of capture |
| length | numeric | body length (cm) |
| weight | numeric | body weight (g) |
| sex | character | fish sex |
| sectioning_plane | character | sectioning plane |
The dataset contains element(E):Ca from otolith core–edge transects of Mekong pangasiid catfishes (Pangasius bocourti, Pangasius elongatus, Pangasius krempfi, and Pangasius mekongensis).
Instrument: LA-ICP-MS (laser ablation-inductively coupled plasma mass spectrometry);SXFM (scanning x-ray fluorescence imaging)
Beam diameter: 25-30um
Scan speed: 3-10um/s
Reference materials: NIST-612 (National Institutes of Standards and Technology glass standard) and MACS-3 (United States Geological Survey microanalytical carbonate standard pressed pellet)
Note: data extraction via WebPlotDigitizer tool (Title with * label).
Vu, A. V., Baumgartner, L. J., Limburg, K. E., Doran, G. S., Mallen-Cooper, M., Gillanders, B. M., ... & Cowx, I. G. (2022). Life history strategies of Mekong pangasiid catfishes revealed by otolith microchemistry. Fisheries Research, 249, 106239.https://doi.org/10.1016/j.fishres.2022.106239
Vu, A. V. (2022). Diversity in migration patterns of selected Mekong River fishes. Charles Sturt University. https://researchoutput.csu.edu.au/en/publications/diversity-in-migration-patterns-of-selected-mekong-river-fishes
Traversing the paper's information via Semantic Scholar ID 8adc040f8c2d7913571ecf8f5cd2f3ae282c339f using S2miner package
otolith, trace element, Ba/Ca, Sr/Ca
### copy data into 'dat'
dat <- bt.vu.2022a
tibble::tibble(dat)
#> # A tibble: 27,522 × 13
#> fish_id species distance value element technology sampling_date longitude latitude length weight
#> <chr> <chr> <dbl> <dbl> <chr> <chr> <chr> <dbl> <dbl> <chr> <dbl>
#> 1 103-CLD2 Pangasiu… 1.71 2.81 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 2 103-CLD2 Pangasiu… 1.80 2.68 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 3 103-CLD2 Pangasiu… 7.86 2.56 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 4 103-CLD2 Pangasiu… 9.63 2.46 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 5 103-CLD2 Pangasiu… 14.5 2.34 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 6 103-CLD2 Pangasiu… 15.6 2.21 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 7 103-CLD2 Pangasiu… 23.6 2.05 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 8 103-CLD2 Pangasiu… 34.4 1.92 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 9 103-CLD2 Pangasiu… 42.6 1.83 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> 10 103-CLD2 Pangasiu… 53.7 1.74 Sr_Ca LA-ICPMS 2018-07-30 106. 9.51 34 600
#> # ℹ 27,512 more rows
#> # ℹ 2 more variables: sex <chr>, sectioning_plane <chr>
if (FALSE) {
### load package
library(dplyr)
library(ggplot2)
### otolith ba/ca
ggplot(data = dat[which(dat$element == "Ba_Ca"), ],
aes(distance, value)) +
geom_line(aes(colour = species, group = fish_id),
show.legend = F, na.rm = T) +
facet_grid(species ~ ., scales = "free_y") +
xlab("Distance from core to edge of otolith (um)") +
ylab("Ba/Ca (umol/mol)") +
theme_bw() +
theme(
panel.grid.major = element_blank(), panel.grid.minor = element_blank(),
panel.background = element_blank(), axis.line = element_line(colour = "black"),
text = element_text(size = 10), legend.title = element_blank(),
plot.title = element_text(face = "bold")
)
### otolith sr/ca
ggplot(data = dat[which(dat$element == "Sr_Ca"), ],
aes(distance, value)) +
geom_line(aes(colour = species, group = fish_id),
show.legend = F, na.rm = T) +
facet_grid(species ~ ., scales = "free_y") +
xlab("Distance from core to edge of otolith (um)") +
ylab("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")
)
}