Y chromosome diversity and paternal origin of Chinese cattle

Li, Ran; Xie, Wenmei; Chang, Zhenhua; Wang, Shaoqiang; Dang, Ruihua; Lan, Xianyong; Chen, Hong; Lei, Chuzhao

doi:10.1007/s11033-013-2777-y

Cited by 12 publications

(13 citation statements)

References 12 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Subsequent investigations using Y-SNPs and Y-STRs further confirmed that Y2 dominates the north (91.4%) and Y3 in the south of China (90.8%) . All the three haplogroups described in cattle (Y1, Y2 and Y3) have also been detected in Southwest Asia, where Y3 is found to be limited in Bos indicus of Indian subcontinent and China (Edwards et al, 2011;Chang et al, 2011;Zhang et al, 2013;Li et al, 2013). In the present investigation three haplogroup (Y1, Y2 and Y3) have been detected (Table 3).…”

Section: Resultssupporting

confidence: 73%

Y-chromosome variation in Indian native cattle breeds and crossbred population

Ganguly

Kumar

Singh

et al. 2017

IJAR

View full text Add to dashboard Cite

The paternally inherited Y chromosome markers have been used widely in population genetic studies to trace paternal lineages, to understand differences in migration pattern and populations admixture in animals. In the absence of crossing over, Y-chromosomal markers in the non-recombining male-specific region (MSY) are mostly transmitted as a haplotype. Recent studies of five polymorphic sites on DDX3Y, UTY and ZFY genes of bull MSY assisted in the identification of three haplogroups (Y1, Y2 and Y3) in contemporary cattle. Here we report the screening of five SNPs (ZFY9-120> C/T; ZFY10-655> C/T; DDX3Y1-425>C/T; DDX3Y7 -123>C/T and UTY19-423>C/A) of bull MSY employing optimized and validated allele-specific PCR (AS-PCR) protocols that are useful in effective differentiation of bull/semen samples of Bos indicus and Bos taurus origin. Three haplogroups (Y1, Y2 and Y3) were identified in the present study by the screening of 181 bulls from 10 native cattle breeds and 50 HF crossbred. Y1 and Y2 haplogroups were restricted to HF crossbred with a frequency of 0.98 and 0.02, respectively. The high frequency of Y1 haplogroups is possibly due to the occurrence of Y1 lineage predominantly in HF bulls. All the native cattle breeds were observed to have pure indicine lineage (Y3). These cost effective AS-PCR protocols may be useful for reliable and accurate genotyping of Y-SNPs in diverse native cattle breeds, exotic and crossbred cattle populations.

show abstract

Section: Resultssupporting

confidence: 73%

Y-chromosome variation in Indian native cattle breeds and crossbred population

Ganguly

Kumar

Singh

et al. 2017

IJAR

View full text Add to dashboard Cite

show abstract

“…Several investigations of cattle CNVs have been conducted, focusing mostly on breed-specific patterns of CNV ( Bae et al 2010 ; Fadista et al 2010 ; Liu et al 2010 ; Hou et al 2011 ; Stothard et al 2011 ; Zhan et al 2011 ; Bickhart et al 2012 ; Jiang et al 2012 , 2013 ). However, modern breeding practices commonly used in the cattle industry include artificial insemination and hybridization of breeds (thereby introducing more variation in CNVs), for example, when importing foreign excellent cattle sperm for insemination of Chinese cows ( Li, Xie, et al 2013 ). This highlights the necessity for additional, comparative investigations of lineage-specific patterns of CNVs.…”

Section: Introductionmentioning

confidence: 99%

“…Analysis of Y-chromosome SNPs identified three haplotypes, namely Y 1 (taurine origin), Y 2 (taurine) and Y 3 (indicine) ( Götherström et al 2005 ), and subsequent investigations using Y-SNPs and Y-STRs confirmed that Y 2 dominated in the north (91.4%) and Y 3 in the south of China (90.8%) ( Li, Zhang, et al 2013 ). A number of studies also suggest that hybridization and introgression of taurine and indicine cattle occurred, especially in central parts of China, but inferences were mostly made on the basis of mtDNA and Y-chromosomal information only ( Lai et al 2006 ; Jia et al 2010 ; Li, Xie, et al 2013 ). Y-chromosomes and mtDNA, however, generally lack recombination and thus, are of limited use to unravel patterns of genome evolution after hybridization and artificial selection ( McTavish et al 2013 ).…”

Section: Introductionmentioning

confidence: 99%

Impact of ParentalBos taurusandBos indicusOrigins on Copy Number Variation in Traditional Chinese Cattle Breeds

et al. 2015

Self Cite

View full text Add to dashboard Cite

Copy number variation (CNV) is an important component of genomic structural variation and plays a role not only in evolutionary diversification but also in domestication. Chinese cattle were derived from Bos taurus and Bos indicus, and several breeds presumably are of hybrid origin, but the evolution of CNV regions (CNVRs) has not yet been examined in this context. Here, we of CNVRs, mtDNA D-loop sequence variation, and Y-chromosomal single nucleotide polymorphisms to assess the impact of maternal and paternal B. taurus and B. indicus origins on the distribution of CNVRs in 24 Chinese domesticated bulls. We discovered 470 genome-wide CNVRs, only 72 of which were shared by all three Y-lineages (B. taurus: Y1, Y2; B. indicus: Y3), whereas 265 were shared by inferred taurine or indicine paternal lineages, and 228 when considering their maternal taurine or indicine origins. Phylogenetic analysis uncovered eight taurine/indicine hybrids, and principal component analysis on CNVs corroborated genomic exchange during hybridization. The distribution patterns of CNVRs tended to be lineage-specific, and correlation analysis revealed significant positive or negative co-occurrences of CNVRs across lineages. Our study suggests that CNVs in Chinese cattle partly result from selective breeding during domestication, but also from hybridization and introgression.

show abstract

“…Import of foreign cattle from countries such as the Netherlands and Sweden, especially bulls, increased in Finland during the 18 th — 19 th centuries [ 45 ]. In contemporary Taurus cattle populations, haplotype Y2 dominates in almost the whole Eurasian region [ 23 , 46 , 47 ], with the exception of Western and Northern Europe [ 23 ]. The present-day European Y-chromosomal distribution has been taken as evidence of two different expansions of dairy cattle to the Nordic countries [ 23 ].…”

Section: Discussionmentioning

confidence: 99%

Temporal Fluctuation in North East Baltic Sea Region Cattle Population Revealed by Mitochondrial and Y-Chromosomal DNA Analyses

et al. 2015

View full text Add to dashboard Cite

BackgroundAncient DNA analysis offers a way to detect changes in populations over time. To date, most studies of ancient cattle have focused on their domestication in prehistory, while only a limited number of studies have analysed later periods. Conversely, the genetic structure of modern cattle populations is well known given the undertaking of several molecular and population genetic studies.ResultsBones and teeth from ancient cattle populations from the North-East Baltic Sea region dated to the Prehistoric (Late Bronze and Iron Age, 5 samples), Medieval (14), and Post-Medieval (26) periods were investigated by sequencing 667 base pairs (bp) from the mitochondrial DNA (mtDNA) and 155 bp of intron 19 in the Y-chromosomal UTY gene. Comparison of maternal (mtDNA haplotypes) genetic diversity in ancient cattle (45 samples) with modern cattle populations in Europe and Asia (2094 samples) revealed 30 ancient mtDNA haplotypes, 24 of which were shared with modern breeds, while 6 were unique to the ancient samples. Of seven Y-chromosomal sequences determined from ancient samples, six were Y2 and one Y1 haplotype. Combined data including Swedish samples from the same periods (64 samples) was compared with the occurrence of Y-chromosomal haplotypes in modern cattle (1614 samples).ConclusionsThe diversity of haplogroups was highest in the Prehistoric samples, where many haplotypes were unique. The Medieval and Post-Medieval samples also show a high diversity with new haplotypes. Some of these haplotypes have become frequent in modern breeds in the Nordic Countries and North-Western Russia while other haplotypes have remained in only a few local breeds or seem to have been lost. A temporal shift in Y-chromosomal haplotypes from Y2 to Y1 was detected that corresponds with the appearance of new mtDNA haplotypes in the Medieval and Post-Medieval period. This suggests a replacement of the Prehistoric mtDNA and Y chromosomal haplotypes by new types of cattle.

show abstract

Y chromosome diversity and paternal origin of Chinese cattle

Cited by 12 publications

References 12 publications

Y-chromosome variation in Indian native cattle breeds and crossbred population

Y-chromosome variation in Indian native cattle breeds and crossbred population

Impact of ParentalBos taurusandBos indicusOrigins on Copy Number Variation in Traditional Chinese Cattle Breeds

Temporal Fluctuation in North East Baltic Sea Region Cattle Population Revealed by Mitochondrial and Y-Chromosomal DNA Analyses

Contact Info

Product

Resources

About