A key evolutionary step determining osmoregulatory ability for freshwater colonisation in early life stages of fish
Data files
Oct 24, 2023 version files 199.32 KB
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Data_for_detailed_expression_analysis.xlsx
11.89 KB
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Person-Period_data_for_survival_analysis.xlsx
183.17 KB
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README.md
4.26 KB
Abstract
Colonisation of freshwater habitats by marine animals is a remarkable evolutionary event that has enriched biodiversity in freshwater ecosystems. The acquisition of tolerance to hypotonic stress during early life stages is presumed to be essential for their successful freshwater colonisation, but very little empirical evidence has been obtained to support this idea. This study aimed to comprehend the evolutionary changes in osmoregulatory mechanisms that enhance larval freshwater tolerance in amphidromous fishes, which typically spend their larval period in marine (ancestral) habitats and the rest of their life history stages in freshwater (derived) habitats. We compared the life history patterns and changes in larval survivorship and gene expression depending on salinity among three congeneric marine-originated amphidromous goby species (Gymnogobius), which had been suggested to differ in their larval dependence on freshwater habitats. An otolith microchemical analysis and laboratory-rearing experiment confirmed the presence of freshwater residents only in G. urotaenia and higher larval survivorship of this species in the freshwater condition than in the obligate amphidromous G. petschiliensis and G. opperiens. Larval whole-body transcriptome analysis revealed that G. urotaenia from both amphidromous and freshwater-resident populations exhibited the greatest differences in expression levels of several osmoregulatory genes, including aqp3, which is critical for water discharge from their body during early fish development. The present results consistently support the importance of enhanced freshwater tolerance and osmoregulatory plasticity in larval fish to establish freshwater forms, and further identify key candidate genes for larval freshwater adaptation and colonisation in the goby group.
This README file was generated on 2023-10-24 by Yumeki Oto.
GENERAL INFORMATION
- Title of Dataset: A key evolutionary step determining osmoregulatory ability for freshwater colonisation in early life stages of fish
- Author Information
A. Principal Investigator Contact Information
Name: Yumeki Oto
Institution: National Fisheries University
Address: Shimonoseki City, Yamaguchi Prefecture, Japan
Email: angler_yumeki@yahoo.co.jp
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B. Associate or Co-investigator Contact Information
Name: Katsutoshi Watanabe
Institution: Kyoto University
Address: Kyoto City, Kyoto Prefecture, Japan
Email: watanak@terra.zool.kyoto-u.ac.jp - Date of data collection (single date, range, approximate date): 2018-2021
- Geographic location of data collection: Hokkaido, Niigata, Tokyo, Fukui, Shiga, Mie, and Kyoto Prefectures, Japan
- Information about funding sources that supported the collection of the data:
Japan Society for the Promotion of Science, Award: 17H03720
Japan Society for the Promotion of Science, Award: 18J21793
SHARING/ACCESS INFORMATION
- Licenses/restrictions placed on the data: CC0 1.0 Universal (CC0 1.0) Public Domain
- Links to publications that cite or use the data:
Oto, Y., Kuroki, M., Iida, M., Ito, R., Nomura, S., & Watanabe, K. (in press). A key evolutionary step determining osmoregulatory ability for freshwater colonisation in early life stage of fish. Journal of Experimental Biology. - Links to other publicly accessible locations of the data: None
- Links/relationships to ancillary data sets: None
- Was data derived from another source? No
A. If yes, list source(s): NA - Recommended citation for this dataset:
Oto, Y., Kuroki, M., Iida, M., Ito, R., Nomura, S., & Watanabe, K. (2023). Data from: A key evolutionary step determining osmoregulatory ability for freshwater colonisation in early life stages of fish. Dryad Digital Repository. https://doi.org/10.5061/dryad.tb2rbp03x
DATA & FILE OVERVIEW
- File List:
A) Person-Period data for survival analysis.xlsx
B) Data for osmoregulatory gene expression analysis.xlsx
- Relationship between files, if important: None
- Additional related data collected that was not included in the current data package: None
- Are there multiple versions of the dataset? No
A. If yes, name of file(s) that was updated: NA
i. Why was the file updated? NA
ii. When was the file updated? NA
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DATA-SPECIFIC INFORMATION FOR: Person-Period data for survival analysis.xlsx
- Number of variables: 5
- Number of cases/rows: There are three sheets for each fish species, each with a different number of columns as follows;
G. petschiliensis: 1796
G. opperiens: 1982
G. urotaenia: 3705 - Variable List:
- Larval ID: The same ID means the same individual.
- Day: Number of days after hatching (i.e. day-old).
- Salinity: Rearing salinity condition of larval fish: freshwater (FW) or seawater (SW) treatment.
- Event: Whether or not larval mortality occurred on each observation date. The numbers ‘0’ and ‘1’ indicate ‘dead’ and ‘alive’, respectively.
- Clutch: ID of the egg clutch (parent) from which the newly hatched larvae were derived.
- Missing data codes: None
- Specialized formats or other abbreviations used: None
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DATA-SPECIFIC INFORMATION FOR: Data for osmoregulatory gene expression analysis.xlsx
- Number of variables: 5
- Number of cases/rows: 31
- Variable List:
- PFF: Presence of freshwater forms in each species. The numbers ‘0’ and ‘1’ indicate ‘absence’ and ‘presence’ of freshwater forms, respectively.
- Salinity: Rearing salinity condition of larval fish: freshwater (0) or seawater (1) treatment.
- Population: Population from which the newly hatched larvae were derived.
- Parent: ID of the parent (egg clutch) from which the newly hatched larvae were derived.
- aqp3, slc13, slc22a16, sgk1, slc12a, cldne: Expression level of each osmoregulatory gene.
- Missing data codes: None
- Specialized formats or other abbreviations used: None
A) Person-Period data for survival analysis.xlsx
This dataset was used for a survival time analysis to evaluate larval tolerance to freshwater in the three Gymnogobius species, one of which has freshwater resident populations. In this analysis, to compare the survivorship between the freshwater and seawater groups, Cox proportional hazard models were established for each species using the coxph function in the survival R package version 3.2-13. In addition, to directly illustrate interspecific variations in the freshwater tolerance and test whether freshwater tolerant species also exhibit high survival in seawater (i.e. exhibit physiological plasticity), the survival in each salinity group was compared among the species by establishing the Cox proportional hazard models with the explanatory variable being species.
B) Data for osmoregulatory gene expression analysis.xlsx
This dataset was used to compare the magnitude of expression changes of important osmoregulatory genes in larval fish between the Gymnogobius species with and without freshwater resident populations. The target genes for this analysis were selected by identifying differentially expressed genes (DEGs) between freshwater and seawater conditions, identifying osmoregulatory DEGs using the Gene Ontology (GO) term lists, and further extracting those which have been demonstrated to be responsible for osmoregulation in teleosts through an exhaustive review of published researches. The differences in the magnitude were tested by investigating the significance of the interaction effect between the salinity and presence of freshwater forms in the species in LMMs using the lmer function.