Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species
Despite its first description in 1977 and numerous reports of its presence in various plant species in many countries, the molecular information available in GenBank for artichoke Italian latent virus (AILV) is still limited to a single complete genome sequence (RNA1 and 2) of a grapevine isolate (A...
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| Format: | Article |
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MDPI AG
2023-10-01
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| Online Access: | https://www.mdpi.com/1999-4915/15/11/2170 |
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| author | Toufic Elbeaino Amani Ben Slimen Imen Belgacem Monia Mnari-Hattab Roberta Spanò Michele Digiaro Ahmed Abdelkhalek |
| author_facet | Toufic Elbeaino Amani Ben Slimen Imen Belgacem Monia Mnari-Hattab Roberta Spanò Michele Digiaro Ahmed Abdelkhalek |
| author_sort | Toufic Elbeaino |
| collection | DOAJ |
| description | Despite its first description in 1977 and numerous reports of its presence in various plant species in many countries, the molecular information available in GenBank for artichoke Italian latent virus (AILV) is still limited to a single complete genome sequence (RNA1 and 2) of a grapevine isolate (AILV-V) and a partial portion of the RNA2 sequence from an isolate of unknown origin and host. Here, we report the results of molecular analyses conducted on the RNA2 of some AILV isolates, sequenced for the first time in this study, together with the first-time identification of AILV in a new host plant species, namely chard (<i>Beta vulgaris</i> subsp. vulgaris), associated with vein clearing and mottling symptoms on leaves. The different AILV isolates sequenced were from artichoke (AILV-C), gladiolus (AILV-G), Sonchus (AILV-S), and chard (AILV-B). At the molecular level, the sequencing results of the RNA2 segments showed that AILV-C, AILV-G, AILV-S, and AILV-B had a length of 4629 nt (excluding the 3′ terminal polyA tail), which is one nt shorter than that of the AILV-V reported in GenBank. A comparison of the RNA2 coding region sequences of all the isolates showed that AILV-V was the most divergent isolate, with the lowest sequence identities of 83.2% at the nucleotide level and 84.7% at the amino acid level. Putative intra-species sequence recombination sites were predicted among the AILV isolates, mainly involving the genomes of AILV-V, AILV-C, and AILV-B. This study adds insights into the variability of AILV and the occurrence of recombination that may condition plant infection. |
| first_indexed | 2024-03-09T16:23:29Z |
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| id | doaj.art-3f68dd3a421647898190f04d99b3e160 |
| institution | Directory Open Access Journal |
| issn | 1999-4915 |
| language | English |
| last_indexed | 2024-03-09T16:23:29Z |
| publishDate | 2023-10-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Viruses |
| spelling | doaj.art-3f68dd3a421647898190f04d99b3e1602023-11-24T15:10:38ZengMDPI AGViruses1999-49152023-10-011511217010.3390/v15112170Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant SpeciesToufic Elbeaino0Amani Ben Slimen1Imen Belgacem2Monia Mnari-Hattab3Roberta Spanò4Michele Digiaro5Ahmed Abdelkhalek6Istituto Agronomico Mediterraneo of Bari, Via Ceglie 9, 70010 Valenzano, ItalyIstituto Agronomico Mediterraneo of Bari, Via Ceglie 9, 70010 Valenzano, ItalyIstituto Agronomico Mediterraneo of Bari, Via Ceglie 9, 70010 Valenzano, ItalyLaboratoire de Biotechnologie Appliquée à l’Agriculture, INRA Tunisie, Université de Carthage, Rue Hedi Karray, Tunis 1004, TunisiaDipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari, Via G. Amendola, 165/A, 70126 Bari, ItalyIstituto Agronomico Mediterraneo of Bari, Via Ceglie 9, 70010 Valenzano, ItalyPlant Protection and Biomolecular Diagnosis Department, ALCRI, City of Scientific Research and Technological Applications, New Borg El Arab City 21934, EgyptDespite its first description in 1977 and numerous reports of its presence in various plant species in many countries, the molecular information available in GenBank for artichoke Italian latent virus (AILV) is still limited to a single complete genome sequence (RNA1 and 2) of a grapevine isolate (AILV-V) and a partial portion of the RNA2 sequence from an isolate of unknown origin and host. Here, we report the results of molecular analyses conducted on the RNA2 of some AILV isolates, sequenced for the first time in this study, together with the first-time identification of AILV in a new host plant species, namely chard (<i>Beta vulgaris</i> subsp. vulgaris), associated with vein clearing and mottling symptoms on leaves. The different AILV isolates sequenced were from artichoke (AILV-C), gladiolus (AILV-G), Sonchus (AILV-S), and chard (AILV-B). At the molecular level, the sequencing results of the RNA2 segments showed that AILV-C, AILV-G, AILV-S, and AILV-B had a length of 4629 nt (excluding the 3′ terminal polyA tail), which is one nt shorter than that of the AILV-V reported in GenBank. A comparison of the RNA2 coding region sequences of all the isolates showed that AILV-V was the most divergent isolate, with the lowest sequence identities of 83.2% at the nucleotide level and 84.7% at the amino acid level. Putative intra-species sequence recombination sites were predicted among the AILV isolates, mainly involving the genomes of AILV-V, AILV-C, and AILV-B. This study adds insights into the variability of AILV and the occurrence of recombination that may condition plant infection.https://www.mdpi.com/1999-4915/15/11/2170nepovirusRNA2 sequencesphylogenetic and recombination analyses |
| spellingShingle | Toufic Elbeaino Amani Ben Slimen Imen Belgacem Monia Mnari-Hattab Roberta Spanò Michele Digiaro Ahmed Abdelkhalek Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species Viruses nepovirus RNA2 sequences phylogenetic and recombination analyses |
| title | Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species |
| title_full | Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species |
| title_fullStr | Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species |
| title_full_unstemmed | Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species |
| title_short | Identification, Sequencing, and Molecular Analysis of RNA2 of Artichoke Italian Latent Virus Isolates from Known Hosts and a New Host Plant Species |
| title_sort | identification sequencing and molecular analysis of rna2 of artichoke italian latent virus isolates from known hosts and a new host plant species |
| topic | nepovirus RNA2 sequences phylogenetic and recombination analyses |
| url | https://www.mdpi.com/1999-4915/15/11/2170 |
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