Venier Paola, De Pittà Cristiano, Bernante Filippo, Varotto Laura, De Nardi Barbara, Bovo Giuseppe, Roch Philippe, Novoa Beatriz, Figueras Antonio, Pallavicini Alberto, Lanfranchi Gerolamo
Department of Biology, University of Padova, Via U Bassi 58/B, Padova, Italy.
BMC Genomics. 2009 Feb 9;10:72. doi: 10.1186/1471-2164-10-72.
Although bivalves are among the most studied marine organisms due to their ecological role, economic importance and use in pollution biomonitoring, very little information is available on the genome sequences of mussels. This study reports the functional analysis of a large-scale Expressed Sequence Tag (EST) sequencing from different tissues of Mytilus galloprovincialis (the Mediterranean mussel) challenged with toxic pollutants, temperature and potentially pathogenic bacteria.
We have constructed and sequenced seventeen cDNA libraries from different Mediterranean mussel tissues: gills, digestive gland, foot, anterior and posterior adductor muscle, mantle and haemocytes. A total of 24,939 clones were sequenced from these libraries generating 18,788 high-quality ESTs which were assembled into 2,446 overlapping clusters and 4,666 singletons resulting in a total of 7,112 non-redundant sequences. In particular, a high-quality normalized cDNA library (Nor01) was constructed as determined by the high rate of gene discovery (65.6%). Bioinformatic screening of the non-redundant M. galloprovincialis sequences identified 159 microsatellite-containing ESTs. Clusters, consensuses, related similarities and gene ontology searches have been organized in a dedicated, searchable database http://mussel.cribi.unipd.it.
We defined the first species-specific catalogue of M. galloprovincialis ESTs including 7,112 unique transcribed sequences. Putative microsatellite markers were identified. This annotated catalogue represents a valuable platform for expression studies, marker validation and genetic linkage analysis for investigations in the biology of Mediterranean mussels.
双壳贝类由于其生态作用、经济重要性以及在污染生物监测中的应用，是研究最多的海洋生物之一，但关于贻贝基因组序列的信息却非常少。本研究报告了对受有毒污染物、温度和潜在致病细菌挑战的地中海贻贝（Mytilus galloprovincialis）不同组织进行大规模表达序列标签（EST）测序的功能分析。
我们构建并测序了来自地中海贻贝不同组织的17个cDNA文库：鳃、消化腺、足、前后闭壳肌、外套膜和血细胞。从这些文库中总共测序了24,939个克隆，产生了18,788个高质量的EST，这些EST被组装成2,446个重叠簇和4,666个单拷贝，总共得到7,112个非冗余序列。特别是，通过高基因发现率（65.6%）确定构建了一个高质量的标准化cDNA文库（Nor01）。对非冗余的地中海贻贝序列进行生物信息学筛选，鉴定出159个含微卫星的EST。簇、共识序列、相关相似性和基因本体搜索已被组织在一个专门的、可搜索的数据库http://mussel.cribi.unipd.it中。
我们定义了第一个地中海贻贝EST的物种特异性目录，包括7,112个独特的转录序列。鉴定出了推定的微卫星标记。这个注释目录代表了一个有价值的平台，用于地中海贻贝生物学研究中的表达研究、标记验证和遗传连锁分析。
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