Development of discrimination markers between Japanese domestic and imported beef

Sasazaki, Shinji; Hosokawa, Daisuke; Ishihara, Rie; Aihara, Hiroki; Oyama, Kenji; Mannen, Hideyuki

doi:10.1111/j.1740-0929.2010.00820.x

Cited by 11 publications

(21 citation statements)

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“…Esse número de marcadores é próximo aos resultados de trabalhos relacionados à identificação racial em bovinos, como em SUEKAWA et al (2010), onde foram encontrados cinco marcadores por meio de análise de frequência alélica capaz de distinguir gados japoneses e americanos. Por sua vez, SASAZAKI et al (2011) desenvolveram um modelo no qual foram selecionados 11 SNPs importantes para gados provenientes de rebanhos dos Estados Unidos.…”

Section: Resultsunclassified

“…Outros trabalhos abordaram seleção de atributos em suínos (CORDEIRO et al, 2012) e humanos (WU et al, 2012), porém são raros os trabalhos envolvendo dados de ovinos. De forma geral, observou-se que os trabalhos relacionados selecionaram um número menor que 100 marcadores SNP em seus resultados finais (MOKRY et al, 2013;SASAZAKI et al, 2011;SUEKAWA et al, 2010), número a que este trabalho buscou referenciar-se como limite para a seleção dos SNPs mais informativos. Além disso, considerou-se o possível desenvolvimento de um microarranjo de baixa densidade, que aloca múltiplos de 48 marcadores SNP em sua superfície (ROORKIWAL et al, 2013).…”

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Metodologia baseada em técnicas de mineração de dados para suporte à certificação de raças de ovinos

Vieira

Oliveira

Paiva³

2015

Eng. Agríc.

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DATA MINING-BASED TECHNIQUE ON SHEEP BREED CERTIFICATIONABSTRACT: This study aimed at developing a method based on data mining techniques to select key SNP markers (Single Nucleotide Polymorphism) for the sheep breeds Crioula, Morada Nova and Santa Inês. We gathered data from the International Sheep Consortium of 72 animals belonging to the aforementioned breeds; each animal has 49,034 SNP markers. Whereas the number of attributes (markers) is much greater than observations (animals), the LASSO (Least Absolute Shrinkage and Selection Operator), Random Forest and Boosting prediction methods were used to generate predictive models, incorporating selection methods and attributes. The results revealed that the predictive models selected the main SNP markers for sheep breed identification. The LASSO technique selected 29 relevant markers. Yet from Random Forest and Boosting selected 27 and 20 major markers, respectively. By intersecting the generated models, we could identify a subset of 18 markers with major potential for sheep breed identification.KEYWORDS: single-nucleotide polymorphism, feature selection, predictive modeling, penalized regression. INTRODUÇÃOO Brasil possui diversas raças de ovinos que se desenvolveram a partir de raças trazidas pelos colonizadores e que adquiriram características específicas de adaptação às condições ambienta is brasileiras. Essas raças passaram a ser conhecidas como locais ou localmente adaptadas. A maioria delas encontra-se ameaçada de extinção, principalmente devido a cruzamentos indiscriminados com

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Section: Resultsunclassified

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Metodologia baseada em técnicas de mineração de dados para suporte à certificação de raças de ovinos

Vieira

Oliveira

Paiva³

2015

Eng. Agríc.

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“…In our previous study, we developed DNA markers to discriminate between Japanese domestic beef and US and Australian beef (Sasazaki et al 2007(Sasazaki et al , 2011Suekawa et al 2010). …”

Section: Introductionmentioning

confidence: 99%

Application of DNA markers for discrimination between Japanese and Australian Wagyu beef

Kawaguchi

Kitamura

Nakajima

et al. 2017

Animal Science Journal

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The objective of this study was to discriminate between original Japanese and Australian Wagyu beef, which is sold in the Singapore markets, using six previously developed DNA markers. To effectively evaluate the six markers for breed identification, the probability of identification as Australian Wagyu beef was calculated based on the estimated allele frequencies using 130 Australian Wagyu individuals. The combined use of six markers would allow the discrimination of Australian Wagyu beef with an estimated probability of 0.776. The probability to discriminate Australian Wagyu from Japanese Wagyu beef was sufficiently high. In addition, Australian Wagyu has maternal mitochondrial DNA of Bos indicus cattle with moderate high frequency of 0.377. The DNA marker system could also be used as a deterrent force against false sales, and contribute to the reduction and prevention of incorrect or falsified labeling of beef.

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“…As such, methods based on other DNA markers such as microsatellite (MS) markers - recommended by the International Society of Animal Genetics (ISAG) for analysis of polymorphism in cattle - are widely used in Hanwoo traceability research (Lee et al ., 2004; Lee et al, 2008; Lim et al ., 2005; Yoon et al ., 2005). Currently, single nucleotide polymorphism (SNP) markers, which were found in large numbers through decoding of the entire nucleotide sequence of the bovine chromosome, are distributed in a readily usable DNA chip form (Ball et al ., 2010; Sasazaki et al ., 2011; Van Eenennaam et al ., 2007). …”

Section: Introductionmentioning

confidence: 99%

Comparison of the Microsatellite and Single Nucleotide Polymorphism Methods for Discriminating among Hanwoo (Korean Native Cattle), Imported, and Crossbred Beef in Korea

Heo¹,

Ko²,

Seo³

et al. 2014

Korean Journal for Food Science of Animal Resources

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The identity of 45 Hanwo and 47 imported beef (non-Hanwoo) samples from USA and Australia were verified using the microsatellite (MS) marker and single nucleotide polymorphism (SNP) methods. Samples were collected from 19 supermarkets located in the city of Seoul and Gyeonggi province, South Korea, from 2009 to 2011. As a result, we obtained a 100% concordance rate between the MS and SNP methods for identifying Hanwoo and non-Hanwoo beef. The MS method presented a 95% higher individual discriminating value for Hanwoo (97.8%) than for non-Hanwoo (61.7%) beef. For further comparison of the MS and SNP methods, blood samples were collected and tested from 54 Hanwoo × Holstein crossbred cattle (first, second, and third generations). By using the SNP and MS methods, we correctly identified all of the first-generation crossbred cattle as non-Hanwoo; in addition, among the second and third generation crossbreds, the ratio identified as Hanwoo was 20% and 10%, respectively. The MS method used in our study provides more information, but requires sophisticated techniques during each experimental process. By contrast, the SNP method is simple and has a lower error rate. Our results suggest that the MS and SNP methods are useful for discriminating Hanwoo from non-Hanwoo breeds.

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Development of discrimination markers between Japanese domestic and imported beef

Cited by 11 publications

References 11 publications

Metodologia baseada em técnicas de mineração de dados para suporte à certificação de raças de ovinos

Metodologia baseada em técnicas de mineração de dados para suporte à certificação de raças de ovinos

Application of DNA markers for discrimination between Japanese and Australian Wagyu beef

Comparison of the Microsatellite and Single Nucleotide Polymorphism Methods for Discriminating among Hanwoo (Korean Native Cattle), Imported, and Crossbred Beef in Korea

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