基于高速双倍自助法对蒙古马系统发育树的研究

doi:10.11843/j.issn.0366-6964.2018.09.007

Abstract

Abstract:

The aim of this study was to analyze the phylogenetic tree of Mongolian horses using the speedy double bootstrap method. The mitochondrial DNA D-loop base sequences of 30 modern horses were used, which included 5 Mongolian horse subspecies (Baerhu, Sanhe, Wushen, Ujimqin and Xinihe horses) 6 for each subspecies and 6 Przewalski's horse as the outgroup, and all 105 possible phylogenetic trees were analyzed. Mega6 and PAMAL4.9 were used, and maximum likelihood phylogenetic tree of Mongolian horse were estimated by maximum likelihood method. Finally, the 3^rd order accurate P-value (speedy double bootstrap P-value, SDBP) of the 105 phylogenetic trees was calculated with the CONSEL, SDBP packages in R3.0. The phylogenetic tree of Mongolian horse with the largest SDBP value had 3 branches; Baerhu and Wushen horses were clustered together, Ujimqin and Xinihe horses were clustered together, and Sanhe horse formed an independent branch which was sister to all other Mongolian subspecies. The Mongolian horse phylogenetic tree with the largest SDBP value was consistent with the predicted relationship between Sanhe and the other 4 Mongolian horse subspecies, and this topological tree also had the highest likelihood value. The results of this study also showed that it was more effective to analyze the topological relationships of Mongolian horses using the maximum likelihood method combined with the SDBP value than using the maximum likelihood method combined with the approximately unbiased (AU) value and the bootstrap P-value (BP) value. Additionally, this approach was more effective than the unweighted pair-group method with arithmetic means (UPGMA), and had similar results to the neighbor joining (NJ) method. The results of this study provided robust genetic data which would produce a more complete picture of Mongolian horse evolution.

Key words: Mongolian horses, Przewalski's horse, speedy double bootstrap method, phylogenetic tree

CLC Number:

S821.2

REN Ai-zhen, BAI Dong-yi, ZHAO Yi-ping, HOU Na, DUGARJAVIIN Mang-lai. Phylogenetic Tree Analysis of Mongolian Horses Using the Speedy Double Bootstrap Method[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2018, 49(9): 1861-1869.

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Phylogenetic Tree Analysis of Mongolian Horses Using the Speedy Double Bootstrap Method

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