Genome-wide association study identifies a novel candidate gene for egg production traits in chickens
Anim Genet. 2024 Apr 11. doi: 10.1111/age.13427. Online ahead of print.ABSTRACTQingyuan partridge chicken is a renowned indigenous yellow broiler breed in China. Egg production traits are important economic traits for chickens. With the decreasing cost of whole genome resequencing, identifying candidate genes with more precision has become possible. In order to identify molecular markers and candidate genes associated with egg production traits, we conducted genome-wide association studies based on the resequencing data of 287 female Qingyuan partridge chickens. For each hen, age at first egg and egg laying rate were recor...
Source: Animal Genetics - April 12, 2024 Category: Genetics & Stem Cells Authors: Huimin Kang Yuedan Lu Weitu Zhang Guohong Hua Jiankang Gan Xuqing Deng Zhengfen Zhang Hua Li Source Type: research
Genome-wide association study identifies a novel candidate gene for egg production traits in chickens
Anim Genet. 2024 Apr 11. doi: 10.1111/age.13427. Online ahead of print.ABSTRACTQingyuan partridge chicken is a renowned indigenous yellow broiler breed in China. Egg production traits are important economic traits for chickens. With the decreasing cost of whole genome resequencing, identifying candidate genes with more precision has become possible. In order to identify molecular markers and candidate genes associated with egg production traits, we conducted genome-wide association studies based on the resequencing data of 287 female Qingyuan partridge chickens. For each hen, age at first egg and egg laying rate were recor...
Source: Animal Genetics - April 12, 2024 Category: Genetics & Stem Cells Authors: Huimin Kang Yuedan Lu Weitu Zhang Guohong Hua Jiankang Gan Xuqing Deng Zhengfen Zhang Hua Li Source Type: research
The landscape of allelic expression and DNA methylation at the bovine SGCE/PEG10 locus
In this study, we investigated allele expression of 14 genes of the SGCE/PEG10 locus in bovine somatic tissues and term placenta using a single nucleotide polymorphism (SNP)-based sequencing method. In addition to SGCE and PEG10, two conserved paternally expressed genes in human and mice, five other genes (TFPI2, GNG11, ASB4, PON1, and PON3) were paternally expressed. Three genes, BET1, COL1A2, and CASD1, exhibited tissue-specific monoallelic expression. CALCR showed monoallelic expression in tissues but biallelic expression in the placenta. Three genes, GNGT1, PPP1R9A, and PON2, showed biallelic expression in cattle. Five...
Source: Animal Genetics - April 10, 2024 Category: Genetics & Stem Cells Authors: Yinjiao Zhang Cui Zhang Weina Chen Haonan Huo Shujing Li Wenli Yu Lanjie Jin Kun Wang Shijie Li Source Type: research
Identification of candidate genes associated with milk production and mastitis based on transcriptome-wide association study
Anim Genet. 2024 Apr 9. doi: 10.1111/age.13422. Online ahead of print.ABSTRACTGenetic research for the assessment of mastitis and milk production traits simultaneously has a long history. The main issue that arises in this context is the known existence of a positive correlation between the risk of mastitis and lactation performance due to selection. The transcriptome-wide association study (TWAS) approach endeavors to combine the expression quantitative trait loci and genome-wide association study summary statistics to decode complex traits or diseases. Accordingly, we used the farmgtex project results as a complete bovin...
Source: Animal Genetics - April 10, 2024 Category: Genetics & Stem Cells Authors: Sevda Hosseinzadeh Seyed Abbas Rafat Arash Javanmard Lingzhao Fang Source Type: research
The landscape of allelic expression and DNA methylation at the bovine SGCE/PEG10 locus
In this study, we investigated allele expression of 14 genes of the SGCE/PEG10 locus in bovine somatic tissues and term placenta using a single nucleotide polymorphism (SNP)-based sequencing method. In addition to SGCE and PEG10, two conserved paternally expressed genes in human and mice, five other genes (TFPI2, GNG11, ASB4, PON1, and PON3) were paternally expressed. Three genes, BET1, COL1A2, and CASD1, exhibited tissue-specific monoallelic expression. CALCR showed monoallelic expression in tissues but biallelic expression in the placenta. Three genes, GNGT1, PPP1R9A, and PON2, showed biallelic expression in cattle. Five...
Source: Animal Genetics - April 10, 2024 Category: Genetics & Stem Cells Authors: Yinjiao Zhang Cui Zhang Weina Chen Haonan Huo Shujing Li Wenli Yu Lanjie Jin Kun Wang Shijie Li Source Type: research
Identification of candidate genes associated with milk production and mastitis based on transcriptome-wide association study
Anim Genet. 2024 Apr 9. doi: 10.1111/age.13422. Online ahead of print.ABSTRACTGenetic research for the assessment of mastitis and milk production traits simultaneously has a long history. The main issue that arises in this context is the known existence of a positive correlation between the risk of mastitis and lactation performance due to selection. The transcriptome-wide association study (TWAS) approach endeavors to combine the expression quantitative trait loci and genome-wide association study summary statistics to decode complex traits or diseases. Accordingly, we used the farmgtex project results as a complete bovin...
Source: Animal Genetics - April 10, 2024 Category: Genetics & Stem Cells Authors: Sevda Hosseinzadeh Seyed Abbas Rafat Arash Javanmard Lingzhao Fang Source Type: research
Study on the origin of the Baise horse based on whole-genome resequencing
In this study, whole-genome resequencing data from 236 horses of seven Chinese indigenous horse breeds, five foreign horse breeds, and four Przewalski's horses were used to investigate the relationships between the Baise horse and other horse breeds. The results showed that foreign horse breeds had no significant impact on the formation of the Baise horse. The two southwestern horse populations, the Debao pony and the Jinjiang horse, exhibit the closest genetic affinity with the Baise horse. This is consistent with their adjacent geographical distribution. Analysis of the migration route revealed a gene flow from the Chako...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Xiaoran Lin Mo Feng Ying Li Yu Liu Min Wang Yuanyuan Li Tao Yang Chunjiang Zhao Source Type: research
A novel QTL region for pH and meat color in Duroc pigs
Anim Genet. 2024 Apr 7. doi: 10.1111/age.13426. Online ahead of print.ABSTRACTOne of the most important processes that occur during the transformation of muscle to meat is the pH decline as a consequence of the post-mortem metabolism of muscle tissue. Abnormal pH declines lead to pork defects such as pale, soft, and exudative meat. There is genetic variance for ultimate pH and the role of some genes on this phenotype is well established. After conducting a genome-wide association study on ultimate pH using 526 purebred Duroc pigs, we identified associated regions on Sus scrofa chromosomes (SSC) 3, 8, and 15. Functional can...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Eduard Molinero Ramona N Pena Joan Estany Roger Ros-Freixedes Source Type: research
Study on the origin of the Baise horse based on whole-genome resequencing
In this study, whole-genome resequencing data from 236 horses of seven Chinese indigenous horse breeds, five foreign horse breeds, and four Przewalski's horses were used to investigate the relationships between the Baise horse and other horse breeds. The results showed that foreign horse breeds had no significant impact on the formation of the Baise horse. The two southwestern horse populations, the Debao pony and the Jinjiang horse, exhibit the closest genetic affinity with the Baise horse. This is consistent with their adjacent geographical distribution. Analysis of the migration route revealed a gene flow from the Chako...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Xiaoran Lin Mo Feng Ying Li Yu Liu Min Wang Yuanyuan Li Tao Yang Chunjiang Zhao Source Type: research
A novel QTL region for pH and meat color in Duroc pigs
Anim Genet. 2024 Apr 7. doi: 10.1111/age.13426. Online ahead of print.ABSTRACTOne of the most important processes that occur during the transformation of muscle to meat is the pH decline as a consequence of the post-mortem metabolism of muscle tissue. Abnormal pH declines lead to pork defects such as pale, soft, and exudative meat. There is genetic variance for ultimate pH and the role of some genes on this phenotype is well established. After conducting a genome-wide association study on ultimate pH using 526 purebred Duroc pigs, we identified associated regions on Sus scrofa chromosomes (SSC) 3, 8, and 15. Functional can...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Eduard Molinero Ramona N Pena Joan Estany Roger Ros-Freixedes Source Type: research
Study on the origin of the Baise horse based on whole-genome resequencing
In this study, whole-genome resequencing data from 236 horses of seven Chinese indigenous horse breeds, five foreign horse breeds, and four Przewalski's horses were used to investigate the relationships between the Baise horse and other horse breeds. The results showed that foreign horse breeds had no significant impact on the formation of the Baise horse. The two southwestern horse populations, the Debao pony and the Jinjiang horse, exhibit the closest genetic affinity with the Baise horse. This is consistent with their adjacent geographical distribution. Analysis of the migration route revealed a gene flow from the Chako...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Xiaoran Lin Mo Feng Ying Li Yu Liu Min Wang Yuanyuan Li Tao Yang Chunjiang Zhao Source Type: research
A novel QTL region for pH and meat color in Duroc pigs
Anim Genet. 2024 Apr 7. doi: 10.1111/age.13426. Online ahead of print.ABSTRACTOne of the most important processes that occur during the transformation of muscle to meat is the pH decline as a consequence of the post-mortem metabolism of muscle tissue. Abnormal pH declines lead to pork defects such as pale, soft, and exudative meat. There is genetic variance for ultimate pH and the role of some genes on this phenotype is well established. After conducting a genome-wide association study on ultimate pH using 526 purebred Duroc pigs, we identified associated regions on Sus scrofa chromosomes (SSC) 3, 8, and 15. Functional can...
Source: Animal Genetics - April 7, 2024 Category: Genetics & Stem Cells Authors: Eduard Molinero Ramona N Pena Joan Estany Roger Ros-Freixedes Source Type: research
Whole-genome resequencing uncovers diversity and selective sweep in Kazakh cattle
Anim Genet. 2024 Apr 1. doi: 10.1111/age.13425. Online ahead of print.ABSTRACTThe Kazakh cattle in the Xinjiang Uygur Autonomous Region of China are highly adaptable and have multiple uses, including milk and meat production, and use as draft animals. They are an excellent original breed that could be enhanced by breeding and hybrid improvement. However, the genomic diversity and signature of selection underlying the germplasm characteristics require further elucidation. Herein, we evaluated 26 Kazakh cattle genomes in comparison with 103 genomes of seven other cattle breeds from regions around the world to assess the Kaza...
Source: Animal Genetics - April 2, 2024 Category: Genetics & Stem Cells Authors: Lei Xu Yunyun Zhang Yang Guo Qiuming Chen Menghua Zhang Hong Chen Juan Geng Xixia Huang Source Type: research
Whole-genome resequencing uncovers diversity and selective sweep in Kazakh cattle
Anim Genet. 2024 Apr 1. doi: 10.1111/age.13425. Online ahead of print.ABSTRACTThe Kazakh cattle in the Xinjiang Uygur Autonomous Region of China are highly adaptable and have multiple uses, including milk and meat production, and use as draft animals. They are an excellent original breed that could be enhanced by breeding and hybrid improvement. However, the genomic diversity and signature of selection underlying the germplasm characteristics require further elucidation. Herein, we evaluated 26 Kazakh cattle genomes in comparison with 103 genomes of seven other cattle breeds from regions around the world to assess the Kaza...
Source: Animal Genetics - April 2, 2024 Category: Genetics & Stem Cells Authors: Lei Xu Yunyun Zhang Yang Guo Qiuming Chen Menghua Zhang Hong Chen Juan Geng Xixia Huang Source Type: research
Whole-genome resequencing uncovers diversity and selective sweep in Kazakh cattle
Anim Genet. 2024 Apr 1. doi: 10.1111/age.13425. Online ahead of print.ABSTRACTThe Kazakh cattle in the Xinjiang Uygur Autonomous Region of China are highly adaptable and have multiple uses, including milk and meat production, and use as draft animals. They are an excellent original breed that could be enhanced by breeding and hybrid improvement. However, the genomic diversity and signature of selection underlying the germplasm characteristics require further elucidation. Herein, we evaluated 26 Kazakh cattle genomes in comparison with 103 genomes of seven other cattle breeds from regions around the world to assess the Kaza...
Source: Animal Genetics - April 2, 2024 Category: Genetics & Stem Cells Authors: Lei Xu Yunyun Zhang Yang Guo Qiuming Chen Menghua Zhang Hong Chen Juan Geng Xixia Huang Source Type: research
