Genetic diversity

Development of a cassava core collection based on single nucleotide polymorphism markers

E. J. Oliveira, Ferreira, C. F., Santos, V. S., and Oliveira, G. A. F., Development of a cassava core collection based on single nucleotide polymorphism markers, vol. 13, pp. 6472-6485, 2014.

Single nucleotide polymorphism (SNP) markers were used in the largest cassava (Manihot esculenta Crantz) germplasm collection from Brazil to develop core collections based on the maximization strategy. Subsets with 61, 64, 84, 128, 256, and 384 cassava accessions were selected and named PoHEU, MST64, PoRAN, MST128, MST256, and MST384, respectively. All the 798 alleles identified by 402 SNP markers in the entire collection were captured in all core collections.

Isolation, characterization, and cross-transferability of microsatellite markers from the whitebacked planthopper (Sogatella furcifera)

L. Zhang, Li, G., He, G. C., Zhu, L. L., Qin, R., and Jing, S. L., Isolation, characterization, and cross-transferability of microsatellite markers from the whitebacked planthopper (Sogatella furcifera), vol. 13, pp. 6248-6252, 2014.

The whitebacked planthopper Sogatella furcifera (Horváth) (Hemiptera: Delphacidae) is one of the most harmful pests of rice. In this study, 18 polymorphic microsatellite markers were developed from S. furcifera genomic libraries using the fast isolation by amplified fragment length polymorphism of sequences containing repeat protocols. Microsatellite polymorphism was investigated using 32 individuals from one natural population.

Development of polymorphic microsatellite markers and the population genetic structure of the half-fin anchovy, Setipinna taty

Y. N. Sun, Qin, Y., Zhu, Z. H., and Sun, D. Q., Development of polymorphic microsatellite markers and the population genetic structure of the half-fin anchovy, Setipinna taty, vol. 13, pp. 6293-6302, 2014.

Microsatellite markers for the half-fin anchovy Setipinna taty were developed from the enriched (CA)15 genomic library, and they were used for the population genetic studies of the half-fin anchovy from Chinese coastal areas. Samples were collected from five localities of the East China Sea and the Yellow Sea. Eleven simple sequence repeat markers were used to assess genetic differentiation in 30 individuals at each locality. As a result, 59 alleles were recorded over all loci with an average of 5.36 alleles per locus.

Analysis of genetic diversity and trait correlations among Korean landrace rice (Oryza sativa L.)

F. P. Li, Lee, Y. S., Kwon, S. W., Li, G., and Park, Y. J., Analysis of genetic diversity and trait correlations among Korean landrace rice (Oryza sativa L.), vol. 13, pp. 6316-6331, 2014.

This study analyzed 394 Korean rice landrace accessions, including 93 waxy varieties, for polymorphisms using 29 simple sequence repeat (SSR) markers. In total, 381 alleles served as raw data for estimating the genetic diversity (GD) and population structure. The number of alleles per locus ranged from 3 to 44 (average = 13.14). The expected heterozygosity and polymorphism information content (PIC) ranged from 0.0341 to 0.9358 (mean = 0.5623) and from 0.0783 to 0.9367 (mean = 0.5839), respectively.

Genetic characterization of hatchery populations of Korean spotted sea bass (Lateolabrax maculatus) using multiplex polymerase chain reaction assays

H. S. An, Kim, H. Y., Kim, J. B., Chang, D. S., Park, K. D., Lee, J. W., Myeong, J. I., and An, C. M., Genetic characterization of hatchery populations of Korean spotted sea bass (Lateolabrax maculatus) using multiplex polymerase chain reaction assays, vol. 13, pp. 6701-6715, 2014.

The spotted sea bass, Lateolabrax maculatus, is an important commercial and recreational fishery resource in Korea. Aquacultural production of this species has increased because of recent resource declines, growing consumption, and ongoing government-operated stock release programs. Therefore, the genetic characterization of hatchery populations is necessary to maintain the genetic diversity of this species and to develop more effective aquaculture practices.

Isolation and characterization of 32 microsatellite loci for topmouth culter (Culter alburnus Basilewsky)

S. - L. Liu, Gu, Z. - M., Jia, Y. - Y., Zhao, J. - L., Jiang, W. - P., Li, Q., and Li, F., Isolation and characterization of 32 microsatellite loci for topmouth culter (Culter alburnus Basilewsky), vol. 13, pp. 7480-7483, 2014.

The topmouth culter (Culter alburnus) is an economically important freshwater fish, which is widely distributed throughout large rivers, reservoirs, and lake areas of China. We report here the isolation and characterization of 32 new polymorphic microsatellite loci isolated from genomic DNA in this species enriched by (CA)12 and (GA)12 probes. The variability of these microsatellites was tested on 30 individuals cultured. The average allele number was 6.6 per locus, ranging from 3 to 12.

Population structure and genetic diversity of maize inbreds derived from tropical hybrids

E. C. M. Lanes, Viana, J. M. S., Paes, G. P., Paula, M. F. B., Maia, C., Caixeta, E. T., and Miranda, G. V., Population structure and genetic diversity of maize inbreds derived from tropical hybrids, vol. 13, pp. 7365-7376, 2014.

The objectives of this study were to identify the population structure and to assess the genetic diversity of maize inbreds. We genotyped 81 microsatellite loci of 90 maize inbreds that were derived from tropical hybrids and populations. The population structure analysis was based on a Bayesian approach. Each subpopulation was characterized for the effective number of alleles, gene diversity, and number of private alleles. We also performed an analysis of molecular variance and computed a measure of population differentiation (FST).

Genetic diversity of Broussonetia papyrifera populations in southwest China

S. X. Liao, Deng, Z. H., Cui, K., Cui, Y. Z., and Zhang, C. H., Genetic diversity of Broussonetia papyrifera populations in southwest China, vol. 13, pp. 7553-7563, 2014.

Broussonetia papyrifera is an important native tree species with high economic value in southwest China. Its resources are drastically reduced because of over-harvesting and habitat fragmentation. In this study, 17 natural populations of B. papyrifera were analyzed using inter-simple sequence repeat (ISSR) markers to assess the genetic diversity and population structure. In total, 100 bands were obtained from 16 ISSR primers. The B.

Genetic diversity and relationship of chicory (Cichorium intybus L.) using sequence-related amplified polymorphism markers

X. Y. Liang, Zhang, X. Q., Bai, S. Q., Huang, L. K., Luo, X. M., Ji, Y., and Jiang, L. F., Genetic diversity and relationship of chicory (Cichorium intybus L.) using sequence-related amplified polymorphism markers, vol. 13, pp. 7736-7746, 2014.

Chicory is a crop with economically important roles and is cultivated worldwide. The genetic diversity and relationship of 80 accessions of chicories and endives were evaluated by sequence-related amplified polymorphism (SRAP) markers to provide a theoretical basis for future breeding programs in China. The polymorphic rate was 96.83%, and the average polymorphic information content was 0.323, suggesting the rich genetic diversity of chicory. The genetic diversity degree of chicory was higher (GS = 0.677) than that of endive (GS = 0.701).

Genetic diversity among Puccinia melanocephala isolates from Brazil assessed using simple sequence repeat markers

R. F. Peixoto-Junior, Creste, S., Landell, M. G. A., Nunes, D. S., Sanguino, A., Campos, M. F., Vencovsky, R., Tambarussi, E. V., and Figueira, A., Genetic diversity among Puccinia melanocephala isolates from Brazil assessed using simple sequence repeat markers, vol. 13, pp. 7852-7863, 2014.

Brown rust (causal agent Puccinia melanocephala) is an important sugarcane disease that is responsible for large losses in yield worldwide. Despite its importance, little is known regarding the genetic diversity of this pathogen in the main Brazilian sugarcane cultivation areas. In this study, we characterized the genetic diversity of 34 P. melanocephala isolates from 4 Brazilian states using loci identified from an enriched simple sequence repeat (SSR) library.

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