Genetic diversity and phylogenetic relationship analyzed by microsatellite markers in eight Indonesian local duck populations

Hariyono, Dwi Nur Happy; Maharani, Dyah; Cho, Sunghyun; Manjula, Prabuddha; Seo, Dongwon; Choi, Na Young; Sidadolog, Jafendi Hasoloan Purba; Lee, Jun Heon

doi:10.5713/ajas.18.0055

Cited by 21 publications

(16 citation statements)

References 19 publications

(17 reference statements)

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“…Our results indicate that random selection of fish for breeding is likely to result in lower genetic variation in the offspring than in the parents. It is known that using a small number of individuals for breeding without information about their genetic similarity and relationships (random selection) can accelerate a decrease in allelic diversity [25][26][27] . Consequently decrease of population fitness in the next generation or generations is more likely 28 .…”

Section: Discussionmentioning

confidence: 99%

Genassemblage 2.0 software facilitates conservation of genetic variation of captively propagated species

Kaczmarczyk

Wolnicki

2020

Sci Rep

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In conservation of captively propagated species, conserving genetic diversity is important. Here, we present an example of the use of Genassemblage 2.0 software in conserving the genetic variation of the lake minnow (Eupallasella percnurus). This fish has low genetic variation and is at risk of extinction in the western edge of its range, which includes Poland. Fish from one Polish population were captured (23 males, 25 females). Fin clips were taken, and DNA was extracted. Polymorphic microsatellites (13) were used to prepare genetic profiles, assess genetic variation in the fish and estimate genetic diversity in their progeny. Alleles were scored using an automatic capillary sequencer. The four and eight best variants of spawning pairs, and the optimal sets for group volitional breeding (four males, four females; eight males, eight females) were identified using Genassemblage 2.0. In the sets of 8 and 16 fish for group breeding, the mean heterozygosity, the number of alleles, and the share of “weak” heterozygotes (0.493, 24, 0.239 and 0.479, 23, 0.257, respectively) were better than the mean values for the progeny of all potential breeding pairs. For group volitional breeding, one set of four males and four females, and numerous sets of eight males and eight females would enable transmission of all 33 alleles identified in the potential broodstock and an expected progeny heterozygosity of 0.441 and 0.414, respectively. These expected heterozygosity values are higher than those in the broodstock. For practical purposes, the larger sets would be preferable for avoiding a future inbreeding and genetic drift.

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Section: Discussionmentioning

confidence: 99%

Genassemblage 2.0 software facilitates conservation of genetic variation of captively propagated species

Kaczmarczyk

Wolnicki

2020

Sci Rep

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“…At present, Weitzman marginal diversity method has attracted more and more attention in the research on rational allocation of livestock and poultry resources protection funds, and has become one of the most dynamic theories in the field of livestock genetic resources protection and utilization 28,29 . There were many researches on animal genetic diversity in the world 30–32 , but few of them analyze the application of marginal diversity method To our knowledge, Reist-Marti et al . (2003) have estimated extinction probability in livestock breeds 11 .…”

Section: Discussionmentioning

confidence: 99%

Marginal diversity analysis of conservation of Chinese domestic duck breeds

Zhang

Wang

You-qing

et al. 2019

Sci Rep

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The present study aimed to systematically evaluate the genetic diversity of Chinese domestic duck breeds and ensure the most effective allocation and usage of conservation funds. We first performed an analysis of DNA genetic distance in 21 duck breeds by measuring short tandem repeats. Then, we calculated the extinction probability, contribution rate, and marginal diversity for each breed. The results showed that the extinction rate of the Zhongshan duck, Guangxi duck, and Ji’an duck were the highest at 0.67, 0.59, and 0.59, respectively, and that of the Linwu duck, Jinding duck, and Gaoyou duck were the lowest at 0.15, 0.18, and 0.19, respectively. The current diversity of populations was 7.72 and the expected diversity in five hundred years is 5.14 ± 1.15. The marginal diversity of the Chinese Muscovy duck was the largest (−2.20), accounting for 42.61% of the expected diversity, followed by the Guangxi duck (−0.49, 9.44%), whereas the Jinding duck was the smallest (−0.12; 2.32%). The protection potency of the Chinese Muscovy duck was the largest (0.61), followed by Guangxi duck (0.29), whereas the Jinding duck was the smallest (0.02). This study provides a reference for determining the conservation priority of Chinese domestic duck breeds or genetic resources.

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“…As a country with a large area, Indonesia has a lot of natural resources and fauna, so it is known as a mega biodiversity country. Ducks are a type of livestock with high diversity that is owned by the Indonesian state; several local duck breeds have been determined through the Minister of Agriculture Certificate, namely Alabio, Bayang, Magelang, Mojosari, Pegagan, Pitalah, Rambon, and Turi duck (Hariyono et al 2019) Through morphometric and molecular analysis, Indonesian local ducks belong to the Anas platyrchynchos (Mallard duck) group with an average genetic distance ranging from 0,000-0,786 (Purwantini et al, 2013). Even though they are in the same cluster, the diversity of qualitative and quantitative traits in these local ducks is diverse.…”

Section: Introductionmentioning

confidence: 99%

“…These three dimensions interact to form an enabling environment that allows livestock populations to develop (Steinfeld et al 1997). The efforts to conserve local ducks depend on the degree of suitability and adaptation to the environment, the economic characteristics possessed, and the local breed's cultural and historical values (Hariyono et al, 2019). Therefore, optimizing the management of various available resources to ensure environmental sustainability is the first step that can be taken in the business of developing ducks in the future, including through exploration of natural resources and genetic resources of Sawang duck in Sawang Village, Karimun Regency, Riau Islands Province.…”

Section: Introductionmentioning

confidence: 99%

The phenotype characteristics and decline population of Sawang duck in Sawang Village, Karimun Regency, Riau Islands Province

Hidayati

Desrita²

2021

JIIP

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Sawang duck is one of Indonesia's local dual-purpose type ducks due to the offspring of Tsaiya ducks originating from Taiwan. Tsaiya ducks enter the Sawangarea, brought by residents from Singapore around 1955 and subsequently bred in the Sawang Village, adapting to the environment and the local farming. This research was conducted in August-December 2018. Primary data on the qualitative, morphometric, and potential feed were taken in Sawang Village, Karimun Regency, Riau Islands Province. Currently, Sawang duck is only found in Sawang Village, maintained by two farmers. Secondary data of potential areas and poultry populations were obtained from the Department of Food and Agriculture of Karimun Regency, and proximate analysis was carried out at the Ruminant Nutrition Laboratory, Faculty of Animal Husbandry, Andalas University. The research method was conducted by survey with census sampling techniques. The Sawang duck has a diversity of colors for feather, skin, beak, and shank. The morphometric decrease was indicated by bodyweight of 1,450 ± 119.52 grams, femur length of 7.41 ± 1.62 cm, tibia length of 9.94 ± 0.51 cm, length of shank 4.38 ± 0.25 cm, third finger length 6.36 ± 0.90 cm, maxilla length 5.21 ± 0.16 cm, backbone length 20.13 ± 1.13 cm, wing bone length 26.65 ± 1.70 cm, bone length chest 10.63 ± 0.80 cm, and shank circumference 1.24 ± 0.10 cm. Efforts to preserve ducks Sawangneed to be considered so that their existence is not destroyed by exploiting the existing area's potential.

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Genetic diversity and phylogenetic relationship analyzed by microsatellite markers in eight Indonesian local duck populations

Abstract: We summarized that the present study revealed a considerable genetic diversity of studied populations and thus, proper management strategies should be applied for preserving genetic diversity and preventing loss of alleles.

Cited by 21 publications

References 19 publications

Genassemblage 2.0 software facilitates conservation of genetic variation of captively propagated species

Genassemblage 2.0 software facilitates conservation of genetic variation of captively propagated species

Marginal diversity analysis of conservation of Chinese domestic duck breeds

The phenotype characteristics and decline population of Sawang duck in Sawang Village, Karimun Regency, Riau Islands Province

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