Population genetics

Isolation and characterization of microsatellite loci for Cunninghamia lanceolata (Lamb.) Hook

Y. X. Li, Wang, Z. S., Sui, J. K., Zeng, Y. F., Duan, A. G., and Zhang, J. G., Isolation and characterization of microsatellite loci for Cunninghamia lanceolata (Lamb.) Hook, vol. 14, pp. 453-456, 2015.

As a result of human activities, wild populations of Cunninghamia lanceolata (Cupressaceae) have sharply declined in recent years. The development and implementation of a valid conservation strategy require a clear understanding of the genetic makeup of this species. Eleven polymorphic microsatellite loci were isolated and characterized from samples of 52 individuals from the Provenance Test Plantation in Fenyi, Jiangxi Province, China. Among the loci, 10 were polymorphic and 1-34 (average 18.182) alleles per locus were identified.

Interethnic variation of the MMP-9 microsatellite in Amerindian and Mexican Mestizo populations: considerations for genetic association studies

R. Camacho-Mejorado, Noris, G., Santana, C., Magaña, J. J., Majluf-Cruz, A., Arellano-Galindo, J., De la Peña, A., Hernández-Juárez, J., Calderón-Aranda, E. S., Meraz-Ríos, M. A., and Gómez, R., Interethnic variation of the MMP-9 microsatellite in Amerindian and Mexican Mestizo populations: considerations for genetic association studies, vol. 14, pp. 2929-2939, 2015.

We studied the interethnic variation of the MMP-9 microsatellite in the Mestizo and Amerindian populations using blood samples collected from 435 healthy unrelated individuals from the Central Valley of Mexico. DNA samples were genotyped using the -90 (CA)12-27 repeat near the MMP transcriptional start site using capillary electrophoresis. Our data were compared with those from African, Asian, and European populations (N = 729). Both Mestizo and Amerindian populations were in Hardy-Weinberg equilibrium (P ≥ 0.05).

Fragmentation effects and genetic diversity of the key semidecidual forest species Metrodorea nigra in Southwestern Brazil

R. M. Moraes Filho, Bonifácio-Anacleto, F., and Alzate-Marin, A. L., Fragmentation effects and genetic diversity of the key semidecidual forest species Metrodorea nigra in Southwestern Brazil, vol. 14, pp. 3509-3524, 2015.

Studies of genetic diversity in plant species present in the remaining fragments of the Atlantic Forest are very important for understanding their resilience to such a degraded ecosystem. We analyzed the genetic diversity of 3 populations of the high-density understory species Metrodorea nigra St. Hill. (Rutaceae) located in forest remnants in the region of Ribeirão Preto, SP, Brazil (M13-Rib, BSQ-Rib, and FAC-Crav), by using simple sequence repeat (SSR) and inter-simple sequence repeat (ISSR) molecular markers for conservation purposes.

Isolation of microsatellite loci for Rhodiola alsia (Crassulaceae), an important ethno-medicinal herb endemic to the Qinghai-Tibetan plateau

F. Q. Zhang, Lei, S. Y., Gao, Q. B., Khan, G., Xing, R., Yang, H. L., and Chen, S. L., Isolation of microsatellite loci for Rhodiola alsia (Crassulaceae), an important ethno-medicinal herb endemic to the Qinghai-Tibetan plateau, vol. 14. pp. 5266-5269, 2015.

Rhodiola alsia, which has been used widely in traditional Chinese medicine for a considerable time, grows on moist habitats at high altitude near the snow line. Microsatellite loci were developed for R. alsia to investigate its population genetics. In total, 17 polymorphic microsatellites were developed based on ESTs from the Illumina HiSeqTM 2000 platform. The microsatellite loci were checked for variability using 80 individuals of R. alsia sampled from four locations on the Qinghai-Tibet Plateau.

New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis

C. X. Tian, Liang, X. - F., Yang, M., Dou, Y. Q., Zheng, H. Z., Cao, L., Yuan, Y. C., and Zhao, C., New microsatellite loci for the mandarin fish Siniperca chuatsi and their application in population genetic analysis, vol. 13, pp. 546-558, 2014.

The mandarin fish is a popular fresh water food fish in China. Fifty-three polymorphic microsatellite markers were isolated through construction of an enriched library of genomic DNA of Siniperca chuatsi (Percichthyidae). We found 2 to 7 alleles per locus. The observed and expected heterozygosity values varied from 0.059 to 1.000 and from 0.305 to 0.818, respectively. The polymorphic information content value varied from 0.255 to 0.782. Twelve microsatellite loci deviated significantly from Hardy-Weinberg equilibrium after Bonferroni’s correction.

Genetic evidence for panmixia of Japanese eel (Anguilla japonica) populations in China

X. L. Gong, Ren, S. J., Cui, Z. K., and Yue, L. J., Genetic evidence for panmixia of Japanese eel (Anguilla japonica) populations in China, vol. 13, pp. 768-781, 2014.

The Japanese eel population has dramatically declined since the 1970s. In order to conserve this species, the background genetic structure affecting these populations should be well documented. Previous genetic studies of this species have produced seemingly conflicting results, ranging from no detectable heterogeneity to small, but statistically significant variance. This study investigates the population structure of Japanese glass eels collected from 10 localities in China in 2009 using a mitochondrial DNA (mtDNA) control region and 19 polymorphic microsatellite loci.

Isolation and characterization of polymorphic microsatellite loci of the Chinese muntjac (Muntiacus reevesi)

H. Wang, Luo, X., Shi, W. B., and Zhang, B. W., Isolation and characterization of polymorphic microsatellite loci of the Chinese muntjac (Muntiacus reevesi), vol. 13, pp. 1905-1908, 2014.

Eight polymorphic microsatellite markers for Muntiacus reevesi were identified and characterized in this study. The number of alleles per locus ranged from 3 to 10 across 24-48 samples. The loci showed expected and observed heterozygosities of 0.577-0.876 and 0.387-0.933, respectively, with an average polymorphic information content value of 0.682. These markers should be a useful tool for further population and conservation genetic studies of Muntiacus reevesi.

Development and characterization of microsatellite markers for the Chinese endangered medicinal plant Tetrastigma hemsleyanum

Y. H. Wang, Chen, N., Zhang, Y. C., and Fu, C. X., Development and characterization of microsatellite markers for the Chinese endangered medicinal plant Tetrastigma hemsleyanum, vol. 13, pp. 9062-9067, 2014.

Tetrastigma hemsleyanum (Vitaceae) is an endangered medicinal plant endemic to China. Because of its widely known efficacy for treating many health problems, wild resources of this species are currently undergoing a rapid decline. Few studies have been conducted examining the population genetics or development of microsatellite loci for this plant. In this study, 14 microsatellite loci were isolated and characterized for T. hemsleyanum using a double-suppression PCR method. Polymorphisms were tested with a total of 50 individuals from 2 natural populations.

New microsatellite markers for the neotropical malaria vector Anopheles nuneztovari sensu lato

A. S. Cunha-Machado and Scarpassa, V. M., New microsatellite markers for the neotropical malaria vector Anopheles nuneztovari sensu lato, vol. 13, pp. 8856-8861, 2014.

Anopheles nuneztovari sensu lato consists of cryptic species and genetic lineages, one of which is an important human malaria vector in the northern part of South America. Population structure and evolutionary genetics studies may help in the definition and delimitation of the species and lineages within this species complex, which is relevant information for organizations involved in malaria control efforts. In this study, 10 new microsatellite markers were isolated from 2 repeat-enriched genomic libraries of A. nuneztovari s.l.

New loci of Lychnophora ericoides and transferability to Lychnophora pinaster, endangered medicinal species from Brazil

M. A. R. Vieira, Marques, M. O. M., Haber, L. L., Vigna, B. B. Z., Bajay, M. M., Pinheiro, J. B., Souza, A. P., Semir, J., and Zucchi, M. I., New loci of Lychnophora ericoides and transferability to Lychnophora pinaster, endangered medicinal species from Brazil, vol. 13. pp. 10878-10882, 2014.

Lychnophora ericoides and Lychnophora pinaster are species used in popular medicine as analgesic or anti-inflammatory agents to treat contusions, rheumatism, and insect bites. In this study, 21 simple sequence repeat loci of L. ericoides were developed and transferred to L. pinaster. Three populations of L. ericoides and 2 populations of L. pinaster were evaluated; they were collected in the State of Minas Gerais.

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