Microsatellite

Isolation and characterization of novel microsatellite markers for molecular genetic diversity in Siganus fuscescens

Y. F. Ning, Li, Z. B., Li, Q. H., Dai, G., Shangguan, J. B., Yuan, Y., and Huang, Y. S., “Isolation and characterization of novel microsatellite markers for molecular genetic diversity in Siganus fuscescens”, vol. 14, pp. 89-92, 2015.

The rabbitfish Siganus fuscescens is an economically valuable species that is widely distributed throughout the estuaries, intertidal, and offshore coasts of the Indo-Pacific and eastern Mediterranean. Ten novel microsatellite loci from the genome of S. fuscescens were developed using the fast isolation protocol with amplified fragment length polymorphism of sequences containing repeats. Polymorphisms in these 10 microsatellite markers were determined from 32 wild individuals.

Development and characterization of polymorphic microsatellite loci in the sea cucumber Holothuria leucospilota

G. Dai, Li, Z. B., Shangguan, J. B., Ning, Y. F., Deng, H. W., Yuan, Y., Huang, Y. S., Yang, H., and Lu, J., “Development and characterization of polymorphic microsatellite loci in the sea cucumber Holothuria leucospilota”, vol. 14, pp. 538-541, 2015.

Holothuria leucospilota is a tropical holothurian species that is widely distributed in the tropical and sub-tropical India-Western Pacific Region. Eight polymorphic microsatellite loci were developed from H. leucospilota by using the protocol fast isolation by amplified fragment length polymorphism of sequences containing repeats and tested in 30 individuals from Hainan Island in China. The number of alleles was 2-6 and polymorphism information content ranged from 0.371-0.694.

Development of a novel set of microsatellite markers for Lippia alba (Verbenaceae)

D. S. Rocha, Santos, C. P., Bajay, M. M., Campos, J. B., Blank, A. F., Pinheiro, J. B., and Zucchi, M. I., “Development of a novel set of microsatellite markers for Lippia alba (Verbenaceae)”, vol. 14, pp. 971-974, 2015.

Microsatellite primers were developed and optimized for Lippia alba to characterize the L. alba germplasm bank of Universidade de São Paulo. A genomic library enabled the design of 9 microsatellite primers. Six of the 9 primers yielded polymorphic products, which defined 2 groups in the bank. The data provide support to characterize germplasm banks, genetic breeding programs for L. alba, and other genetic diversity studies and classifications of species in the genus Lippia.

Allele frequencies of microsatellite loci for genetic characterization of a Sicilian bovine population

M. Cosenza, Reale, S., Lupo, T., Vitale, F., and Caracappa, S., “Allele frequencies of microsatellite loci for genetic characterization of a Sicilian bovine population”, vol. 14, pp. 691-699, 2015.

Short tandem repeats are used as an effective method to trace DNA markers in genotyping. Using a standardized kit, we tested 11 microsatellite markers recommended by the International Society for Animal Genetics (ISAG) in a sample of 495 Sicilian cattle. The aim of this study was to investigate the allele frequencies in the Sicilian cattle population to provide a reference database and at the same time to assess the use of the ISAG microsatellite panel for pedigree analysis.

Isolation of new polymorphic microsatellite markers from the marbled rockfish Sebastiscus marmoratus

H. W. Deng, Li, Z. B., Dai, G., Yuan, Y., Ning, Y. F., Shangguan, J. B., and Huang, Y. S., “Isolation of new polymorphic microsatellite markers from the marbled rockfish Sebastiscus marmoratus”, vol. 14, pp. 758-762, 2015.

The marbled rockfish, Sebastiscus marmoratus, is an important commercially near-shore fish that inhabits the beach rocky bottom from Japan to the South China Sea. Eleven polymorphic microsatellite loci were developed from S. marmoratus and were used to identify polymorphisms in 30 samples from a wild population. The allele locus number ranged from 2 to 7. Polymorphism data content ranged from 0.032 to 0.751. The observed and expected heterozygosity levels were 0.0333-0.9667 and 0.0328-0.7675, respectively.

Microsatellite marker analysis reveals the distinction between the north and south groups of hard clam (Meretrix meretrix) in China

X. F. Gu, Dong, Y. H., Yao, H. H., Zhou, X. L., Qi, X. Y., and Lin, Z. H., “Microsatellite marker analysis reveals the distinction between the north and south groups of hard clam (Meretrix meretrix) in China”, vol. 14, pp. 1210-1219, 2015.

Meretrix meretrix is one of the important commercial bivalves in China. A total of 198 individual clams were collected from 5 locations characteristic of the clam’s 5 main natural habitats in China, that is, Shandong, Jiangsu, Fujian, Guangdong, and Guangxi. Ten polymorphic microsatellite markers were selected to examine the genetic diversity and identify genetic differences between the 5 populations. A total of 183 alleles across 10 loci were detected in the individual clams.

Selecting representative microsatellite loci for genetic monitoring and analyzing genetic structure of an outbred population of orange tabby cats in China

X. Y. Du, Yi, S., Huo, X. Y., Wang, C., Liu, D. F., Ren, W. Z., and Chen, Z. W., “Selecting representative microsatellite loci for genetic monitoring and analyzing genetic structure of an outbred population of orange tabby cats in China”, vol. 14, pp. 1788-1797, 2015.

We optimized a panel of microsatellite markers from cat and tiger genetic data for efficient genetic monitoring and used it to analyze the genetic structure of an outbred cat stock in China. We selected a set of rich polymorphic microsatellite loci from 131 cat microsatellite loci and 3 Sumatran tiger microsatellite loci using agarose gel electrophoresis. Next, the set of optimized genetic markers was used to analyze the genetic variation in an outbred population of orange tabby cats in China by simple-tandem repeat scanning.

Microsatellite analysis of genetic diversity and genetic structure in five consecutive breeding generations of mandarin fish Siniperca chuatsi (Basilewsky)

T. L. Yi, Guo, W. J., Liang, X. F., Yang, M., Lv, L. Y., Tian, C. X., Song, Y., Zhao, C., and Sun, J., “Microsatellite analysis of genetic diversity and genetic structure in five consecutive breeding generations of mandarin fish Siniperca chuatsi (Basilewsky)”, vol. 14, pp. 2600-2607, 2015.

In this report, 10 polymorphic microsatellites were applied to assess the genetic diversity and genetic differentiation of 5 consecutive breeding generations of mandarin fish, Siniperca chuatsi (Basilewsky). The results from total number of alleles, average polymorphism information content, and average homozygosity and heterozygosity showed that the genetic diversity of the breeding population was decreasing.

Insights about the genetic diversity and population structure of an offshore group of common bottlenose dolphins (Tursiops truncatus) in the Mid-Atlantic

C. S. Castilho, Pedone-Valdez, F., Bertuol, F., Fruet, P., Genoves, R. C., Di Tullio, J. C., Caon, G., Hoffmann, L. S., and Freitas, T. R. O., “Insights about the genetic diversity and population structure of an offshore group of common bottlenose dolphins (Tursiops truncatus) in the Mid-Atlantic”, vol. 14, pp. 3387-3399, 2015.

Although the genus Tursiops has a worldwide distribution and is globally well-studied, some dolphin populations continue to face high risks of decline. Hence, it is necessary to assess the genetic diversity and structure of this genus to properly assess its conservation status and to implement appropriate management actions. In Brazil, genetic studies on this group remain rare, particularly for populations inhabiting offshore waters.

Isolation and characterization of novel polymorphic microsatellite loci in Atrina vexillum Born (Pinnidae)

Y. S. Huang, Li, Q. H., Li, Z. B., Shangguan, J. B., Ning, Y. F., and Dai, G., “Isolation and characterization of novel polymorphic microsatellite loci in Atrina vexillum Born (Pinnidae)”, vol. 14, pp. 3541-3544, 2015.

The pen shell, Atrina vexillum Born, is an edible shellfish that is widely consumed in the Asia-Pacific region. In this study, 11 polymorphic microsatellite loci were isolated from A. vexillum, and 30 wild individuals were used to evaluate the degree of polymorphism of these markers. The number of alleles per locus ranged from 3 to 8. The polymorphism information content varied from 0.199 to 0.831. The observed and expected heterozygosities were 0.1000-0.8667 and 0.1244-0.8356, respectively.

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