Open Access Highly Accessed Research article

MHC class II DQB diversity in the Japanese black bear, Ursus thibetanus japonicus

Yoshiki Yasukochi1*, Toshifumi Kurosaki2, Masaaki Yoneda2, Hiroko Koike3 and Yoko Satta1

Author Affiliations

1 Department of Evolutionary Studies of Biosystems, the Graduate University for Advanced Studies (SOKENDAI), Shonan Village, Hayama, Kanagawa 240-0193, Japan

2 Japan Wildlife Research Center, 3-10-10 Shitaya, Taitou-ku, Tokyo 110-8676, Japan

3 The Kyushu University Museum, Kyushu University, 6-10-1 Hakozaki, Higashi-ku, Fukuoka city 812-8581, Japan

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BMC Evolutionary Biology 2012, 12:230  doi:10.1186/1471-2148-12-230

Published: 29 November 2012

Additional files

Additional file 1:

The NJ and Bayesian trees of ursine DQB and DRB genes. The NJ and Bayesian trees were constructed based on amino acid sequences of partial exon 2 region of ursine DQB or DRB genes. The JTT model with gamma distribution is used for the NJ and Bayesian trees, respectively. Numbers in parentheses are Genbank accession numbers. Only bootstrap values over 50% and posterior probabilities over 80% are shown in the NJ and Bayesian trees, respectively.

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Additional file 2:

The comparison of nucleotides at the polymorphic sites between uncloned and cloned PCR products. (A) An example that an individual is identified as a heterozygote. The upper figure is the alignment of nucleotide sequences of uncloned and cloned PCR products. The lower figure is the result of direct-sequencing for uncloned PCR product. (B) An example that an individual is not identified as a heterozygote. Such an individual is excluded from analyses of the present study.

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