Molecular marker

Verification of specific selection SNPs between broiler and layer chicken in Chinese indigenous chicken breeds

D. Lan, Hu, Y. D., Zhu, Q., Li, D. Y., and Liu, Y. P., “Verification of specific selection SNPs between broiler and layer chicken in Chinese indigenous chicken breeds”, vol. 14, pp. 8388-8396, 2015.

The direction of production for indigenous chicken breeds is currently unknown and this knowledge, combined with the development of chicken genome-wide association studies, led us to investigate differences in specific loci between broiler and layer chicken using bioinformatic methods. In addition, we analyzed the distribution of these seven identified loci in four Chinese indigenous chicken breeds, Caoke chicken, Jiuyuan chicken, Sichuan mountain chicken, and Tibetan chicken, using DNA direct sequencing methods, and analyzed the data using bioinformatic methods.

Association between a single nucleotide polymorphism of the XRCC1 gene and hepatocellular carcinoma susceptibility in the Chinese Han population

X. F. Li, Chen, Y. X., Ye, W. W., Tao, X. F., Zhu, J. H., Wu, S., and Lou, L. Q., “Association between a single nucleotide polymorphism of the XRCC1 gene and hepatocellular carcinoma susceptibility in the Chinese Han population”, vol. 13, pp. 160-166, 2014.

The human X-ray repair cross-complementing protein 1 (XRCC1) gene is a potentially gene determining hepatocellular carcinoma (HCC) susceptibility. The purpose of this study was to evaluate the association between XRCC1 and susceptibility to HCC. The association of XRCC1 polymorphisms with HCC susceptibility was investigated in 460 HCC patients and 463 controls using the created restriction site-polymerase chain reaction method.

Association study of c.910A>G and c.1686C>G polymorphisms in XRCC1 gene with risk of hepatocellular carcinoma in the Chinese population

W. F. Xia, Ma, X. P., Li, X. R., Dong, H., and Yi, J. L., “Association study of c.910A>G and c.1686C>G polymorphisms in XRCC1 gene with risk of hepatocellular carcinoma in the Chinese population”, vol. 13, pp. 1314-1322, 2014.

XRCC1 (human X-ray repair complementing defective repair in Chinese hamster cell 1) gene is considered a potentially important gene influencing the risk of hepatocellular carcinoma (HCC). Our analyses detected two allelic variants of XRCC1, c.910A>G and c.1686C>G. We aimed to investigate whether these polymorphisms influence the risk of HCC. The association between the XRCC1 polymorphisms and the risk of HCC was analyzed in 719 patients and 662 controls by polymerase chain reaction-restriction fragment length polymorphism.

Microsatellite markers derived from Japanese scallop (Mizuhopecten yessoensis) expressed sequence tags

Y. F. Li, Gao, X. G., Liu, W. D., Tian, Y., Gao, L., Li, S. L., and He, C. B., “Microsatellite markers derived from Japanese scallop (Mizuhopecten yessoensis) expressed sequence tags”, vol. 13. pp. 1989-1992, 2014.

Japanese scallop (Mizuhopecten yessoensis) is a cold-water shellfish, and a species of economic importance in China. In this study, we developed and evaluated simple sequence repeat (SSR) markers from the expressed sequence tags (ESTs) of M. yessoensis. The characteristics of 12 EST-SSR loci were investigated in 30 individual scallops, and the result revealed that the number of alleles per locus ranged from 2-4, with an observed heterozygosity ranging from 0.0333-0.7692, and an expected heterozygosity ranging from 0.0333-0.6312.

Analysis of sequence diversity through internal transcribed spacers and simple sequence repeats to identify Dendrobium species

Y. T. Liu, Chen, R. K., Lin, S. J., Chen, Y. C., Chin, S. W., Chen, F. C., and Lee, C. Y., “Analysis of sequence diversity through internal transcribed spacers and simple sequence repeats to identify Dendrobium species”, vol. 13, pp. 2709-2717, 2014.

The Orchidaceae is one of the largest and most diverse families of flowering plants. The Dendrobium genus has high economic potential as ornamental plants and for medicinal purposes. In addition, the species of this genus are able to produce large crops. However, many Dendrobium varieties are very similar in outward appearance, making it difficult to distinguish one species from another. This study demonstrated that the 12 Dendrobium species used in this study may be divided into 2 groups by internal transcribed spacer (ITS) sequence analysis.

Development of eight novel microsatellite markers for Huoyan geese

Z. Z. Cao, Su, D., Zhao, Y. Y., Liu, M., Gao, M., and Luan, X. H., “Development of eight novel microsatellite markers for Huoyan geese”, vol. 13, pp. 5562-5565, 2014.

In this study, we isolated microsatellite DNA from the Huoyan goose genome with magnetic beads. As a result, 150 positive clones were identified, and 148 microsatellites were found. Among the 148 microsatellites, 69.6% were perfect, 17.6% were imperfect, and the rest were compound type (12.8%). Twenty microsatellite primers were used to screen 90 individuals from 3 Huoyan goose populations. Eight loci were polymorphic with a low number of alleles (2 to 4). The observed and expected heterozygosities ranged from 0.3556 to 1 and from 0.2923 to 0.6868, respectively.

Evaluation of genetic variability in in vitro sodium azide-induced Dendrobium ‘Earsakul’ mutants

A. Wannajindaporn, Poolsawat, O., Chaowiset, W., and Tantasawat, P. A., “Evaluation of genetic variability in in vitro sodium azide-induced Dendrobium ‘Earsakul’ mutants”, vol. 13, pp. 5333-5342, 2014.

In vitro mutagenesis of Dendrobium ‘Earsakul’ was carried out by incubating the protocorm-like bodies in 0-5 mM sodium azide for 1 h. Twenty-eight putative mutants were evaluated for genetic variability compared to untreated control plants using inter-simple sequence repeat (ISSR) analysis. Polymorphic fragments were produced by 9 of 12 ISSR primers. A total of 173 amplified ISSR fragments varying in size from 140 to 5000 bp were obtained, 39 of which were polymorphic (22.5%).

Microsatellite markers for the Cabreúva tree, Myroxylon peruiferum (Fabaceae), an endangered medicinal species from the Brazilian Atlantic Forest

K. D. Schwarcz, Bajay, M. M., Macrini, C. M. T., Salazar, V. L. P., Souza, A. P., Pinheiro, J. B., Brancalion, P. H. S., Rodrigues, R. R., and Zucchi, M. I., “Microsatellite markers for the Cabreúva tree, Myroxylon peruiferum (Fabaceae), an endangered medicinal species from the Brazilian Atlantic Forest”, vol. 13, pp. 6920-6925, 2014.

The Cabreúva tree, Myroxylon peruiferum, is an endangered tropical species from Brazil used in forest restoration projects. It is known for its medicinal properties. Eleven microsatellite markers were developed for this species, from a microsatellite-enriched library. Nine of these markers, characterized in 30 individuals from a semideciduous forest remnant population in southeast Brazil, were polymorphic, with allele numbers ranging from 2 to 8 per locus; expected and observed heterozygosities ranged from 0.103 to 0.757 and 0.107 to 0.704, respectively.

Expression profiling of CEACAM6 associated with the tumorigenesis and progression in gastric adenocarcinoma

X. Deng, Liu, P., Zhao, Y., and Wang, Q., “Expression profiling of CEACAM6 associated with the tumorigenesis and progression in gastric adenocarcinoma”, vol. 13, pp. 7686-7697, 2014.

Carcinoembryonic antigen-related cellular adhesion molecule 6 (CEACAM6) is a member of the immunoglobulin superfamily and has been recently reported to affect the neoplastic, metastatic, and invasive ability of malignant cells by regulating intracellular signaling pathways during tumorigenesis and progression. We investigated the expression and amplification of CEACAM6 in relation to the clinicopathological and biological significance of gastric adenocarcinoma.

Selfing confirmation in sugarcane by using simple sequence repeat markers: an individual reciprocal recurrent selection scheme

P. M. A. Costa, Almeida, C. F., Silveira, G., Soares, B., Baffa, D. C. F., Peternelli, L. A., Bhering, L. L., and Barbosa, M. H. P., “Selfing confirmation in sugarcane by using simple sequence repeat markers: an individual reciprocal recurrent selection scheme”, vol. 13, pp. 8962-8970, 2014.

Superior inbred clones selected in S1 families can integrate an individual reciprocal recurrent selection program in sugarcane by eliminating the genetic load of the population and exploring superior hybrid combinations. Molecular markers can be used for reliable identification of the true selfing-derived clones in these S1 populations.

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