Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ABSTRACT: Population and evolutionary analysis of Korean native duck using whole-genome sequencing data

PROVIDER: PRJEB34846 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	final_snps_GY.vcf.gz	Vcf
	final_snps_GY.vcf.gz.tbi	Vcf
	final_snps_JA.vcf.gz	Vcf
	final_snps_JA.vcf.gz.tbi	Vcf
	final_snps_JD.vcf.gz	Vcf

Items per page:

1 - 5 of 32

Similar Datasets

Population and evolutionary analysis of Korean native duck using whole-genome sequencing data

Project description:The population and evolutionary analysis of Korean native duck was performed using single nucleotide polymorphism data by comparative and population genomic approaches with fourteen different duck breeds.

2019-10-14 | PRJEB34846 | EVA

Project description:Evolutionary and Functional analysis of Korean native pig using single nucleotide polymorphisms

| PRJEB34412 | ENA

Project description:Whole genome sequencing analysis of Korean native chicken

| PRJEB44919 | ENA

Deep Sequencing of Korean Jindo Dog Reveals Evolutionary Trajectory of Coat Color Variations

Project description:The inherent diversity of canines is closely intertwined with the unique color patterns of each dog population. These variations in color patterns are believed to have originated through mutations and selective breeding practices that occurred during and after the domestication of dogs from wolves. To address the significant gaps that persist in comprehending the evolutionary processes that underlie the development of these patterns, we generated and analyzed deep-sequenced genomes of 113 Korean indigenous Jindo dogs that represent five distinct color patterns to identify the associated mutations in CBD103, ASIP, and MC1R. The degree of linkage disequilibrium and estimated allelic ages consistently indicate that the black-and-tan dogs descend from the first major founding population on Jindo island, compatible with the documented literature. We additionally demonstrate that black-and-tan dogs, in contrast to other color variations within the breed, exhibit a closer genetic affinity to ancient wolves from western Eurasia than those from eastern Eurasia. Lastly, population-specific genetic variants with moderate effects were identified, particularly in loci associated with traits underlying body size and behavioral variations, potentially explaining the observed phenotypic diversity based on coat colors. Overall, comparisons of whole genome sequences of each coat color population diverged from the same breed provided an unprecedented glimpse into the properties of evolutionary processes maintaining variation in Korean Jindo dog populations that were previously inaccessible.

2024-04-05 | E-MTAB-13939 | biostudies-arrayexpress

Evolutionary and Functional analysis of Korean native pig using single nucleotide polymorphisms

Project description:The evolutionary and functional analysis of Korean native pig was performed using single nucleotide polymorphism data by comparative and population genomic approaches with six different mammalian species and five pig breeds.

2019-09-16 | PRJEB34412 | EVA

Gene expression profile at liver tissue of White Leghorn and four Korean native chickens

Project description:To characterize breed-specific difference among four Korean native chicken breeds and White Leghorn, we measured their transcriptomes at liver tissue using Affymetrix Chicken gene 1.0 ST array platform.

2015-12-31 | GSE63389 | GEO

Project description:Phylogenetic analysis of native Korean Iris

| PRJNA515596 | ENA

Bos taurus breed:Hanwoo

Project description:Korean native cattle (Hanwoo) Genome sequencing

| PRJNA343986 | ENA

Ogye body map RRBS data

Project description:The Yeonsan Ogye (Ogye) is the rare black chicken breed domesticated in Korean peninsula, which has been noted for entire black color upon its appearances including feather, skin, comb, eyes, shank, claws and internal organs. In this study, whole genome, transcriptome and epigenome sequencings of Ogye were performed using high-throughput NGS sequencing platforms. We have produced Illumina short-reads (Paired-End, Mate-Pair and FOSMID) and PacBio long-reads for whole genome sequencing (WGS), 1.4 billion reads for RNA-seq, and 123 million reads for RRBS (reduced representation bisulfite sequencing) data. Using WGS data, Ogye genome has been assembled, and coding/non-coding transcriptome maps were constructed on Ogye genome given largescale sequencing data. We have predicted 17,472 (3,550 newly annotated and 13,922 known) protein-coding transcripts, and 9,443 (6,689 novel and 2,754 known) long non-coding RNAs (lncRNAs).

2018-06-21 | GSE104355 | GEO

Ogye body map RNA-seq data

2018-06-21 | GSE104351 | GEO