Abstract
Gene- and genome-based approaches were used to determine whether Vigna little leaf (ViLL) phytoplasma, which occurs in northern Australia, is a distinct ‘ Candidatus Phytoplasma’ species. The ViLL 16S rRNA gene sequences exhibited the highest known similarity to species in the 16SrXXIX-A and 16SrIX-D subgroups, namely ‘ Candidatus Phytoplasma omanense’ (98.03–98.10%) and ‘ Candidatus Phytoplasma phoenicium’ (96.87–97.20%), respectively. A total of 48 single-copy orthologue genes were identified to be shared among the two draft ViLL phytoplasma genomes, 30 publicly available phytoplasma genomes, and one Acholeplasma laidlawii genome as the outgroup taxon. Phylogenomic assessments using the 48 shared single-copy orthologue genes supported that ViLL and ‘ Ca . Phytoplasma phoenicium’ were closely related yet distinct species. The 16S rRNA gene sequence analysis and phylogenomic assessment indicate that ViLL phytoplasmas are a distinct taxon. As such, a novel species, ‘ Candidatus Phytoplasma vignae’, is proposed. Strain BAWM-336 (genome accession number JAUZLI000000000) detected in Momordica charantia (bitter melon) serves as the reference strain of this species, with infected plant material deposited in the Victorian Plant Pathology Herbarium (VPRI) as VPRI 44369.
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Claims 6
Claim · model-written summary
ViLL 16S rRNA sequences were most similar to Candidatus Phytoplasma omanense at 98.03–98.10%.
Verbatim
e0“The ViLL 16S rRNA gene sequences exhibited the highest known similarity to species in the 16SrXXIX-A and 16SrIX-D subgroups, namely ‘ Candidatus Phytoplasma omanense’ (98.03–98.10%) and ‘ Candidatus Phytoplasma phoenicium’ (96.87–97.20%), respectively.”
e1“Vigna little leaf (ViLL) phytoplasma”
Claim · model-written summary
ViLL 16S rRNA sequences had 96.87–97.20% similarity to Candidatus Phytoplasma phoenicium.
- Taxon
- ViLLe1
- Gene
- 16S rRNAe0
- Outcome
- similaritye0
- Value
- 96.87–97.20%e0
- Comparator
- Candidatus Phytoplasma phoeniciume0
Not reportedDirection
Verbatim
e0“The ViLL 16S rRNA gene sequences exhibited the highest known similarity to species in the 16SrXXIX-A and 16SrIX-D subgroups, namely ‘ Candidatus Phytoplasma omanense’ (98.03–98.10%) and ‘ Candidatus Phytoplasma phoenicium’ (96.87–97.20%), respectively.”
e1“Vigna little leaf (ViLL) phytoplasma”
Claim · model-written summary
Forty-eight single-copy orthologue genes were shared across the two ViLL genomes, 30 public phytoplasma genomes and an Acholeplasma outgroup genome.
- Taxon
- ViLL phytoplasmae0
- Outcome
- single-copy orthologue genese0
- Value
- 48e0
- Qualifier
- 30 publicly available phytoplasma genomes, and one Acholeplasma laidlawii genome as the outgroup taxone0
Not reportedDirection
Verbatim
e0“A total of 48 single-copy orthologue genes were identified to be shared among the two draft ViLL phytoplasma genomes, 30 publicly available phytoplasma genomes, and one Acholeplasma laidlawii genome as the outgroup taxon.”
Claim · model-written summary
Phylogenomics supported ViLL and Ca. Phytoplasma phoenicium as closely related but distinct species.
Not reportedDirection
Verbatim
e0“Phylogenomic assessments using the 48 shared single-copy orthologue genes supported that ViLL and ‘ Ca . Phytoplasma phoenicium’ were closely related yet distinct species.”
Claim · model-written summary
Candidatus Phytoplasma vignae was proposed as a new species.
- Taxon
- Candidatus Phytoplasma vignaeCandidatus Phytoplasma vignaee0
- Outcome
- a novel speciese0
Not reportedDirection
Verbatim
e0“As such, a novel species, ‘ Candidatus Phytoplasma vignae’, is proposed.”
Claim · model-written summary
BAWM-336 detected in bitter melon is the reference strain, with infected material deposited as VPRI 44369.
- Taxon
- Candidatus Phytoplasma vignaeCandidatus Phytoplasma vignaee1
- Material
- BAWM-336e0
- Interactor
- Momordica charantia
Momordica charantiae0host - Outcome
- reference straine0
- Qualifier
- VPRI 44369e0
Not reportedValue
Organisms pictured · Representative pictures of the matched species, not figures from the paper.
Verbatim
e0“Strain BAWM-336 (genome accession number JAUZLI000000000) detected in Momordica charantia (bitter melon) serves as the reference strain of this species, with infected plant material deposited in the Victorian Plant Pathology Herbarium (VPRI) as VPRI 44369.”
e1“a novel species, ‘ Candidatus Phytoplasma vignae’, is proposed.”