Receptor protein tyrosine phosphatase phylogeny

Best of 50 ML trees as inferred by RAxML under the LG+ Γ model (see STAR methods). Purple, pink, orange, blue, light blue and brown texts indicate C. owczarzaki, M. vibrans, Pigoraptor, S. multiformis, C. limacisporum and H. sapiens, respectively. The query sequence is indicated in red. The Pigoraptor (strains Opistho-1 and Opistho-2) and S. multiformis (strain Colp-12) sequences cluster with an annotated C. owczarzaki receptor protein tyrosine phosphatase also containing Fibronectin-3 domains (XP_004365141); note the Opistho-1 and the Colp-12 homolog are truncated. Other protein tyrosine kinases (receptor and non-receptor) are indicated and were identified by the annotated H. sapiens homologs present in the respective clade. Selected clades are collapsed to increase clarity. Node supports are nonparametric ML bootstrap values obtained from 1000 ML replicates using the LG+ Γ model implemented in RAxML, numbers at nodes represent bootstrap supports of greater than 50%. The scale bar represents the estimated number of amino acid substitutions per site.本数据集包含通过RAxML软件，基于LG+伽马（LG+ Γ）模型构建的50棵最大似然系统发育树中的最优树（详见STAR方法部分）。紫色、粉色、橙色、蓝色、浅蓝色与棕色文本分别对应卡氏棘变形虫（C. owczarzaki）、振动纺锤虫（M. vibrans）、猛鞭虫（Pigoraptor）、多形单极虫（S. multiformis）、梭孢珊瑚壶菌（C. limacisporum）以及智人（H. sapiens）。查询序列以红色标注。猛鞭虫（Pigoraptor）的Opistho-1、Opistho-2菌株与多形单极虫（S. multiformis）的Colp-12菌株的序列，与同时包含纤连蛋白3（Fibronectin-3）结构域的注释型卡氏棘变形虫（C. owczarzaki）受体型蛋白酪氨酸磷酸酶（XP_004365141）聚为同一演化支；需注意Opistho-1与Colp-12的同源序列存在截短现象。其余蛋白酪氨酸激酶（涵盖受体型与非受体型）均已完成标注，其鉴定依据为各对应演化支中存在的注释型智人（H. sapiens）同源序列。为提升图表可读性，部分演化支已进行合并展示。节点支持率为采用RAxML软件中LG+伽马模型，经1000次最大似然重复抽样得到的非参数最大似然自展值；节点旁的数字代表自展支持率大于50%的结果。标尺刻度代表每一位点的氨基酸替换估计数。