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Phylogenetic analyses

MH Min Hui
AW Aiyang Wang
JC Jiao Cheng
ZS Zhongli Sha
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In order to study the phylogenetic relationship of different OTUs and the difference of the dominant species in different groups, sequences of OTUs with cumulative percentage 95% in each group (ALMS, ALHV, SLHV) and their close relatives retrieved from the Silva database were aligned using MAFFT v7.475 (Katoh & Standley, 2013). The best-fitting model of sequence evolution was selected by ModelFinder, and maximum-likelihood (ML) phylogenetic tree with 1,000 bootstrap replicates was reconstructed using IQ-TREE v2.1.2 (Kalyaanamoorthy et al., 2017). Tree graphics was viewed, manipulated and annotated with the FigTree v.1.4.4 software (http://tree.bio.ed.ac.uk/software/figtree/).

Copyright and License information:  ©2022 Hui et al.
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