Data from: First evidence of WW superfemale for hybrid sturgeon, the bester (Huso huso × Acipenser ruthenus)
Data files
Jul 26, 2022 version files 175.26 KB
Jul 24, 2024 version files 173.41 KB
Abstract
Sex control is a promising approach for cost-effective aquaculture in certain fish species. Sturgeons possess ZZ/ZW genetic sex determination system and are popular aquaculture target for high-priced black caviar originated from female roe. Therefore, the production of all-female population is highly desired, but this has not yet been achieved to date. In this study, we identified a short nucleotide sequence specific to putative Z and W scaffolds of Acipenser ruthenus genome and developed the PCR to discriminate Z and W alleles. Using this PCR, A. ruthenus (N = 1,280), A. baerii baerii (N = 66), and F2 of the bester hybrid (Huso huso × A. ruthenus: N = 31) were segregated into dimorphic pattern of a single Z amplicon and dual Z plus W amplicons, with approximately 1:1 ratio. Of those, the gonadal sexes were identified for 145 individuals, and all were concordant with their genetic sex. Additionally, we applied the Z/W-discriminative PCR for gynogenetic population of F3 bester and identified 25 out of 112 individuals (22.3%) showing only W amplicon, indicating that they are WW superfemales. These results will provide fundamental information to produce all-female sturgeons for aquaculture.
README: Data from: First evidence of WW superfemale for hybrid sturgeon, the bester (Huso huso × Acipenser ruthenus)
https://doi.org/10.5061/dryad.msbcc2g1v
In this study, we developed a PCR to discriminate Z/W sex chromosome for sturgeons.
This dataset contains the individual results of genetic and gonadal sexing for three sturgeon spesies.
Description of the data and file structure
DATA & FILE OVERVIEW
This dataset contains thee CSV files:
genetic_and_gonadal_sexes_of_cultured_sturgeons.csv, individual data collected from the aquacultured sturgeons focusing on their genetic and gonadal sexes;
gonadal_sexes_of_dead_Acipenser_ruthenus.csv, individual data collected from previously-genotyped Acipenser ruthenus and necropsied after death for gonadal sexing;
genetic_sexes_of_chromosome_manipulated_bester.csv, individual data collected from chromosome-manipulated bester genotyped for comparison between experimental groups
METHODOLOGICAL INFORMATION
Description of methods used for collection/generation of data:
genetic sex was determined by the presence/absence of Z/W amplicon from newly-developed Z/W-discrimitive PCR of sturgeons;
gonadal sex was determined by a wet mount microscopy of dissected gonad (from Ar_AQ_0001 to Ar_AQ_1280, from Ar_DE_0001 to Ar_DE_0037), a gross observation of dissected gonad (from Ab_AQ_0001 to Ab_AQ_0066), or a gross observation of gonadal tissue sampled with a biopsy probe (from Be_AQ_0001 to Be_AQ_0031)
Methods for processing the data:
genotypes of the aquacultured sturgeons were inferred from the PCR results as follows,
'ZZ' for positive on Z amplicon and negative on W amplicon,
'ZW' for positive on Z amplicon and positive on W amplicon,
'WW' for negative on Z amplicon and positive on W amplicon (none for this study);
genotypes of the chromosome-manipulated bester were categorized from the PCR results as follows,
'CatZ' for positive on Z amplicon and negative on W amplicon,
'CatZW' for positive on Z amplicon and positive on W amplicon,
'CatW' for negative on Z amplicon and positive on W amplicon
DATA-SPECIFIC INFORMATION FOR: genetic_and_gonadal_sexes_of_cultured_sturgeons.csv
Number of variables: 12
Number of cases/rows: 1,377
Variable List:
'individual_ID', identifier for individuals;
'species', scientific name of sturgeons ('bester_F2' means grandchilds of female Huso huso × male A. ruthenus);
'date_of_sampling', date of sampling for DNA source and gonadal sexing (shown in 'YYYY-MM-DD');
'age', approximate age;
'folk_length_cm', folk length in centimeter;
'body_weight_g', body weight in gram;
'body_weight_kg', body weight in kilogram;
'date_of_PCR', date for conducting PCR (shown in 'YYYY-MM-DD');
'PCR_Z_amplicon', 'positive' or 'negative' on the PCR amplicon detecting putative Z chromosome of sturgeons;
'PCR_W_amplicon', 'positive' or 'negative' on the PCR amplicon detecting putative W chromosome of sturgeons;
'inferred_genotype', 'ZZ' for positive on Z amplicon and negative on W amplicon, 'ZW' for positive on Z amplicon and positive on W amplicon;
'gonadal_sex', determined as 'ovary' or 'testis' or 'unidentified'
Missing data codes: NA (data not collected)
DATA-SPECIFIC INFORMATION FOR: gonadal_sexes_of_dead_Acipenser_ruthenus.csv
Number of variables: 5
Number of cases/rows: 37
Variable List:
'individual_ID', identifier for individuals;
'species', scientific name of sturgeons;
'date_of_sampling', date of sampling for gonadal sexing (shown in 'YYYY-MM-DD');
'inferred_genotype', 'ZZ' for positive on Z amplicon and negative on W amplicon, 'ZW' for positive on Z amplicon and positive on W amplicon, previously genotyped and divided into different aquaria;
'gonadal_sex', determined as 'ovary' or 'testis' (no 'unidentified' individuals)
Missing data codes: (no missing data)
DATA-SPECIFIC INFORMATION FOR: genetic_sexes_of_chromosome_manipulated_bester.csv
Number of variables: 10
Number of cases/rows: 384
Variable List:
'individual_ID', identifier for individuals;
'species', scientific name of sturgeons ('bester_F3' means great-grandchilds of female Huso huso × male A. ruthenus);
'experimental_group', experimental groups as 'controls' or 'triploids' or 'haploids' or 'gynogens';
'date_of_sampling', date of sampling for DNA source (shown in 'YYYY-MM-DD');
'days_post_fertilization', days post fertilization at date of sampling ('3' and '5' for embryo and '20' for swimming-up fry);
'sire_ID', 'sire_1' or 'sire_2' for donor of semen (dam is common for all individuals);
'date_of_PCR', date for conducting PCR (shown in 'YYYY-MM-DD');
'PCR_Z_amplicon', 'positive' or 'negative' on the PCR amplicon detecting putative Z chromosome of sturgeons;
'PCR_W_amplicon', 'positive' or 'negative' on the PCR amplicon detecting putative W chromosome of sturgeons;
'genotype_category', 'CatZ' for positive on Z amplicon and negative on W amplicon, 'CatZW' for positive on Z amplicon and positive on W amplicon, 'CatW' for negative on Z amplicon and positive on W amplicon
Missing data codes: (no missing data)