Whole genome characterization, recombination, variation, satellites and phylogeny analyses of Tomato leaf curl Palampur virus infecting courgetti squash (Cucurbita pepo L.) in Iraq
DOI:
https://doi.org/10.59658/jkas.v10i3.1249Keywords:
Tomato leaf curl Palampur virus, Cucurbita pepo, Molecular characterizationsAbstract
Durning season of 2021-2022, symptoms of leaf curl, yellowing, crumpling and stunting were observed commonly on courgetti crop in Al-Yusufiyah region, Baghdad Province, Iraq. Diseased courgetti leaves were collected randomly and sent for sequencing with Illumina MiSeq. Pairwise nucleotide analysis of the assembled contigs revealed the maximum identity of 98-99% and 95-99% with Tomato leaf curl Palampur virus (ToLCPalV) for DNA-A and DNA-B components, respectively. The DNA-A component (OQ693629.1) contains six main genes encoding six proteins, while DNA-B component (OQ693630.1) comprises only two genes encoding two proteins, with the presence of non-coding regions between genes in both the two segments. Furthermore, the recombination breakpoint analysis shows that ToLCPalV Baghdad-1/Iraq segment DNA-A (OQ693629.1) and ToLCPalV isolate Mosul segment A (OR052249.1) are the parent of the recombinant isolates: ToLCPalV isolate Kufa segment DNA-A (OP810506.1) and ToLCPalV segment A (ON254271.1) from Karbala. However, the ToLCPalV Baghdad-1/Iraq segment DNA-B (OQ693630.1) with ToLCPalV segment DNA-B (OP620406.1) from Kufa are the parent of ToLCPalV isolate Babylon1 segment DNA-B (ON229620.1). As well as, there was no evidence discovered for the association of alpha- and/or beta-satellites with ToLCPalV infecting courgetti crop. Single nucleotide polymorphisms (SNP) analysis indicates a common genetic variation within the current isolate under study and the other Iraqi isolates. Phylogenetic analysis confirms the genetic relationship between the genomics components of Iraqi ToLCPalV and various international isolates of the same virus, especially those distributed in Saudi Arabia and Iran that could be a possible the origin and introduction of ToLCPalV into Iraq.
Downloads
Published
How to Cite
Issue
Section
License
Copyright (c) 2023 Journal of Kerbala for Agricultural Sciences
This work is licensed under a Creative Commons Attribution 4.0 International License.
Licensing Terms
All articles are published under a Creative Commons License and will be directed to the Creative Commons Attribution 4.0 International License That permits use, distribution, and reproduction in any medium, provided the original work is properly cited and is not used for commercial purposes.
Use by non-commercial users
For non-commercial and non-promotional purposes individual users may access, download, copy, display, and redistribute the articles to colleagues, as well as adapt, translate, text- and data-mine the content subject to the following conditions:
- The author's moral rights are not compromised. These rights include the right of "paternity" (also known as "attribution" - the right for the author to be identified as such) and "integrity" (the right for the author not to have the work altered in such a way that the author's reputation, or integrity may be impugned).
- Where content in the article is identified as belonging to a third party, it is the obligation of the user to ensure that any reuse complies with the copyright policies of the owner of that content.
- If article content is copied, downloaded, or otherwise reused for non-commercial research and education purposes, a link to the appropriate bibliographic citation (authors, journal, article title, volume, issue, page numbers, DOI, and the link to the definitive published version on JKAS website) should be maintained.
- Copyright notices and disclaimers must not be deleted.
- Any translations, for which a prior translation agreement with JKAS has not been agreed, must prominently display the statement: "This is an unofficial translation of an article that appeared in an FSP publication. The publisher has not endorsed this translation."
Use by commercial "for-profit" organizations
Use of JKAS Open Access articles for commercial, promotional, or marketing purposes requires further explicit permission from JKAS (journal.agri@uokerbala.edu.iq) and will be subject to a fee.
The commercial purposes include:
Copying or downloading of articles, or linking to such articles for further redistribution, sale, or licensing; Copying, downloading, or posting by a site or service that incorporates advertising with such content; The inclusion, or incorporation of article content in other works, or services (other than normal quotations with an appropriate citation) that is then available for sale or licensing, for a fee (for example, a compilation produced for marketing purposes, inclusion in a sales pack); Use of article content (other than normal quotations with appropriate citation) by for-profit organizations for promotional purposes; Linking to article content in e-mails redistributed for promotional, marketing or educational purposes; Use for the purposes of monetary reward by means of sale, resale, license, loan, transfer or other form of commercial exploitation such as marketing products; Print reprints of articles can be purchased from journal.agri@uokerbala.edu.iq.
Permissions
- No special permission is required to reuse all, or part of the article published by JKAS, including figures and tables for non-commercial purposes.
- Any part of the article may be reused, for non-commercial purposes, without permission provided that the original article is cited.
- Reuse of an article does not imply endorsement by the authors, JKAS
