Supporting data for "De novo screening of disease-resistant genes from the chromosome-level genome of rare minnow using CRISPR-cas9 random mutation."

Dataset type: Genomic
Data released on October 22, 2021

Huang R; Shi M; Luo L; Yang C; Ou M; Zhang W; Liao L; Li Y; Xia X; Zhu Z; Wang Y (2021): Supporting data for "De novo screening of disease-resistant genes from the chromosome-level genome of rare minnow using CRISPR-cas9 random mutation." GigaScience Database. http://dx.doi.org/10.5524/100937

DOI10.5524/100937

Mutants are important for the discovery of functional genes and creation of germplasm resources. Mutant acquisition depends on the efficiency of mutation technology and screening methods. CRISPR-Cas9 technology is an efficient gene editing technology mainly used for editing a few genes or target sites, which has not been applied for the construction of random mutant libraries and for the de novo discovery of functional genes.
In this study, we first sequenced and assembled the chromosome-level genome of wild-type rare minnow as a susceptible model of hemorrhagic disease, obtained a 956.05 M genome sequence, assembled the sequence into 25 chromosomes, and annotated 26,861 protein-coding genes. Thereafter, CRISPR-Cas9 technology was applied to randomly mutate the whole genome of rare minnow with the conserved bases (TATAWAW and ATG) of the promoter and coding regions as the target sites. The survival rate of hemorrhagic disease in the rare minnow gradually increased from 0% (the entire wild-type population died after infection) to 38.24% (F3 generation). Finally, seven susceptible genes were identified via genome comparative analysis and cell-level verification based on the rare minnow genome.
The results provided the genomic resources for wild-type rare minnow, and confirmed that the random mutation system designed using CRISPR-Cas9 technology in this study is simple and efficient, and is suitable for the de novo discovery of functional genes and creation of a germplasm related to quality traits.

Additional details

Read the peer-reviewed publication(s):

doi:10.1093/gigascience/giab075

Accessions (data generated as part of this study):

BioProject: PRJNA732062
BioProject: PRJNA732511
BioProject: PRJNA613868
BioProject: PRJNA715041





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
C143606  Gobiocypris rarus Description:DNA extracted from a mixed male & fema...
Alternative accession-BioSample:SAMN14421215
Geographic location (country and/or sea,region):Ch...
...
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DN1143606  Gobiocypris rarus Description:DNA extracted from the muscle of an ad...
Alternative accession-BioSample:SAMN19307644
Geographic location (country and/or sea,region):Ch...
...
+
GR2020143606  Gobiocypris rarus Description:DNA extracted from the muscle of an ad...
Alternative accession-BioSample:SAMN18323793
Geographic location (country and/or sea,region):Ch...
...
+
L7143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321769
Geographic location (country and/or sea,region):Ch...
...
+
P1143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321770
Geographic location (country and/or sea,region):Ch...
...
+
P2143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321771
Analyte type:DNA
...
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P3143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321772
Analyte type:DNA
...
+
P4143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321773
Analyte type:DNA
...
+
P5143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321774
Analyte type:DNA
...
+
S1143606  Gobiocypris rarus Description:DNA extracted from the caudal fin of a...
Alternative accession-BioSample:SAMN19321768
Geographic location (country and/or sea,region):Ch...
...
+
Displaying 1-10 of 13 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
TextTEXT47.58 KB2021-10-28
alignmentTEXT568.26 KB2021-10-28
Phylogenetic treeNewick0.38 KB2021-10-28
Structural variationVCF1.51 GB2021-10-09
Structural variationVCF751.4 MB2021-10-09
textTEXT1.35 MB2021-10-09
textTEXT2.48 KB2021-10-09
AnnotationGFF18.38 MB2021-10-28
AnnotationGFF22.92 MB2021-10-28
AnnotationGFF17.88 MB2021-10-09
Displaying 1-10 of 17 File(s).
Funding body Awardee Award ID Comments
National Natural Science Foundation of China R Huang 31972788
State of Key Laboratory of Freshwater Ecology and Biotechnology Y Wang 2019FBZ05
State of Key Laboratory of Freshwater Ecology and Biotechnology Y Wang 2021FB11
Date Action
October 22, 2021 Dataset publish
October 25, 2021 Manuscript Link added : 10.1093/gigascience/giab075
November 2, 2021 Title updated from : Supporting data for "De novo screening of disease-resistant genes from the chromosome-level genome of rare minnow using CRISPR-cas9 random mutation."