Nucleotide sequence and genomic organization of apple chlorotic leaf spot closterovirus

German, S.; Candresse, Thierry; Lanneau, M.; Huet, Jean‐Claude; Pernollet, J.C.; Dunez, Jean

doi:10.1016/0042-6822(90)90279-z

Cited by 98 publications

(67 citation statements)

References 20 publications

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“…A novel feature within this cluster is the unexpected association of the closterovirus polymerase with those of tricornaviruses (Agranovsky et al, 1991 b). The potex-/tymo-/carlavirus/ACLSV cluster has also been recently delineated (German et al, 1990;Rozanov et al, 1990;Candresse et al, 1990;Goldbach et al, 1991). On the other hand, the grouping of HEV polymerase with that of BNYVV furovirus, which was definitely confirmed by all methods of tree construction, was quite unexpected.…”

Section: The Main Divisions Of Viral Potymerases : the Topology Of Thmentioning

confidence: 99%

The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses

Koonin

1991

Journal of General Virology

827

621

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Representative amino acid sequences of the RNAdependent RNA polymerases of all groups of positivestrand RNA viruses were aligned hierarchically, starting with the most closely related ones. This resulted in delineation of three large supergroups. Within each of the supergroups, the sequences of segments of approximately 300 amino acid residues originating from the central and/or C-terminal portions of the polymerases Could be aligned with statistically significant scores. Specific consensus patterns of conserved amino acid residues were derived for each of the supergroups. The composition of the polymerase supergroups was as follows. I. Picorna-, noda-, como-, nepo-, poty-, bymo-, sobemoviruses, and a subset of luteoviruses (beet western yellows virus and potato leafroll virus). II. Carmo-, tombus-, dianthoviruses, another subset of luteoviruses (barley yellow dwarf virus), pestiviruses, hepatitis C virus (HCV), flaviviruses and, unexpectedly, single-stranded RNA bacteriophages. III. Tobamo-, tobra-, hordei-, tricornaviruses, beet yellows virus, alpha-, rubi-, furoviruses, hepatitis E virus (HEV), potex-, carla-, tymoviruses, and apple chlorotic leaf spot virus. An unusual organization was shown for corona-and torovirus polymerases whose N-terminal regions were found to be related to the respective domains of supergroup I, and the C-terminal regions to those of the supergroup III polymerases. The alignments of the three polymerase supergroups were superimposed to produce a comprehensive final alignment encompassing eight distinct conserved motifs. Phylogenetic analysis using three independent methods of tree construction confirmed the separation of the positive-strand RNA viral polymerases into three supergroups and revealed some unexpected clusters within the supergroups. These included the grouping of HCV and the pestiviruses with carmoviruses and related plant viruses in supergroup II, and the grouping of HEV and rubiviruses with furoviruses in supergroup II1.

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Section: The Main Divisions Of Viral Potymerases : the Topology Of Thmentioning

confidence: 99%

The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses

Koonin

1991

Journal of General Virology

827

621

View full text Add to dashboard Cite

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“…Comparisons of amino acid sequences around these conserved motifs with other viruses revealed an extremely high homology with ASGV and extensive homologies with potato virus T (Ochi et al, 1992) and ACLSV (German et al, 1990). Thus CTLV is a true capillovirus, a member of the Sindbis-like supergroup.…”

mentioning

confidence: 96%

“…Surprisingly, the genome structure of PVT was found to be homologous to that of apple chlorotic leaf spot virus (ACLSV; German et al, 1990), a member of the * Author for correspondence. Fax + 81 424 64 4391. e-mail snamba @ ims.u-tokyo.ac.jp t Present address: Plant Biotechnology Laboratory, Institute of Fundamental Research, Suntory Research Center, 1-1-1 Wakayamadai Shimamoto-cho, Mishima-gun, Osaka 618, Japan.…”

mentioning

confidence: 99%

Complete sequence of an infectious full-length cDNA clone of citrus tatter leaf capillovirus: comparative sequence analysis of capillovirus genomes

Ohira

Namba

Rozanov

et al. 1995

Journal of General Virology

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“…ACLSV is a member of the Tricho6irus genus from the Clostero6irus group (Martelli et al, 1994). Complete nucleotide sequences of the ACLSV genome were determined from isolates of plum, apple and cherry trees (German et al, 1990;Sato et al, 1993;German-Retana et al, 1997;Jelkmann, 1996). ACLSV genome consists of a single strand poly-adenylated RNA molecule of 7545 -7555 nucleotides excluding the poly-A tail, with three open reading frames (ORFs 1, 2 and 3) encoding proteins with molecular masses of 216.5, 50.4 and 21.4 kDa, respectively.…”

mentioning

confidence: 99%

“…Specific primers for ACLSV were chosen by alignment of the published sequences corresponding to isolates P863 from Prunus domestica (German et al, 1990), PBM1 from cv. Hauszwetsche (Jelkmann, 1996), Balaton-1 from cherry (German-Retana et al, 1997) and P205 from apple tree (Sato et al, 1993).…”

mentioning

confidence: 99%

Detection of apple chlorotic leaf spot virus using a 5′ nuclease assay with a fluorescent 3′ minor groove binder-DNA probe

Salmon

Vendrame

Kummert

et al. 2002

Journal of Virological Methods

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The development of a real-time 5% nuclease RT-PCR assay for the detection of apple chlorotic leaf spot virus (ACLSV) from infected plant material is described. A short fluorogenic 3% minor groove binder-DNA hydrolysis probe was used to circumvent genome variability between isolates and target a short conserved sequence. The covalent attachment of the minor groove binder moiety at the 3% end of the probe increased the probe/target duplex stability and raised the melting temperature to a range suitable for real-time analysis. The method is rapid, sensitive and takes place within a single tube without post-PCR handling of the amplification products.

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Nucleotide sequence and genomic organization of apple chlorotic leaf spot closterovirus

Cited by 98 publications

References 20 publications

The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses

The phylogeny of RNA-dependent RNA polymerases of positive-strand RNA viruses

Complete sequence of an infectious full-length cDNA clone of citrus tatter leaf capillovirus: comparative sequence analysis of capillovirus genomes

Detection of apple chlorotic leaf spot virus using a 5′ nuclease assay with a fluorescent 3′ minor groove binder-DNA probe

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