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Solexa sequencing of small RNAs in Singapore grouper iridovirus (SGIV)-infected grouper cells

ABSTRACT: We applied Solexa sequencing technology to identify Singapore grouper iridovirus (SGIV) encoded microRNAs during its infection. A small RNA library arising from SGIV infected grouper cells (GP) was constructed and sequenced. We recovered 6,802,977 usable reads, of which 34,400 reads represented the small RNA sequences encoded by SGIV. Among them, 16 novel SGIV encoded miRNAs were identified by a computational pipeline. Generally, these 16 miRNAs are dispersed throughout the SGIV genome, while three of them are located within open reading frame 057L (ORF057L) region. Meanwhile, We identified 138 conserved microRNA genes between grouper fish and zebrafish. 18-30 nt small RNAs from SGIV-infected GP cells were sequenced in one Solexa lane.

ORGANISM(S): Epinephelus tauvina

SUBMITTER: Yang Yan

PROVIDER: E-GEOD-26909 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Identification of a novel marine fish virus, Singapore grouper iridovirus-encoded microRNAs expressed in grouper cells by Solexa sequencing.

Yan Yang Y Cui Huachun H Jiang Songshan S Huang Youhua Y Huang Xiaohong X Wei Shina S Xu Weiyi W Qin Qiwei Q

PloS one 20110429 4

<h4>Background</h4>MicroRNAs (miRNAs) are ubiquitous non-coding RNAs that regulate gene expression at the post-transcriptional level. An increasing number of studies has revealed that viruses can also encode miRNAs, which are proposed to be involved in viral replication and persistence, cell-mediated antiviral immune response, angiogenesis, and cell cycle regulation. Singapore grouper iridovirus (SGIV) is a pathogenic iridovirus that has severely affected grouper aquaculture in China and Southea ...[more]

PMID: 21559453

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