Percentage abundance of selected protein groups upon TbUsp7 and TbVdu1 RNAi derived from normalised SILAC ratios.

Values represent average percentage protein abundance relative to uninduced cells ± standard deviation. TbUsp7 and TbVdu1 RNAi samples were analysed at indicated time points in experimental duplicate and triplicate, respectively. Asterisks mark proteins not quantified in all replicates. Polypeptide features predicted using TMHMM2 for trans-membrane domains [39], signalP for N-terminal ER-targeting signal [40], PredGPI for GPI-anchor addition C-terminal signal sequence [41] and TPRpred for tetratrico peptide repeats [42]. Predictions are given as Yes, No responses or sequence positions (inclusive signal sequence) using default parameters. In most cases the topology of the protein is experimentally known or predictable based on close homology of experimentally derived information. All protein hits shown have been inspected for their genomic context and integrity. Protein groups consist of indistinguishable paralogs, sharing identical quantified peptides. For the complete quantification data see S1 Table. NA; not applicable, ND; not detected.

各组数值为相对于未诱导细胞的平均蛋白质相对丰度百分比，数据以均值±标准差表示。针对TbUsp7与TbVdu1 RNA干扰（RNA interference, RNAi）样本，分别以两次实验重复与三次实验重复的方式，在指定时间点开展分析检测。星号标记了未在所有重复样本中完成定量的蛋白质。蛋白质多肽特征的预测采用如下工具：跨膜结构域预测使用TMHMM2 [39]，N端内质网靶向信号肽预测使用signalP [40]，糖基磷脂酰肌醇（GPI）锚定C端信号序列预测使用PredGPI [41]，四肽重复序列（tetratrico peptide repeats, TPR）预测使用TPRpred [42]。预测结果以“是”“否”或序列位置（包含信号肽序列）的形式呈现，所有预测均采用默认参数完成。在大多数情况下，蛋白质的拓扑结构已通过实验确定，或可基于实验推导的同源序列信息进行预测。本研究所展示的所有蛋白质命中结果，均经过了基因组上下文与序列完整性的核查。蛋白质组由无法区分的旁系同源基因（paralogs）组成，它们共享完全一致的定量肽段。完整定量数据详见S1表。NA表示不适用（not applicable），ND表示未检测到（not detected）。