Genetic diversity

Phylogeny of Marmosops and the occurrence of Marmosops pinheiroi (Pine, 1981) (Didelphimorphia, Didelphidae) in the Cerrado savanna of Maranhão, Brazil

D. C. Nascimento, Olímpio, A. P. M., Conceição, E., Campos, B. A. T. P., Fraga, E. C., and Barros, M. C., Phylogeny of Marmosops and the occurrence of Marmosops pinheiroi (Pine, 1981) (Didelphimorphia, Didelphidae) in the Cerrado savanna of Maranhão, Brazil, vol. 14, pp. 304-313, 2015.

The present study reviews the phylogeny of the genus Marmosops and expands the geographic range of Marmosops pinheiroi to the Brazilian State of Maranhão. Five specimens of M. pinheiroi were collected from the Inhamum Municipal Environmental Protection Area in Caxias, Maranhão. Total DNA was extracted and the mitochondrial cytochrome b gene was sequenced in an ABI PRISM 3500. Additional sequences of Marmosops were obtained from GenBank for specimens from southeastern and northeast Brazil and the northern Amazon Forest.

Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species

Y. Yang, Jing, Z. B., Ruan, X. F., and Cheng, J. M., Development of simple sequence repeat markers in persimmon (Diospyros L.) and their potential use in related species, vol. 14, pp. 609-618, 2015.

Persimmon (Diospyros L.) is an economically important fruit in the world, and it has been recognized as a healthy nutrient supply for human consumption. In this study, 14 microsatellite markers were developed from an AG/TC and AC/TG-enriched genomic library of Chinese persimmon Mopanshi. Twelve polymorphic markers were selected in 4 related species; these markers showed transferability to the 4 related persimmon species. In addition, 10 simple sequence repeat (SSR) markers were used to detect the genetic diversity among 51 persimmon accessions from China, Japan, and Korea.

Classification of cassava genotypes based on qualitative and quantitative data

E. J. Oliveira, Filho, O. S. Oliveira, and Santos, V. S., Classification of cassava genotypes based on qualitative and quantitative data, vol. 14, pp. 906-924, 2015.

We evaluated the genetic variation of cassava accessions based on qualitative (binomial and multicategorical) and quantitative traits (continuous). We characterized 95 accessions obtained from the Cassava Germplasm Bank of Embrapa Mandioca e Fruticultura; we evaluated these accessions for 13 continuous, 10 binary, and 25 multicategorical traits. First, we analyzed the accessions based only on quantitative traits; next, we conducted joint analysis (qualitative and quantitative traits) based on the Ward-MLM method, which performs clustering in two stages.

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.

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.

Fengshui forests conserve genetic diversity: a case study of Phoebe bournei (Hemsl.) Yang in southern China

Y. J. Ge, Liu, Y. J., Shen, A. H., and Lin, X. C., Fengshui forests conserve genetic diversity: a case study of Phoebe bournei (Hemsl.) Yang in southern China, vol. 14, pp. 1986-1993, 2015.

Fengshui forests (sacred groves) are important in traditional Chinese culture and home to many endangered species. These forests may provide protection for some endangered plant species outside the nature reserves, but little is known about their role in genetic conservation. Using inter-simple sequence repeat (ISSR) markers, we compared the genetic diversity of 6 populations of Phoebe bournei (Hemsl.) Yang, a commercially important woody species, which is under second-class national protection and endemic to China.

Genetic diversity and classification of Tibetan yak populations based on the mtDNA COIII gene

Q. Q. Song, Chai, Z. X., Xin, J. W., Zhao, S. J., Ji, Q. M., Zhang, C. F., Ma, Z. J., and Zhong, J. C., Genetic diversity and classification of Tibetan yak populations based on the mtDNA COIII gene, vol. 14, pp. 1763-1770, 2015.

To determine the level of genetic diversity and phylogenetic relationships among Tibetan yak populations, the mitochondrial DNA cytochrome c oxidase subunit 3 (COIII) genes of 378 yak individuals from 16 populations were analyzed in this study. The results showed that the length of cytochrome c oxidase subunit 3 gene sequences was 781 bp, with nucleotide frequencies of 29.2, 29.4, 26.1, and 15.2% for T, C, A, and G, respectively.

Assessment of genetic diversity and relationships among wild and cultivated Tunisian plums (Prunus spp) using random amplified microsatellite polymorphism markers

H. Ben Tamarzizt, Ben Mustapha, S., Baraket, G., Abdallah, D., and Salhi-Hannachi, A., Assessment of genetic diversity and relationships among wild and cultivated Tunisian plums (Prunus spp) using random amplified microsatellite polymorphism markers, vol. 14, pp. 1942-1956, 2015.

The usefulness of random amplified microsatellite polymorphism markers to study the genetic diversity and relationships among cultivars belonging to Prunus salicina and P. domestica and their wild relatives (P. insititia and P. spinosa) was investigated. A total of 226 of 234 bands were polymorphic (96.58%). The 226 random amplified microsatellite polymorphism markers were screened using 15 random amplified polymorphic DNA and inter-simple sequence repeat primers combinations for 54 Tunisian plum accessions.

Genetic diversity and population structure of Eucommia ulmoides Oliver, an endangered medicinal plant in China

J. Yu, Wang, Y., Peng, L., Ru, M., and Liang, Z. S., Genetic diversity and population structure of Eucommia ulmoides Oliver, an endangered medicinal plant in China, vol. 14, pp. 2471-2483, 2015.

Eucommia ulmoides Oliver, one of the tertiary relict species found only in China, is the only extant species of Eucommiaceae. Using inter-simple sequence repeat (ISSR) and sequence-related amplified polymorphism (SRAP) markers, we studied the genetic diversity and population genetic structure of 187 accessions from 17 E. ulmoides populations throughout its main distribution in China. A total of 65 bands were amplified using eight ISSR primers, of which 50 bands (76.9%) were polymorphic.

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.

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