Genetic diversity and population structure of Indonesian native chickens based on single nucleotide polymorphism markers

Riztyan,; Katano, Tsunahiro; Shimogiri, Takeshi; Kawabe, Kentaro; Okamoto, Susumu

doi:10.3382/ps.2011-01450

Cited by 18 publications

(22 citation statements)

References 24 publications

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“…Local Indonesian chickens have special phenotypical characteristics; therefore, specific phenotypical character identification is required to as certain the genetic diversity of the local chicken population and for the development of a germplasm. Riztyan et al (2011) states that local chickens in Indonesia are kept in small groups has the distinction of a low character.…”

Section: Introductionmentioning

confidence: 99%

Phenotypic characteristics of Indonesian native chickens

Bugueiro

Pedreira²,

Dieguez

2018

JABB

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This research aimed to describe the phenotypic characteristics of local hen varieties. The study sample consisted of twenty 18 week-old hens of the following types: Cemani, black Kedu, white Kedu, and Balinese (Olagan). They were randomly selected from the "Makukuhan" farm in Kedu Temanggung, Central Java Indonesia. The results, which were analyzed using analysis of variance (ANOVA) test, showed significant differences in the quantitative characteristics of body height, body length, and tarsometatarsus length. No significant differences were found in wing length, beak length, femur length, tibiotarsus length, or body weight. Qualitative characteristics of Cemani hens differed from those of black Kedu, white Kedu, and Balinese (Olagan) hens because of their predominantly black body color. The black Kedu hens share similarities with the white Kedu hens in the colors of the tongue, comb, eyeballs, and soles of the feet. In contrast, their beak color and skin color are similar to those of the Balinese (Olagan) hens. The white Kedu hens have predominantly white feathers, and the Balinese (olagan) hens have neither comb nor neck feathers.

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Section: Introductionmentioning

confidence: 99%

Phenotypic characteristics of Indonesian native chickens

Bugueiro

Pedreira²,

Dieguez

2018

JABB

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“…These studies contain both commercial and native chicken populations and use markers such as mtDNA, AFLP, RAPD, Microsatellite and SNP (Sharma et al, 2001; International Chicken Polymorphism Map Consortium, Shahbazi et al, 2007;Gongora et al, 2009;Riztyan et al, 2011;Storey et al 2012). …”

Section: Resultsmentioning

confidence: 99%

A comparison of genetic variations among native andsome local chicken populations in Turkey

Tunca

Taşkın

2016

IJAR

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Genetic variations among native and local chicken populations in six different locations across Turkey were established using 15 ISSR primers, and produced 87 bright and reproducible bands. According to pairwise genetic differentiation among the populations (G ST ), the highest genetic differentiation was determined between the Samsun and Yozgat population and the lowest was observed between the Dulkadirli and Budak populations. Shannon's index was calculated to be 0.239. The gene flow (Nm) among the populations was estimated to be 3.489. Analysis of Molecular Variance (AMOVA) identified 13% of the total genetic variation between the populations and the rest of the differences were 87% within the populations. Cluster analysis revealed two main branches, one leading to the domestic chicken population collected from Samsun in the Black Sea region of Turkey, the other branch clustered into two branches; one branch consisting of the Denizli Native Chicken population and the other one of domestic chicken populations sampled from Central Anatolia populations. The study is important to clarify the indigenous chicken genetic resources in Turkey. The results could be used for future breeding research conducted by either the public or private sectors.

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“…The genotype data from these samples was combined with our previous subset of data from domestic chickens (Riztyan et al, 2011(Riztyan et al, , 2012, which was composed of two groups, native chickens and commercial breeds of chickens. Genomic DNA was purified from these samples using the proteinase K and phenol-chloroform method (Sambrook et al, 1989).…”

Section: Dna Samplesmentioning

confidence: 99%

“…SNP genotyping across populations was performed using the standard polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method for the 98 autosomal SNP markers applied in our previous study (Riztyan et al, 2011).…”

Section: Snp Genotyping and Data Analysesmentioning

confidence: 99%

See 1 more Smart Citation

Genetic Diversity and Ancestral Relationships of Red Junglefowls and Domestic Chickens in Southeast Asia

et al. 2014

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In the present study, we have explored the genetic relationships between red junglefowls and domestic chickens in Southeast Asia by using single nucleotide polymorphism (SNP) markers. We genotyped 475 individuals from 17 populations of red junglefowls (4 subspecies, n＝39), native chickens (10 populations, n＝346) and commercial breeds (3 breeds, n＝90) using PCR-RFLP for the 98 autosomal SNP markers. The genotyping results showed that average heterozygosity was 0.225±0.077 for red junglefowl, 0.272±0.009 for native chickens, and 0.211±0.037 for commercial breeds of chickens. The resultant neighbor-joining (NJ) tree with three distinct clusters corresponds to red junglefowls, native chickens and commercial breeds. The subspecies of red junglefowl was clustered into one clade and more closely related to native chickens than the commercial lines. Furthermore, the results of the population structure analysis suggested that the 17 populations appear to be derived from 11 genetic populations (K＝ 11). Among the domestic chickens, the NJ tree and genetic structure analysis revealed that Thailand native chickens was the most ancestral group of all chickens. These findings provide molecular evidence supporting the theory that the original domestication event occurred in Thailand. They also provide additional clustering information to classify red junglefowls and domestic chickens.

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Genetic diversity and population structure of Indonesian native chickens based on single nucleotide polymorphism markers

Cited by 18 publications

References 24 publications

Phenotypic characteristics of Indonesian native chickens

Phenotypic characteristics of Indonesian native chickens

A comparison of genetic variations among native andsome local chicken populations in Turkey

Genetic Diversity and Ancestral Relationships of Red Junglefowls and Domestic Chickens in Southeast Asia

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