Transcriptome analysis of the Larimichthys crocea liver in response to Cryptocaryon irritans.
Transcriptome analysis of the Larimichthys crocea liver in response to Cryptocaryon irritans.
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大黄鱼肝脏对白点虫刺激反应的转录组分析。
DOI：
10.1016/j.fsi.2015.11.011
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发表时间：
2016
期刊：
影响因子：
--
通讯作者：
Xu Nen-di
中科院分区：
文献类型：
--
作者：
Wang Panpan;Wang Jun;Su Yong-Quan;Mao Yong;Zhang Jian-She;Wu Chang-Wen;Ke Qiao-Zhen;Han Kun-Huang;Zheng Wei-Qiang;Xu Nen-di
大黄鱼（Larimichthys crocea）是中国和东亚国家重要的经济养殖海鱼，目前正面临着隐核虫（cryptocaryon irritans）的严重威胁，隐核虫是一种感染大多数养殖海鱼的原生动物外寄生虫。了解对c反应的分子免疫机制。因此，我们首先使用c - c的肝脏进行了比较基因转录分析。irritans-immunizedL。通过RNA-Seq技术从对照组中提取。剔除低质量序列和片段后，共获得51360个contigs，平均长度为1066.93 bp。此外，blast分析表明，30747个contigs可以基于与NT、NR、gene和string数据库中的匹配的同源性进行注释。通过基因本体分析，将21598个基因按分子功能、细胞成分和生物过程三大类进行分类。在303条KEGG通路中共发现14470个基因。通过RSEM和EdgeR分析，我们发现3841个基因存在显著差异表达（FDR < 0.001），其中上调基因2129个，下调基因1712个。对这些差异表达基因和等基因的显著富集分析揭示了主要的免疫相关途径，包括toll样受体、补体和凝血级联以及趋化因子信号通路。此外，从12776个转录本中检测到28748个潜在的简单序列重复序列（SSRs），并在theL中鉴定出62992个候选单核苷酸多态性（snp）。croceasliver转录组。本研究的特点是基因表达模式正常和c。irritans-immunizedL。这不仅为宿主c的分子机制提供了新的线索。刺激相互作用，但也有利于未来的研究。Croceasgene的表达和功能基因组学。
The large yellow croaker (Larimichthys crocea) is an economically important marine fish cultured in China and East Asian countries and is facing a serious threat fromCryptocaryon irritans, which is a protozoan ectoparasite that infects most reared marine fish species. To understand the molecular immune mechanisms underlying the response toC. irritans, we first performed a comparative gene transcription analysis using livers fromC. irritans-immunizedL. croceasand from a control group through RNA-Seq technology. After the removal of low-quality sequences and assembly, 51360 contigs were obtained, with an average length of 1066.93 bp. Further, a blast analysis indicates that 30747 contigs can be annotated based on homology with matches in the NT, NR, gene, and string databases. A gene ontology analysis was used to classify 21598 genes according to three major functional categories: molecular function, cellular component, and biological process. Moreover, 14470 genes were found in 303 KEGG pathways. We used RSEM and EdgeR to determine that 3841 genes were significantly differentially expressed (FDR < 0.001), including 2129 up-regulated genes and 1712 down-regulated genes. A significant enrichment analysis of these differentially expressed genes and isogenes revealed major immune-related pathways, including the toll-like receptor, complement and coagulation cascades, and chemokine signaling pathways. In addition, 28748 potential simple sequence repeats (SSRs) were detected from 12776 transcripts, and 62992 candidate single nucleotide polymorphisms (SNPs) were identified in theL. croceasliver transcriptome. This study characterized a gene expression pattern for normal andC. irritans-immunizedL. croceasfor the first time and not only sheds new light on the molecular mechanisms underlying the host-C. irritansinteraction but also facilitates future studies onL. croceasgene expression and functional genomics.
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影响因子：
5.8
作者：
Tong, Mark Y.;Cassa, Christopher A.;Kohane, Isaac S.
通讯作者：
Kohane, Isaac S.
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
DOI：
10.1073/pnas.0902417106
发表时间：
2009-08-04
影响因子：
11.1
作者：
Han, Xinwei;Wu, Xia;Ma, Hong
通讯作者：
Ma, Hong
影响因子：
1.9
作者：
Cardenas, Leyla;Sanchez, Roland;Tanguy, Arnaud
通讯作者：
Tanguy, Arnaud
影响因子：
1.6
作者：
Lu, Zhenming;Li, Hongmei;Wang, Chaofeng
通讯作者：
Wang, Chaofeng