Identification and comparative analysis of the Eriocheir sinensis microRNA transcriptome response to Spiroplasma eriocheiris infection using a deep sequencing approach

Ou, Jiangtao; Meng, Qingguo; Li, Yue; Xiu, Yunji; Du, Jie; Gu, Wei; Li, Wenjie; Ding, Zhengfeng; Wang, Wen

doi:10.1016/j.fsi.2011.11.027

Cited by 73 publications

(49 citation statements)

References 86 publications

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“…Fifteen miRNA (4 known miRNAs and 11 novel miRNAs) were selected to confirm the expression pattern by stem-loop RT-qPCR assays. The results showed that there was a general consistency (86.7 %) between the quantitative assay and deep sequencing analysis for the fifteen miRNAs in terms of directions of regulation and significance (Ou et al 2012) ( Table 5).…”

Section: Mirna Differential Expression Analysismentioning

confidence: 83%

“…So far, only 52 crustacean miRNAs have been listed in the miRBase, which accounted for 0.21 % of the total (24,521) (Kozomara and Griffiths-Jones 2013). We matched P. trituberculatus miRNAs against E. sinensis miRNAs Ou et al 2012), another important economic aquaculture species in China. A total of 85.7 % (12 out of 16) of the known miRNAs could be matched with the miRNAs from E. sinensis, whereas none of the novel miRNAs matched the miRNAs from E. sinensis.…”

Section: Discussionmentioning

confidence: 99%

“…In animals, miRNAs regulate their target genes through mRNA destabilization and translational inhibition (Bushati and Cohen 2007). So far, miRNAs have been identified in a few aquatic crustacean species, and these were involved in regulation of oocyte meiosis , adaptive immunity Ou et al 2012;Zeng et al 2015), and drug response (ValenzuelaMiranda et al 2015). Previous reports have shown that some plant miRNAs respond to salinity stress and that some miRNA targets are salt stress-related genes (Xie et al 2014;Peng et al 2014;Frazier et al 2011).…”

Section: Electronic Supplementary Materialsmentioning

confidence: 99%

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The identification and characteristics of salinity-related microRNAs in gills of Portunus trituberculatus

Liu

Gao

et al. 2016

Cell Stress and Chaperones

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MicroRNAs (miRNAs) are small noncoding RNAs that post-transcriptionally regulate gene expression in organisms. To understand the underlying mechanisms behind the molecular response of the crab to low salt-stress, highthroughput Illumina/Solexa deep sequencing technology was used to investigate the expression profiles of miRNAs under low salinity challenged. Two mixed RNA pool libraries of gill tissues from low salinity challenged (LC) and the control groups (NC) were sequenced on the Illumina platform. A total of 6,166,057 and 7,032,973 high-quality reads were obtained from the NC and LC libraries, respectively. Sixty-seven miRNAs consisting of 16 known and 51 novel ones were identified, among which, 12 miRNAs were differentially expressed in LC compared to NC. Thirty-four of the target genes predicted were differentially expressed in the opposite direction to the miRNAs, which were involved in crucial processes related to osmoregulation by gene ontology (GO) functional enrichment analysis, such as anion transport processes (GO:0006820) and chitin metabolic process (GO:0006030). These results provide a basis for further investigation of the miRNA-modulating networks in osmoregulation of Portunus trituberculatus.

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Section: Mirna Differential Expression Analysismentioning

confidence: 83%

Section: Discussionmentioning

confidence: 99%

Section: Electronic Supplementary Materialsmentioning

confidence: 99%

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The identification and characteristics of salinity-related microRNAs in gills of Portunus trituberculatus

Liu

Gao

et al. 2016

Cell Stress and Chaperones

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“…The identification and characterization of miRNAs involved in the immune response are now essential for the elucidation of hostpathogen interactions and immune defense and disease control mechanisms [23]. Accumulating reports have indicated that bacteria can produce miRNAs to manipulate host gene expression.…”

mentioning

confidence: 99%

Comprehensive identification and profiling of Nile tilapia (Oreochromis niloticus) microRNAs response to Streptococcus agalactiae infection through high-throughput sequencing

Wang

Gan

Cai

et al. 2016

Fish & Shellfish Immunology

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“…Several studies have reported identification of miRNAs in crustaceans, including Procambarus clarkii (Ou et al, 2013), Marsupenaeus japonicus (Huang et al, 2012), Eriocheir sinensis (Ou et al, 2012), and Parhyale hawaiensis (Blythe et al, 2012). Initially, miRNAs were identified using traditional Sanger sequencing techniques.…”

Section: Introductionmentioning

confidence: 99%

Identification of highly expressed host microRNAs that respond to white spot syndrome virus infection in the Pacific white shrimp Litopenaeus vannamei (Penaeidae)

et al. 2015

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ABSTRACT. MicroRNAs (miRNAs) are known to play an important role in regulating both adaptive and innate immunity. Pacific white shrimp (Litopenaeus vannamei) is the most widely farmed crustacean species in the world. However, little is known about the role miRNAs play in shrimp immunity. To understand the impact of viral infection on miRNA expression in shrimp, we used high-throughput sequencing technology to sequence two small RNA libraries prepared from L. vannamei under normal and white spot syndrome virus (WSSV) challenged conditions. Approximately 19,312,189 and 39,763,551 raw reads corresponding to 17,414,787 and 28,633,379 high-quality mappable reads were obtained from the two libraries, respectively. Twelve conserved miRNAs and one novel miRNA that were highly expressed (>100 RPM) in L. vannamei were identified. Of the identified miRNAs, 8 were differentially expressed in response to the virus 4819 Identification of microRNAs in Litopenaeus vannamei©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 14 (2): 4818-4828 (2015) infection, of which 1 was upregulated and 7 were downregulated. The prediction of miRNA targets showed that the target genes of the differentially expressed miRNAs were related to immunity, apoptosis, and development functions. Our study provides the first characterization of L. vannamei miRNAs in response to WSSV infection, which will help to reveal the roles of miRNAs in the antiviral mechanisms of shrimp.

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Identification and comparative analysis of the Eriocheir sinensis microRNA transcriptome response to Spiroplasma eriocheiris infection using a deep sequencing approach

Cited by 73 publications

References 86 publications

The identification and characteristics of salinity-related microRNAs in gills of Portunus trituberculatus

The identification and characteristics of salinity-related microRNAs in gills of Portunus trituberculatus

Comprehensive identification and profiling of Nile tilapia (Oreochromis niloticus) microRNAs response to Streptococcus agalactiae infection through high-throughput sequencing

Identification of highly expressed host microRNAs that respond to white spot syndrome virus infection in the Pacific white shrimp Litopenaeus vannamei (Penaeidae)

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