Supporting data for "Genome and population sequencing of a chromosome-level genome assembly of Chinese tapertail anchovy (Coilia nasus) provides novel insights into migratory adaptation"

Dataset type: Genomic, Transcriptomic
Data released on November 28, 2019

Xu G; Bian C; Nie Z; Li J; Wang Y; Xu D; You X; Liu H; Gao J; Li H; Liu K; Yang J; Li Q; Shao N; Zhuang Y; Fang D; Jiang T; Lv Y; Huang Y; Gu R; Xu J; Ge W; Shi Q; Xu P (2019): Supporting data for "Genome and population sequencing of a chromosome-level genome assembly of Chinese tapertail anchovy (Coilia nasus) provides novel insights into migratory adaptation" GigaScience Database. http://dx.doi.org/10.5524/100677

DOI10.5524/100677

Seasonal migration is one of the most spectacular events in nature; however, detailed mechanisms related to this interesting phenomenon have not been investigated in detail. Chinese tapertail anchovy, Coilia nasus , is a valuable migratory fish of high economic importance and special migratory dimorphism (with certain individuals as non-migratory residents).
In this study, an 870.0 Mb highquality genome was assembled by the combination of Illumina and PacBio sequencing. 812.1 Mb of scaffolds were linked to 24 chromosomes using a high-density genetic map from a family of 104 full siblings and their parents. In addition, population sequencing of 96 representative individuals from diverse areas along the putative migration path confirmed the involvement of 150 genes in migratory adaption. Based on integrative genomic and transcriptomic analyses, we determined that three Ca 2+ - related pathways are critical for the promotion of migratory adaption. A large number of molecular markers were also identified, which distinguished migratory individuals and non-migratory freshwater residents.
We assembled a chromosome-level genome for the Chinese tapertail anchovy. The genome provided a valuable genetic resource for understanding migratory adaption and population genetics, and will benefit the aquaculture and management of this economically important fish.

Additional details

Read the peer-reviewed publication(s):

(PubMed: 31895412)

Accessions (data generated as part of this study):

BioProject: PRJNA421870
BioProject: PRJNA422339





Sample IDTaxonomic IDCommon NameGenbank NameScientific NameSample Attributes
Coilia nasus_lib1365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib10365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib11365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib12365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib13365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib2365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib3365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib4365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib5365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Coilia nasus_lib6365059  Coilia nasus Description:DNA extracted from the fin of a Chines...
Common name:Chinese tapertail anchovy
Alternative accession-BioProject:PRJNA422339
...
+
Displaying 1-10 of 110 Sample(s).




File NameSample IDData TypeFile FormatSizeRelease Date 
SNPsVCF434.13 MB2019-11-25
otherTEXT0.92 KB2019-11-25
Coding SequenceFASTA34.91 MB2019-11-25
Sequence assemblyFASTA790.03 MB2019-11-25
annotationGFF18.41 MB2019-11-25
protein sequenceFASTA13.15 MB2019-11-25
readme.txtTEXT2.84 KB2019-11-28
Repeat sequenceGFF482.23 MB2019-11-25
scriptUNKNOWN2.6 KB2019-11-25
Phylogenetic treeUNKNOWN2.36 KB2019-11-25
Displaying 1-10 of 10 File(s).
Funding body Awardee Award ID Comments
National Natural Science Foundation of China G Xu 31672643
Date Action
November 28, 2019 Dataset publish
December 30, 2019 Manuscript Link added : 10.1093/gigascience/giz157
October 14, 2022 Manuscript Link updated : 10.1093/gigascience/giz157