Complete genome sequence and transcription profiles of the rock bream iridovirus RBIV-C1

doi:10.3354/dao02587

IOCAS-IR > 实验海洋生物学重点实验室

	Complete genome sequence and transcription profiles of the rock bream iridovirus RBIV-C1
	Zhang, Bao-Cun 1,2; Zhang, Min 1; Sun, Bo-Guang1 ; Fang, Yong 1,2; Xiao, Zhi-Zhong 1; Sun, Li 1; Sun, L
	2013-06-13
发表期刊	DISEASES OF AQUATIC ORGANISMS
ISSN	0177-5103
卷号	104 期号:3 页码:203-+
文章类型	Article
摘要	The family Iridoviridae consists of 5 genera of double-stranded DNA viruses, including the genus Megalocytivirus, which contains species that are important fish pathogens. In a previous study, we isolated the first rock bream iridovirus from China (RBIV-C1) and identified it as a member of the genus Megalocytivirus. In this report, we determined the complete genomic sequence of RBIV-C1 and examined its in vivo expression profiles. The genome of RBIV-C1 is 112 333 bp in length, with a GC content of 55% and a coding density of 92%. RBIV-C1 contains 4584 simple sequence repeats, 89.8% of which are distributed among coding regions. A total of 119 potential open reading frames (ORFs) were identified in RBIV-C1, including the 26 core iridovirus genes; 41 ORFs encode proteins that are predicted to be associated with essential biological functions. RBIV-C1 exhibits the highest degree of sequence conservation and colinear arrangement of genes with orange-spotted grouper iridovirus (OSGIV) and rock bream iridovirus (RBIV). The pair-wise nucleotide identities are 99.49% between RBIV-C1 and OSGIV and 98.69% between RBIV-C1 and RBIV. Compared to OSGIV, RBIV-C1 contains 11 insertions, 13 deletions, and 103 single nucleotide mutations. Whole-genome transcription analysis showed that following experimental infection of rock bream with RBIV-C1, all but 1 of the 119 ORFs were expressed at different time points and clustered into 3 hierarchical groups based on their expression patterns. These results provide new insights into the genetic nature and gene expression features of megalocytiviruses.; The family Iridoviridae consists of 5 genera of double-stranded DNA viruses, including the genus Megalocytivirus, which contains species that are important fish pathogens. In a previous study, we isolated the first rock bream iridovirus from China (RBIV-C1) and identified it as a member of the genus Megalocytivirus. In this report, we determined the complete genomic sequence of RBIV-C1 and examined its in vivo expression profiles. The genome of RBIV-C1 is 112 333 bp in length, with a GC content of 55% and a coding density of 92%. RBIV-C1 contains 4584 simple sequence repeats, 89.8% of which are distributed among coding regions. A total of 119 potential open reading frames (ORFs) were identified in RBIV-C1, including the 26 core iridovirus genes; 41 ORFs encode proteins that are predicted to be associated with essential biological functions. RBIV-C1 exhibits the highest degree of sequence conservation and colinear arrangement of genes with orange-spotted grouper iridovirus (OSGIV) and rock bream iridovirus (RBIV). The pair-wise nucleotide identities are 99.49% between RBIV-C1 and OSGIV and 98.69% between RBIV-C1 and RBIV. Compared to OSGIV, RBIV-C1 contains 11 insertions, 13 deletions, and 103 single nucleotide mutations. Whole-genome transcription analysis showed that following experimental infection of rock bream with RBIV-C1, all but 1 of the 119 ORFs were expressed at different time points and clustered into 3 hierarchical groups based on their expression patterns. These results provide new insights into the genetic nature and gene expression features of megalocytiviruses.
关键词	Iridovirus Megalocytivirus Comparative Genome Oplegnathus Fasciatus
学科领域	Fisheries ; Veterinary Sciences
DOI	10.3354/dao02587
URL	查看原文
收录类别	SCI
语种	英语
WOS研究方向	Fisheries ; Veterinary Sciences
WOS类目	Fisheries ; Veterinary Sciences
WOS记录号	WOS:000320321000003
WOS关键词	SINGAPORE GROUPER IRIDOVIRUS ; RED-SEA BREAM ; RANAVIRUS FAMILY IRIDOVIRIDAE ; LYMPHOCYSTIS DISEASE VIRUS ; ORANGE-SPOTTED GROUPER ; COMPLETE DNA-SEQUENCE ; INFECTIOUS SPLEEN ; PROTEOMIC ANALYSIS ; IRIDESCENT VIRUS ; FISH
WOS标题词	Science & Technology ; Life Sciences & Biomedicine
引用统计	被引频次：31[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.qdio.ac.cn/handle/337002/16549
专题	实验海洋生物学重点实验室
通讯作者	Sun, L
作者单位	1.Chinese Acad Sci, Inst Oceanol, Qingdao 266071, Peoples R China 2.Chinese Acad Sci, Grad Univ, Beijing 100049, Peoples R China
第一作者单位	中国科学院海洋研究所
推荐引用方式 GB/T 7714	Zhang, Bao-Cun,Zhang, Min,Sun, Bo-Guang,et al. Complete genome sequence and transcription profiles of the rock bream iridovirus RBIV-C1[J]. DISEASES OF AQUATIC ORGANISMS,2013,104(3):203-+.
APA	Zhang, Bao-Cun.,Zhang, Min.,Sun, Bo-Guang.,Fang, Yong.,Xiao, Zhi-Zhong.,...&Sun, L.(2013).Complete genome sequence and transcription profiles of the rock bream iridovirus RBIV-C1.DISEASES OF AQUATIC ORGANISMS,104(3),203-+.
MLA	Zhang, Bao-Cun,et al."Complete genome sequence and transcription profiles of the rock bream iridovirus RBIV-C1".DISEASES OF AQUATIC ORGANISMS 104.3(2013):203-+.

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