Estimating chromosomal genetic diversity of Kuchinoshima feral cattle using high density SNP chip

Saito, Yuya; Sasazaki, S.; Shimogiri, Takeshi; Oshima, Ichiro; Katahira, Kentaro; Kanemaki, Masato T.; Kunieda, Tetsuo; Mannen, Hideyuki

doi:10.2508/chikusan.87.219

Cited by 2 publications

(3 citation statements)

References 16 publications

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“…Siqin et al (2014) reported that four out of six functional gene variants (NCAPG, FASN, SCD, SREBP-1, F11 and MC1R) were monomorphic in 32 Kuchinoshima cattle. Saito et al (2016) genotyped 54 K single nucleotide polymorphisms in Kuchinoshima, Japanese Black, Japanese Brown and Japanese Holstein cattle, and found that the average minor allele frequency in Kuchinoshima cattle was lower (0.089) than in other populations (0.181-0.251). These results also indicate the extremely low genetic diversity of Kuchinoshima cattle, which may be explained by a founder effect and/or genetic drift in the small population (< 100 animals) that has survived on Kuchinoshima Island for many generations.…”

Section: Discussionmentioning

confidence: 99%

Low mitochondrial DNA diversity of Japanese Polled and Kuchinoshima feral cattle

Mannen

Yonesaka

Noda

et al. 2016

Animal Science Journal

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This study aims to estimate the mitochondrial genetic diversity and structure of Japanese Polled and Kuchinoshima feral cattle, which are maintained in small populations. We determined the mitochondrial DMA (mtDNA) displacement loop (D-loop) sequences for both cattle populations and analyzed these in conjunction with previously published data from Northeast Asian cattle populations. Our findings showed that Japanese native cattle have a predominant, Asian-specific mtDNA haplogroup T4 with high frequencies (0.43-0.81). This excluded Kuchinoshima cattle (32 animals), which had only one mtDNA haplotype belonging to the haplogroup T3. Japanese Polled showed relatively lower mtDNA diversity in the average sequence divergence (0.0020) than other Wagyu breeds (0.0036-0.0047). Japanese Polled have been maintained in a limited area of Yamaguchi, and the population size is now less than 200. Therefore, low mtDNA diversity in the Japanese Polled could be explained by the decreasing population size in the last three decades. We found low mtDNA diversity in both Japanese Polled and Kuchinoshima cattle. The genetic information obtained in this study will be useful for maintaining these populations and for understanding the origin of Japanese native cattle.

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Section: Discussionmentioning

confidence: 99%

Low mitochondrial DNA diversity of Japanese Polled and Kuchinoshima feral cattle

Mannen

Yonesaka

Noda

et al. 2016

Animal Science Journal

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“…From our previous studies (Mannen et al, 2017;Saito et al, 2016), the Kuchinoshima cattle have quite low genetic diversity. By the mtDNA analysis, 32 Kuchinoshima cattle have only an identical haplotype belonged to haplogroup T3.…”

Section: Genetic Diversity Of Kuchinoshima Feral Cattlementioning

confidence: 94%

“…By the mtDNA analysis, 32 Kuchinoshima cattle have only an identical haplotype belonged to haplogroup T3. In addition, we genotyped 54K SNPs for Kuchinoshima cattle to estimate genetic diversity and genetic structure in Kuchinoshima cattle (Saito et al, 2016). The average minor allele frequency in Kuchinoshima cattle was quite lower (0.089) than those of the other populations of Japanese Black, Japanese Brown and Japanese Holstein (0.181 -0.251).…”

Section: Genetic Diversity Of Kuchinoshima Feral Cattlementioning

confidence: 99%

The genetic diversity of Japanese Wagyu using molecular markers

2017

The Korean Society of Animal Breeding and Genomics

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We have investigated the genetic diversity and structure using several DNA markers, such as mtDNA, Sry gene in Y chromosome and autosomal SNPs for Japanese Wagyu and native cattle in the North Eastern Asia. Most of Japanese cattle mtDNA belonged to Bos taurus mtDNA haplogroups T1, T2, T3 and T4. All Japanese populations included Asian unique mtDNA haplogroup T4 with high frequencies (0.43-0.81). The predominant T4 haplogroup may be a result of founder effect when ancestral cattle were introduced to Japan Islands at the immigration. We found that Mongolian cattle have Bos indicus mtDNA with the genetic frequency of 0.20, but no Bos indicus Y chromosome. No Bos indicus mtDNA in both Japanese and Korean samples suggested that the introgression may be a secondary phenomenon, with the earlier cattle in the region being purely Bos taurus. We analyzed 117 SNPs to assess the genetic diversity, structure and relationships of 16 Eurasian cattle populations. The results could suffi ciently explain the genetic construction of Asian cattle populations. These results reflected to the geographical and historical background in each population. The genetic information would contribute to understanding origin of North Asian native cattle, in addition to the origin of Japanese Wagyu cattle.

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Estimating chromosomal genetic diversity of Kuchinoshima feral cattle using high density SNP chip

Cited by 2 publications

References 16 publications

Low mitochondrial DNA diversity of Japanese Polled and Kuchinoshima feral cattle

Low mitochondrial DNA diversity of Japanese Polled and Kuchinoshima feral cattle

The genetic diversity of Japanese Wagyu using molecular markers

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