Microsatellite markers

Development of novel and polymorphic microsatellite DNA loci from Haliotis ovina

Z. B. Li, Tian, X. J., Shangguan, J. B., Cao, Y. Y., Zhang, G. L., and Chen, L. N., “Development of novel and polymorphic microsatellite DNA loci from Haliotis ovina”, vol. 14, pp. 525-528, 2015.

Twelve microsatellite loci were developed from Haliotis ovina by the magnetic bead hybridization method. Genetic variability was assessed using 30 individuals from 3 wild populations. The number of alleles per locus ranged from 2 to 5, and the polymorphism information content ranged from 0.1228 to 0.6542. Observed and expected heterozygosities ranged from 0.0000 to 0.7778 and 0.1288 to 0.6310, respectively.

Diversity and genetic structure of mangaba remnants in states of northeastern Brazil

J. A. E. Amorim, Mata, L. R., Lédo, A. S., Azevedo, V. C. R., and Silva, A. V. C., “Diversity and genetic structure of mangaba remnants in states of northeastern Brazil”, vol. 14, pp. 823-833, 2015.

In this study, we analyzed the genetic diversity and structure of remnants of mangaba populations in states of northeastern Brazil by applying 9 microsatellite markers previously developed to establish conservation strategies for germplasm and species preservation. Six to 20 individuals per population were analyzed, with a total of 94 individuals and 6 populations from the states of Ceará, Pernambuco, and Sergipe, Brazil. The intra-population positive fixation index (f) in all populations indicated inbreeding resulting from the lack of random mating.

Genetic diversity of Qatari date palm using SSR markers

K. Elmeer and Mattat, I., “Genetic diversity of Qatari date palm using SSR markers”, vol. 14, pp. 1624-1635, 2015.

The genetic diversity in the date palm germplasm of 59 female accessions representing 12 cultivars from different locations in Qatar was investigated using 14 loci of simple-sequence repeat (SSR) primers. A total of 94 alleles, with a mean of 6.7 alleles per locus, were scored. The number of alleles per locus varied from 3 (primer mPdCIR090) to 11 (primers mPdCIR010 and mPdCIR015). The amplified SSR band sizes ranged from 104 to 330 bp.

Isolation and characterization of polymorphic microsatellite loci for Pachycrepoideus vindemmiae (Rondani) (Hymenoptera: Pteromalidae)

W. Chen, Fang, L., Liu, J. L., He, Z., and Hu, H. Y., “Isolation and characterization of polymorphic microsatellite loci for Pachycrepoideus vindemmiae (Rondani) (Hymenoptera: Pteromalidae)”, vol. 14, pp. 1798-1801, 2015.

The parasitoid wasp Pachycrepoideus vindemmiae (Rondani) is a common pupal parasitoid of many fly pests that is distributed worldwide. This organism can be used for biological control in orchards or livestock farms. Identifying polymorphic microsatellite loci would be useful for analyzing the population genetic structure of the parasitoid. In the current study, based on a modified biotin-capture method, 10 polymorphic microsatellite loci were isolated and characterized for the insect, 7 of which did not deviate from Hardy-Weinberg equilibrium.

Development and characterization of polymorphic microsatellite markers for Castanopsis hystrix (Fagaceae)

Y. Jiang, Li, Z. H., Zhu, J. Y., and Liu, H. L., “Development and characterization of polymorphic microsatellite markers for Castanopsis hystrix (Fagaceae)”, vol. 14, pp. 2436-2439, 2015.

Castanopsis hystrix is one of the most important and dominant species in evergreen broad-leaved forests in subtropical China. However, the population of this species undergone severe decline because of deforestation over the past 2 decades. For both conservation and forestry management, it is essential to develop molecular markers for C. hystrix. We identified 11 microsatellite loci in 2 wild populations. The number of alleles ranged from 3-11, with an average of 6.45 alleles per locus.

Isolation and characterization of microsatellite markers for Axonopus compressus (Sw.) Beauv. (Poaceae) using 454 sequencing technology

X. - L. Wang, Li, Y., Liao, L., Bai, C. - J., and Wang, Z. - Y., “Isolation and characterization of microsatellite markers for Axonopus compressus (Sw.) Beauv. (Poaceae) using 454 sequencing technology”, vol. 14, pp. 4696-4702, 2015.

Axonopus compressus (Sw.) Beauv. is a perennial herb widely used as a garden lawn grass. In this study, we used Roche 454 pyrosequencing, combined with the magnetic bead enrichment method FIASCO, to isolate simple sequence repeat markers from the A. compressus genome. A total of 1942 microsatellite loci were identified, with 53,193 raw sequencing reads. One hundred micro­satellite loci were selected to test the primer amplification efficiency in 24 individuals; 14 primer pairs yielded polymorphic amplification products.

Genetic structure and diversity in natural and stocked populations of the mandarin fish (Siniperca chuatsi) in China

M. Yang, Tian, C., Liang, X. - F., Zheng, H., Zhao, C., and Zhu, K., “Genetic structure and diversity in natural and stocked populations of the mandarin fish (Siniperca chuatsi) in China”, vol. 14, pp. 5153-5160, 2015.

The Chinese perch, or mandarin fish (Siniperca chuatsi), is a freshwater fish that is endemic to East Asia. In this study, we investigated the genetic diversity and structure of nine natural mandarin fish populations (from the Yangtze River and Amur River basins) and six hatchery stocks (from central and south China) using microsatellite markers. The results show that the genetic diversity of the Yangtze River populations was high and stable, and genetic differences between them were not significant.

Development and characterization of microsatellite markers via cross-species amplification of Paramisgurnus dabryanus

G. Chen, Huang, S., Gao, J., Bai, X., Wang, W., and Cao, X., “Development and characterization of microsatellite markers via cross-species amplification of Paramisgurnus dabryanus”, vol. 14, pp. 5694-5698, 2015.

The large-scale loach, Paramisgurnus dabryanus, is a small freshwater fish of major economic importance in many Asian countries, particularly China and South Korea. Fifteen polymorphic microsatellite (simple sequence repeat) markers were obtained through cross-species amplification between this loach and a related species, Misgurnus anguillicaudatus (GenBank accession numbers: KC117456 to KC117470). The number of alleles per locus ranged from 5 to 12 among 40 individuals, and the average observed and expected heterozygosities were 0.344 and 0.828, respectively.

Verification and characterization of chromosome duplication in haploid maize

E. Gde Oliveir Couto, Von Pinho, E. V. Resende, Von Pinho, R. G., Veiga, A. D., de Carvalho, M. R., F. Bustamante, deOliveira, and Nascimento, M. S., “Verification and characterization of chromosome duplication in haploid maize”, vol. 14, pp. 6999-7007, 2015.

Doubled haploid technology has been used by various private companies. However, information regarding chromosome duplication methodologies, particularly those concerning techniques used to identify duplication in cells, is limited. Thus, we analyzed and characterized artificially doubled haploids using microsatellites molecular markers, pollen viability, and flow cytometry techniques.

Polymorphic microsatellite markers in the false kelpfish Sebastiscus marmoratus: isolation, characterization, and cross-species amplification

H. B. Liu, Liu, S. F., Ye, J. B., Yuan, Y. J., Ding, S. X., and Zhuang, Z. M., “Polymorphic microsatellite markers in the false kelpfish Sebastiscus marmoratus: isolation, characterization, and cross-species amplification”, vol. 13. pp. 134-138, 2014.

A (GT/CA)13-microsatellite-enriched genomic library of the false kelpfish Sebastiscus marmoratus was constructed, and 20 polymorphic microsatellite loci were isolated and characterized. The polymorphisms were investigated in 48 wild individuals from a single population collected from the northern Yellow Sea. The numbers of alleles per locus varied from 4-22 with an average of 9. The observed and expected heterozygosities of each locus ranged from 0.196-0.958 and from 0.487-0.942, with an average of 0.693 and 0.765, respectively.

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