A comprehensive Candida albicans PeptideAtlas build enables deep proteome coverage.
A comprehensive Candida albicans PeptideAtlas build enables deep proteome coverage.
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全面的白色念珠菌 PeptideAtlas 构建可实现深度蛋白质组覆盖。
DOI：
10.1016/j.jprot.2015.10.019
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发表时间：
2016
影响因子：
3.3
通讯作者：
Gil,Concha
中科院分区：
文献类型：
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作者：
Vialas,Vital;Sun,Zhi;Reales-Calderón,JoseA;Hernáez,MaríaL;Casas,Vanessa;Carrascal,Montserrat;Abián,Joaquín;Monteoliva,Lucía;Deutsch,EricW;Moritz,RobertL;Gil,Concha
为了提供机会致病白念珠菌的新的和扩展的蛋白质组文件，我们已经开发了新的蛋白质提取和分析程序，以提供一个新的，扩展的和增强的版本的C。白色念珠菌肽图谱。两个新的数据集，从实验组成的详尽的亚细胞分馏和不同的生长条件下，加上两个额外的数据集从以前的实验上的表面和分泌的蛋白质组，已被纳入增加蛋白质组的覆盖范围。高分辨率前体质谱（MS）和离子阱串联MS光谱进行了分析与三个不同的搜索引擎使用的数据库含有等位基因特异性序列。这种方法，新颖的大规模C。albicans蛋白质组学项目，与在PeptideAtlas项目中一贯使用的Trans Proteomic Pipeline中实施的后处理和过滤相结合，导致在newC中鉴定出49，372个额外的肽（3倍增加）和1630个更多的蛋白质（1.6倍增加）。albicansPeptideAtlas相对于之前的构建版本。总共鉴定了71，310个肽和4174个典型（最小非冗余集）蛋白质（如果考虑每对等位基因一个蛋白质，则为4115个），代表预测蛋白质组中6218个蛋白质的66%。这使得新的PeptideAtlas构建了最全面的C。白念珠菌蛋白质组学资源可用，是唯一一个大规模的检测个别等位基因。
To provide new and expanded proteome documentation of the opportunistically pathogenCandida albicans, we have developed new protein extraction and analysis routines to provide a new, extended and enhanced version of theC. albicansPeptideAtlas. Two new datasets, resulting from experiments consisting of exhaustive subcellular fractionations and different growing conditions, plus two additional datasets from previous experiments on the surface and the secreted proteomes, have been incorporated to increase the coverage of the proteome. High resolution precursor mass spectrometry (MS) and ion trap tandem MS spectra were analyzed with three different search engines using a database containing allele-specific sequences. This approach, novel for a large-scaleC. albicansproteomics project, was combined with the post-processing and filtering implemented in the Trans Proteomic Pipeline consistently used in the PeptideAtlas project and resulted in 49,372 additional peptides (3-fold increase) and 1630 more proteins (1.6-fold increase) identified in the newC. albicansPeptideAtlas with respect to the previous build. A total of 71,310 peptides and 4174canonical(minimal non-redundant set) proteins (4115 if one protein per pair of alleles is considered) were identified representing 66% of the 6218 proteins in the predicted proteome. This makes the new PeptideAtlas build the most comprehensiveC. albicansproteomics resource available and the only large-scale one with detections of individual alleles.