A Genetic Study of Spillovers in the Bean Common Mosaic Subgroup of Potyviruses
The result's identifiers
Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00027006%3A_____%2F24%3A10177332" target="_blank" >RIV/00027006:_____/24:10177332 - isvavai.cz</a>
Alternative codes found
RIV/60460709:41210/24:98548
Result on the web
<a href="https://www.mdpi.com/1999-4915/16/9/1351/pdf?version=1724833753" target="_blank" >https://www.mdpi.com/1999-4915/16/9/1351/pdf?version=1724833753</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.3390/v16091351" target="_blank" >10.3390/v16091351</a>
Alternative languages
Result language
angličtina
Original language name
A Genetic Study of Spillovers in the Bean Common Mosaic Subgroup of Potyviruses
Original language description
Nine viruses of the bean common mosaic virus subgroup of potyviruses are major international crop pathogens, but their phylogenetically closest relatives from non-crop plants have mostly been found only in SE Asia and Oceania, which is thus likely to be their "centre of emergence". We have compared over 700 of the complete genomic ORFs of the crop pandemic and the non-crop viruses in various ways. Only one-third of crop virus genomes are non-recombinant, but more than half the non-crop virus genomes are. Four of the viruses were from crops domesticated in the Old World (Africa to SE Asia), and the other five were from New World crops. There was a temporal signal in only three of the crop virus datasets, but it confirmed that the most recent common ancestors of all the crop viruses were before inter-continental marine trade started after 1492 CE, whereas all the crown clusters of the phylogenies are from after that date. The non-crop virus datasets are genetically more diverse than those of the crop viruses, and Tajima's D analyses showed that their populations were contracting, and only one of the crop viruses had a significantly expanding population. dN/dS analyses showed that most of the genes and codons in all the viruses were under significant negative selection, and the few that were under significant positive selection were mostly in the PIPO-encoding region of the P3 protein, or the PIPO protein itself. Interestingly, more positively selected codons were found in non-crop than in crop viruses, and, as the hosts of the former were taxonomically more diverse than the latter, this may indicate that the positively selected codons are involved in host range determination; AlphaFold3 modelling was used to investigate this possibility.
Czech name
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Czech description
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Classification
Type
J<sub>imp</sub> - Article in a specialist periodical, which is included in the Web of Science database
CEP classification
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OECD FORD branch
40106 - Agronomy, plant breeding and plant protection; (Agricultural biotechnology to be 4.4)
Result continuities
Project
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Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace
Others
Publication year
2024
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů
Data specific for result type
Name of the periodical
VIRUSES-BASEL
ISSN
1999-4915
e-ISSN
1999-4915
Volume of the periodical
16
Issue of the periodical within the volume
9
Country of publishing house
CH - SWITZERLAND
Number of pages
18
Pages from-to
1351
UT code for WoS article
001323906000001
EID of the result in the Scopus database
2-s2.0-85205062571