Novel SNPs of the bovine GAD1/gad67 gene and their association with growth traits in three native Chinese cattle breeds

Li, F.; Chen, H.; Lei, Chuzhao; Wang, J.; Li, Z. J.; Wang, J. Q.

doi:10.1007/s11033-009-9699-8

Cited by 14 publications

(7 citation statements)

References 12 publications

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“…The greatest differences in the physical phenotypes of these two breeds are their body size and adaptation to different environments. There are many genes that have been reported to be associated with the economic traits of cattle (Li et al, 2010;Pausch et al, 2017;Raza et al, 2018;Sun et al, 2018;Cheng et al, 2020). In particular, genes such as MYLK4 (Zheng et al, 2019), CRTC3 (Wu et al, 2018), LEPR (Guo et al, 2008), and LHX4 (Ren et al, 2010) have been reported to be associated with the growth traits of Chinese cattle breeds.…”

Section: Discussionmentioning

confidence: 99%

Whole Transcriptome Analysis Identifies the Taxonomic Status of a New Chinese Native Cattle Breed and Reveals Genes Related to Body Size

et al. 2020

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Wandong (WD) cattle has recently been identified as a new Chinese native cattle breed by the National Commission for Livestock and Poultry Genetic Resources. The population size of this breed is less than 10,000. WD cattle and Dabieshan (DB) cattle are sympatric but are raised in different ecological environments, on mountains and plains, respectively, and the body sizes of these two breeds are markedly different. Blood samples were obtained from 8 adult female WD cattle and 7 adult female DB cattle (24 months old). The total RNA was extracted from leukocyte cells, and sequencing experiments were conducted on the Illumina HiSeq TM 4000 platform. After the removal of one outlier sample from the WD cattle breed as determined by principal component analysis (PCA), phylogenetic and population structure analyses indicated that WD and DB cattle formed a distinct Central China cattle group and showed evidence of hybridization between Bos. taurus and Bos. indicus. The immune-regulator CD48 (P = 1.3E-6) was associated with breed-specific traits according to loss-offunction variant enrichment analysis. In addition, 113 differentially expressed genes were identified between the two breeds, many of which are associated with the regulation of body growth, which is the major difference between the two breeds. This study showed that WD cattle belong to the group of hybrids between Bos. Taurus and Bos. indicus, and one novel gene associated with breed traits and multiple differentially expressed genes between these two closely related breeds was identified. The results provide insights into the genetic mechanisms that underlie economically important traits, such as body size, in cattle.

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Section: Discussionmentioning

confidence: 99%

Whole Transcriptome Analysis Identifies the Taxonomic Status of a New Chinese Native Cattle Breed and Reveals Genes Related to Body Size

et al. 2020

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“…NEUROD1 is mapped to bovine chromosome 2 near QTLs for RFI, ADG, BW, and REA (Casas et al, 2003;Allais et al, 2010;Li et al, 2010;Martínez et al, 2010;Sherman et al, 2010). Seven candidate genes, including bridging integrator 1 (BIN1), asparagine synthetase domain-containing protein 1 (ASNSD1), and aldehyde oxidase (AOX1) are associated with RFI on bovine chromosome 2 (Karisa et al, 2013), near to SNPs (599C>G, 1008G>A, and 1743T>C) found in NEUROD1.…”

Section: Discussionmentioning

confidence: 99%

“…This gene is located on bovine chromosome 2, near quantitative trait loci (QTLs) for residual feed intake (RFI) (Martínez et al, 2010;Sherman et al, 2010), average daily gain (ADG) (Li et al, 2010), body weight (BW) (Casas et al, 2003), and REA (Allais et al, 2010).…”

Section: Introductionmentioning

confidence: 99%

A single nucleotide polymorphism in NEUROD1 is associated with production traits in Nelore beef cattle

Junior

et al. 2016

Genet. Mol. Res.

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ABSTRACT. Feed efficiency and carcass characteristics are latemeasured traits. The detection of molecular markers associated with them can help breeding programs to select animals early in life, and to predict breeding values with high accuracy. The objective of this study was to identify polymorphisms in the functional and positional candidate gene NEUROD1 (neurogenic differentiation 1), and investigate their associations with production traits in reference families of Nelore cattle. A total of 585 steers were used, from 34 sires chosen to represent the variability of this breed. By sequencing 14 animals with extreme residual feed intake (RFI) values, seven single nucleotide polymorphisms (SNPs) in NEUROD1 were identified. The investigation of marker effects on the target traits RFI, backfat thickness (BFT), ribeye area (REA), average body weight (ABW), and metabolic body weight (MBW) was performed with a mixed model using the restricted maximum likelihood method. SNP1062, which changes cytosine for guanine, had no significant association with RFI or REA. However, we found an additive effect on ABW (P ≤ 0.05) and MBW (P ≤ 0.05), with an estimated allele substitution effect of -1.59 and -0.93 kg 0.75 , respectively. A dominant effect of this SNP for BFT was also found (P ≤ 0.010). Our results are the first that identify NEUROD1 as a candidate that affects BFT, ABW, and MBW. Once confirmed, the inclusion of this SNP in dense panels may improve the accuracy of genomic selection for these traits in Nelore beef cattle as this SNP is not currently represented on SNP chips.

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“…The candidate gene approach is a very effective method to analyze the association between gene polymorphisms and valuable economical traits in farm animals (Rothschild and Soller, 1997). Through the candidate gene approach, studies have been performed on animal reproduction (Chu et al, 2010), growth (Li et al, 2010), and MQTs (Jiao et al, 2010), which will provide more valuable data for further research. To facilitate the Chinese indigenous cattle-breeding program, further molecular genetic information on quantitative trait loci should be collected (Adoligbe et al, 2012).…”

Section: Discussionmentioning

confidence: 99%

Novel polymorphisms of the PRKAG2 gene and their association with body measurement and meat quality traits in Qinchuan cattle

Fu¹,

Tian²,

Li³

et al. 2015

Genet. Mol. Res.

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ABSTRACT. Body measurement and meat quality traits play important roles in the evaluation of productivity and economy in cattle, which are influenced by genes and environmental factors. PRKAG2, which encodes the γ2 regulatory subunit of AMPK, is associated with key metabolic pathways in muscle. We detected bovine PRKAG2 gene polymorphisms and analyzed their associations with body measurement and meat quality traits of cattle. DNA samples were taken from 578 Qinchuan cattle aged 18-24 months. DNA sequencing, polymerase chain reaction-restriction fragment length polymorphism, and timeof-flight mass spectrometry were used to detect PRKAG2 single nucleotide polymorphisms (SNPs). Sequence analysis revealed three SNPs in exon 3 (g.95925G>A, g.95973G>C, and g.95992A>G) and (2015) one g.96058T>C mutation in intron 3. g.95973G>C, g.95992A>G, and g.96058T>C each showed 3 genotypes: GG, GC, and CC; AA, AG, and GG; and TT, TC, and CC, respectively. In contrast, g.95925G>A only showed 2 genotypes, GG and GA. Analysis showed that g.95925G>A had no effects on body measurement and meat quality traits, whereas the other 3 polymorphisms were significantly associated with some of the body measurement and meat quality traits in the Qinchuan cattle population. It is inferred that the PRKAG2 gene can be used for markerassisted selection to improve the body measurement and meat quality traits in the Qinchuan cattle population.

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Novel SNPs of the bovine GAD1/gad67 gene and their association with growth traits in three native Chinese cattle breeds

Cited by 14 publications

References 12 publications

Whole Transcriptome Analysis Identifies the Taxonomic Status of a New Chinese Native Cattle Breed and Reveals Genes Related to Body Size

Whole Transcriptome Analysis Identifies the Taxonomic Status of a New Chinese Native Cattle Breed and Reveals Genes Related to Body Size

A single nucleotide polymorphism in NEUROD1 is associated with production traits in Nelore beef cattle

Novel polymorphisms of the PRKAG2 gene and their association with body measurement and meat quality traits in Qinchuan cattle

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