Multiple alignment and hierachical clustering of conserved amino acid sequences in the replication-associated proteins of plant RNA viruses

Candresse, Thierry; Morch, Marie-Dominique; Dunez, Jean

doi:10.1016/0923-2516(90)90003-2

Cited by 60 publications

(31 citation statements)

References 21 publications

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“…The interchangeability of A1MV and ilarvirus coat proteins in initiating infection, plus the occurrence of coat protein recognition sequence (AUGC) found in A1MV and TSV and in all ilarviruses that we have examined (see Houser-Scott et al, 1994), would appear to be supporting evidence for, at the least, a common ancestor and most probably a closer relationship between A1MV and the ilarvirus group. The comparisons of the polymerase signatures of 11 of the 'alpha-like' viruses (group II, according to Candresse et al, 1990) confirm a closer relationship between A1MV and CiRLV (and hence the ilarviruses) than relationships to other viruses. Furthermore, only CiLRV and A1MV had 20 amino acids between the xxGxxxTxxxNx and xxxxGDDxxx motifs of the signature while all the other viruses had 18.…”

Section: Short Communicationmentioning

confidence: 69%

The nucleotide sequence of citrus leaf rugose ilarvirus RNA-2

Scott

1994

Journal of General Virology

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The nucleotide sequence of citrus leaf rugose ilarvirus (CiLRV) RNA-2 consists of 2990 nucleotides and contains one open reading frame (ORF) which encodes a deduced translation product of 832 amino acids with a calculated M~. of 95501 (95K). The 5' terminus of the RNA has a mTGppp cap. Both the nucleotide sequence of CiLRV RNA-2 and its translated polypeptide share homologies with the nucleotide sequence and translated polypeptide, respectively, of RNA-2 of alfalfa mosaic virus (AlMV). The homology occurs in the central region of both the nucleic acid sequence and the polypeptide. Homologies between either CiLRV or A1MV and other Bromoviridae (cucumber mosaic virus -CMV, brome mosaic virus -BMV and cowpea chlorotic mottle virus -CCMV) were far less. Alignment of the 104 amino acid region (polymerase signature) of the 95K protein against 10 other 'alpha-like' plant viral polymerase signatures showed that CiLRV and AlMV are more closely related to each other than to CMV, BMV or CCMV. This is the first report of the full-length sequence of RNA-2 of an ilarvirus.

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Section: Short Communicationmentioning

confidence: 69%

The nucleotide sequence of citrus leaf rugose ilarvirus RNA-2

Scott

1994

Journal of General Virology

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“…On this basis, Rochon & Tremaine (1989), Riviere & Rochon (1990) and Candresse et al (1990) have suggested supergrouping or hierarchical clustering of the carmoviruses, tombusviruses, dianthoviruses and BYDV. On the basis of the analysis performed here, both TNV-A and TNV-D ought to be included within this grouping as possible carmoviruses by virtue of their genomic organization.…”

Section: Amino Acid Sequence Comparisons (I) Tnv Rna-dependent Rna Pomentioning

confidence: 99%

“…TNV-D and TNV-A, which are similar to the tombus-, diantho-, sobemo-and carmoviruses, lack the characteristic nucleotide-binding site sequence motif (Gorbalenya et al, 1988(Gorbalenya et al, , 1989Hodgman, 1988;Candresse et CarMV (247) Fig. 4.…”

Section: Amino Acid Sequence Comparisons (I) Tnv Rna-dependent Rna Pomentioning

confidence: 99%

“…The amino acid sequences depicted show the readthrough domain of the putative polymerase ORFs immediately after the amber termination codon and extend to the termination codon of the ORFs. The conserved signature sequences for RNA replicases in this group of viruses (Candresse et al, 1990) are shown by asterisks.…”

Section: Amino Acid Sequence Comparisons (I) Tnv Rna-dependent Rna Pomentioning

confidence: 99%

“…This observation suggests that those viruses which share amino acid sequence homologies in their putative polymerases but differ from the alpha-and picoma-like supergroups in this respect may possess a unique replication strategy (Goldbach, 1987;Candresse et al, 1990). However, they may use a similar strategy but encode proteins which function in the same fashion but differ in sequence between the supergroups.…”

Section: Amino Acid Sequence Comparisons (I) Tnv Rna-dependent Rna Pomentioning

confidence: 99%

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The complete nucleotide sequence of tobacco necrosis virus strain D

Coutts

Rigden

Slabas

et al. 1991

Journal of General Virology

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The complete sequence of the RNA genome of tobacco necrosis virus strain D (TNV-D) consisting of 3759 nucleotides has been determined. The positive strand contains five open reading frames (ORFs). The 5'proximal ORF encodes a 22K protein terminating with an amber codon which may be read through to produce a 82K protein (p82). Two small centrally located ORFs each encode two out-of-frame 7K proteins (p7a and p7b). The 3'-proximal ORF encodes the 29K coat protein (CP), the N terminus of which has been sequenced directly. The genomic organization of TNVD is very similar to that of TNV-A but differs in the placement of the p7a ORF, which does not overlap the p82 ORF in TNV-D, and in the absence of an ORF downstream of the CP gene in TNV-D. The p82 ORF shows extensive sequence similarity with the putative polymerases of the carmovirus group. This ORF is also as closely related to the corresponding ORF of TNV-A as it is to the corresponding ORF of the tombusvirus cucumber necrosis virus. The amino acid sequence of the TNV-D CP gene is similar to both the TNV-A and southern bean mosaic virus CP genes. Of the two p7 ORFs, p7a exhibits amino acid sequence similarity with corresponding proteins from TNV-A, melon necrotic spot virus, carnation mottle virus, turnip crinkle virus and maize chlorotic mottle virus, whereas the p7b ORF appears to be unique to TNV-A and TNV-D. Only the 3'-terminal three nucleotides of TNV-D genomic RNA are identical to the 3'-terminal nucleotides of the TNV satellite virus

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The Insect Viruses

1998

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viii PREFACE an environmental perspective. Viral diseases in beneficial insects can lead to ecological problems, while diseases of insect pests are often welcomed as a means of reducing economic and medical problems. Furthermore, like the baculoviruses, some of the viruses described in this volume are likely to become valuable tools in the escalating human efforts to control and manipulate the ecosystem.The large DNA viruses are described first, beginning with the entomopoxviruses and iridoviruses, followed by those that rely more heavily on insect vectors for their propagation, and then the small DNA densoviruses. These are followed by the RNA viruses, beginning with an account of the three-dimensional structures of small RNA viruses, followed by chapters describing each of the major families of insect RNA viruses, and ending with a review of the development of arbovirus expression systems and how they may be employed in the future.

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Multiple alignment and hierachical clustering of conserved amino acid sequences in the replication-associated proteins of plant RNA viruses

Cited by 60 publications

References 21 publications

The nucleotide sequence of citrus leaf rugose ilarvirus RNA-2

The nucleotide sequence of citrus leaf rugose ilarvirus RNA-2

The complete nucleotide sequence of tobacco necrosis virus strain D

The Insect Viruses

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