De novo Assembly and Characterization of the Testis Transcriptome and Development of EST-SSR Markers in the Cockroach Periplaneta americana.
De novo Assembly and Characterization of the Testis Transcriptome and Development of EST-SSR Markers in the Cockroach Periplaneta americana.
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DOI：
10.1038/srep11144
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发表时间：
2015-06-05
影响因子：
4.6
通讯作者：
Jiang GF
中科院分区：
文献类型：
--
作者：
Chen W;Liu YX;Jiang GF
美洲大蠊是一种臭名昭著的害虫，对世界各地的健康构成威胁，具有很高的繁殖能力。然而，有限的数据是可用的发育阶段特异性转录组的美洲大蠊。为了鉴定参与发育过程的基因并在美洲大蠊中开发额外的SSR标记，我们使用Illumina测序进行美洲大蠊转录组的从头组装。去除低质量序列后，我们获得了64，954，709个重叠群，这些重叠群进一步组装成125，390个平均长度为711 bp的单基因。基于对已知蛋白质的相似性搜索，我们根据10−5的截止E值确定了48，300个unigenes。根据基因描述、基因本体和同源群聚类对组装序列进行注释。共鉴定出14，195个潜在SSR标记，随机选择的63对引物中有41对成功扩增出预测的SSR标记，其中7对在美洲大蠊中具有多态性。Spag6基因为睾丸特异性基因，fru和RPSA基因与睾丸发育相关。这是利用Illumina测序技术获得的一个美洲大蠊转录组的特别报道，并开发了大量的分子标记。
The cockroach Periplaneta americana is a notorious pest and threat to health worldwide, with a high reproductive ability. However, a limited amount of data is available on the developmental stage-specific transcriptomes of P. americana. To identify genes involved in developmental processes and to develop additional SSR markers in P. americana, we carried out de novo assembly of the P. americana transcriptome using Illumina sequencing. After removing low-quality sequences, we obtained 64,954,709 contigs, which were further assembled into 125,390 unigenes with an average length of 711 bp. Based on similarity searches against known proteins, we identified 48,300 unigenes based on a cut-off E-value of 10−5. The assembled sequences were annotated according to gene descriptions, gene ontology and clusters of orthologous groups. A total of 14,195 potential SSRs were identified, and 41 of 63 randomly chosen primer pairs successfully amplified the predicted SSR markers, seven of which were polymorphic in size in P. americana. Furthermore, the Spag6 gene was confirmed to be testes specific, and the fru and RPSA genes were related to the development of the testis. This is the special report of a P. americana transcriptome obtained using Illumina sequencing technology, and a large number of molecular markers were developed.
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使用 Illumina 测序对橡胶树 (Hevea brasiliensis Muell. Arg.) 中的树皮转录组进行从头组装和表征以及 EST-SSR 标记的开发
影响因子：
4.4
作者：
Li D;Deng Z;Qin B;Liu X;Men Z
通讯作者：
Men Z
影响因子：
3.6
作者：
Hegedus, Zoltan;Zakrzewska, Anna;Meijer, Annemarie H.
通讯作者：
Meijer, Annemarie H.
影响因子：
4.5
作者：
Mauriz, Oscar;Maneiro, Veronica;Juan Pazos, Antonio
通讯作者：
Juan Pazos, Antonio
影响因子：
2.4
作者：
Clynen, Elke;Ciudad, Laura;Piulachs, Maria-Dolors
通讯作者：
Piulachs, Maria-Dolors
影响因子：
3.4
作者：
Mayer WE;Herrmann M;Sommer RJ
通讯作者：
Sommer RJ