File S1 - Sequence and Annotation of the Apicoplast Genome of the Human Pathogen Babesia microti

Figure S1: Multiple alignment of apicoplast genomes from B. microti and other apicomplexan parasites using Mauve. Apicoplast genomes are laid out horizontally with colored blocks representing homologous regions. Gene synteny and BLAST analysis were used to define gene clusters. Figure S2: Major genomic rearrangements revealed by comparing apicoplast genomes of various apicomplexan parasites. Red and blue areas represent conserved syntenic regions in the forward and reverse directions, respectively. Figure S3: Domain structure of ClpC proteins encoded by the apicoplast genome of piroplasmida. The apicoplast genomes of the Babesia bovis T2Bo, Babesia microti R1 and Theileria parva Mugaga encode two ClpC proteins containing a conserved ATPase domain (PfamA AAA_2 domain) and several transmembrane domains predicted using TMPred (TM). The figure was generated using Pfam server either using UNIPROT accession number or by direct submission of the amino acid sequence. Regions of low complexity are represented in blue. PfamB domains are represented by horizontal lines. Table S1: Primers used to assemble and sequence the B. microti apicoplast genome. Coordinates are given according to the sequence available at accession number LK028575. Primer orientation: w for Watson strand and c for Crick strand. (PDF)

补充图S1：采用Mauve软件对微小巴贝虫（Babesia microti）及其他顶复门寄生虫（apicomplexan parasites）的顶质体基因组（apicoplast genome）进行多重序列比对。顶质体基因组以水平方式排布，彩色区块代表同源区域。通过基因共线性分析与BLAST比对定义基因簇。
补充图S2：比对多种顶复门寄生虫的顶质体基因组后揭示的主要基因组重排现象。红色与蓝色区域分别代表正向与反向的保守共线性区域。
补充图S3：梨形虫目（Piroplasmida）顶质体基因组编码的ClpC蛋白的结构域组成。牛巴贝虫（Babesia bovis）T2Bo株、微小巴贝虫R1株以及马泰勒虫（Theileria parva）Mugaga株的顶质体基因组均编码两种ClpC蛋白，二者包含保守的ATP酶结构域（PfamA AAA_2结构域）以及若干通过TMPred（TM）预测得到的跨膜结构域。本图通过Pfam服务器生成，可通过通用蛋白质知识库（UniProt）的登录号直接调用，或直接提交氨基酸序列进行分析。低复杂度区域以蓝色标注，PfamB结构域以水平线表示。
补充表S1：用于组装与测序微小巴贝虫顶质体基因组的引物序列。坐标依据登录号为LK028575的参考序列进行标注。引物方向：w代表沃森链（Watson strand），c代表克里克链（Crick strand）。
（PDF格式）