Discovery of Viruses from Small Brown Planthopper by Small RNA Deep Sequencing

doi:10.13560/j.cnki.biotech.bull.1985.2021-0461

Abstract

Abstract:

Small brown planthopper（SBPH）（Laodelphax striatellus Fallén）is an important agricultural pest. As a virus vector,it can transmit some plant viruses,which cause viral diseases of grain crops,including rice,wheat and maize. At present,there is no comprehensive understanding of insect virus species in SBPH,thus it is difficult to conduct relevant research on SBPH management by exploiting insect viruses. In this paper,in order to excavate insect virus resources,the virus species in SBPH were identified by small RNA deep sequencing technology. The results showed that 13 viruses were found via sequencing data alignment,involving in 8 families and 2 unclassified viruses. Besides the dominant rice stripe virus,the rest were specialized parasitic insect viruses,including 5 positive-stranded RNA viruses,2 single-stranded DNA viruses and 5 double-stranded DNA viruses. Among them,a new virus similar to Drosophlia A virus was identified,and the 1-1 932 nt nucleotides of viral RNA-dependent RNA polymerase（RdRp）gene was obtained. After Blast and phylogenetic analysis,the unusual “C-A-B” permutation was found in the palm subdomain conserved region of RdRp,which was a unique arrangement pattern of Permutotetraviridae viruses,thus it was considered that the virus was a novel permutotetra-like virus,temporarily named Laodelphax striatellus permutotetra-like virus（LsPLV）. A permutotetra-like virus was first identified in Hemiptera insect. The study suggests that insect virus species are abundant in SBPH,which lays the foundation for biological control of SBPH by exploiting insect viruses in the future.

Key words: small brown planthopper, insect virus, small RNA deep sequencing, Laodelphax striatellus permutotetra-like virus

PIAO Jun, ZHANG Lu-Jie, PIAO Jing-Ai, ZHOU Yi-Jun, LI Shuo. Discovery of Viruses from Small Brown Planthopper by Small RNA Deep Sequencing[J]. Biotechnology Bulletin, 2022, 38(2): 281-288.

Figures/Tables 4

References 32

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同源病毒名称 Name of virus		病毒核酸类型 Nucleic acid	Contigs数 Nos. of contigs	Blast算法 Blast algorithm	E值 E-value	参考序列 Reference	属 Genus	科 Family
Rice stripe virus	RNA1	分节段负链RNA segmented -sRNA	92	Blastn	1.3E-16-2.0E-54	NC_003755.1	Tenuivirus	白纤病毒科 Phenuiviridae
	RNA2		32	Blastn	1.2E-17-1.1E-56	NC_003754.1
	RNA3		69	Blastn	9.7E-18-1.2E-34	NC_003776.1
	RNA4		38	Blastn	3.4E-17-9.0E-58	NC_003753.1
Laodelphax striatellus honeydew virus 1		正链RNA +ssRNA	20	Blastn	1.2E-12-8.6E-43	KF934491.1	unclassified	传染性软腐病病毒科 Iflaviridae
Laodelphax striatellus iflavirus 1			7	Blastn	9.1E-13-6.0E-70	MG815140.1	unclassified	传染性软腐病病毒科 Iflaviridae
Himetobi P virus			14	Blastn	1.1E-06-7.3E-74	NC_003782.1	Triatovirus	双顺反子病毒科 Dicistroviridae
Nilaparvata lugens commensal X virus			1	BlastX	1.7E-10	AB183424.1	未分类的正链RNA病毒 Unclassified positive-strand ssRNA viruses
Drosophila A virus			4	BlastX	2.8E-06-1.5E-13	YP_003038595.1	未分类的正链RNA病毒 Unclassified positive-strand ssRNA viruses
Periplaneta fuliginosa densovirus		单链DNA ssDNA	3	BlastX	4.5E-05-2.4E-12	NP_051016.1	Pefudensovirus	浓核症病毒亚科 Densovirinae
Dendrolimus punctatus densovirus		单链DNA ssDNA	1	BlastX	7.0E-08	YP_164339.1	Iteradensovirus	浓核症病毒亚科 Densovirinae
Amsacta moorei entomopo-xvirus		双链DNA dsDNA	4	BlastX	1.9E-05-1.2E-12	NP_064883.1	Betaentomopoxvirus	昆虫痘病毒亚科 Entomopoxvirinae
Invertebrate iridescent virus 6			3	Blastn	2.3E-09-2.3E-21	NC_003038.1	Iridovirus	虹彩病毒科 Iridoviridae
Cotesia congregata bracovirus			3	BlastX	8.9E-09-2.8E-15	NC_006645.1	Bracovirus	多分体DNA病毒科 Polydnaviridae
Choristoneura occidentalis granulovirus			4	Blastn	2.4E-10-4.3E-16	NC_008168.1	Betabaculovirus	杆状病毒科 Baculoviridae
Neodiprion abietis nucleopolyhedrovirus			1	BlastX	6.0E-05	YP_667900.1	Gammabaculovirus	杆状病毒科 Baculoviridae

同源病毒名称 Name of virus		病毒核酸类型 Nucleic acid	Contigs数 Nos. of contigs	Blast算法 Blast algorithm	E值 E-value	参考序列 Reference	属 Genus	科 Family
Rice stripe virus	RNA1	分节段负链RNA segmented -sRNA	92	Blastn	1.3E-16-2.0E-54	NC_003755.1	Tenuivirus	白纤病毒科 Phenuiviridae
	RNA2		32	Blastn	1.2E-17-1.1E-56	NC_003754.1
	RNA3		69	Blastn	9.7E-18-1.2E-34	NC_003776.1
	RNA4		38	Blastn	3.4E-17-9.0E-58	NC_003753.1
Laodelphax striatellus honeydew virus 1		正链RNA +ssRNA	20	Blastn	1.2E-12-8.6E-43	KF934491.1	unclassified	传染性软腐病病毒科 Iflaviridae
Laodelphax striatellus iflavirus 1			7	Blastn	9.1E-13-6.0E-70	MG815140.1	unclassified	传染性软腐病病毒科 Iflaviridae
Himetobi P virus			14	Blastn	1.1E-06-7.3E-74	NC_003782.1	Triatovirus	双顺反子病毒科 Dicistroviridae
Nilaparvata lugens commensal X virus			1	BlastX	1.7E-10	AB183424.1	未分类的正链RNA病毒 Unclassified positive-strand ssRNA viruses
Drosophila A virus			4	BlastX	2.8E-06-1.5E-13	YP_003038595.1	未分类的正链RNA病毒 Unclassified positive-strand ssRNA viruses
Periplaneta fuliginosa densovirus		单链DNA ssDNA	3	BlastX	4.5E-05-2.4E-12	NP_051016.1	Pefudensovirus	浓核症病毒亚科 Densovirinae
Dendrolimus punctatus densovirus		单链DNA ssDNA	1	BlastX	7.0E-08	YP_164339.1	Iteradensovirus	浓核症病毒亚科 Densovirinae
Amsacta moorei entomopo-xvirus		双链DNA dsDNA	4	BlastX	1.9E-05-1.2E-12	NP_064883.1	Betaentomopoxvirus	昆虫痘病毒亚科 Entomopoxvirinae
Invertebrate iridescent virus 6			3	Blastn	2.3E-09-2.3E-21	NC_003038.1	Iridovirus	虹彩病毒科 Iridoviridae
Cotesia congregata bracovirus			3	BlastX	8.9E-09-2.8E-15	NC_006645.1	Bracovirus	多分体DNA病毒科 Polydnaviridae
Choristoneura occidentalis granulovirus			4	Blastn	2.4E-10-4.3E-16	NC_008168.1	Betabaculovirus	杆状病毒科 Baculoviridae
Neodiprion abietis nucleopolyhedrovirus			1	BlastX	6.0E-05	YP_667900.1	Gammabaculovirus	杆状病毒科 Baculoviridae