Detection and identification of 16SrXIII-F and a novel 16SrXIII phytoplasma subgroups associated with strawberry phyllody in Chile

Cui, Weier; Quiroga, Nicolás; Ćurković, Snježana; Zamorano, Alan; Fiore, Nicola

doi:10.1007/s10658-019-01808-w

Cited by 13 publications

(8 citation statements)

References 29 publications

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“…The first complete genome of phytoplasma (onion yellows phytoplasma mild strain (OY-M) was published in 2004 [ 6 ] (data deposited into GenBank in 2003). So far, 47 phytoplasma genomes (35 draft and 12 complete) have been sequenced involving 13 groups and 29 subgroups ( Figure 2 and Table 1 , [ 6 , 7 , 14 , 50 , 51 , 52 , 53 , 54 , 55 , 56 , 57 , 58 , 59 , 60 , 61 , 62 , 63 , 64 , 65 , 66 , 67 , 68 , 69 , 70 , 71 , 72 , 73 , 74 , 75 , 76 , 77 , 78 , 79 , 80 , 81 ]). The size of the complete ge-nomes ranges from 576 to 960 Kb.…”

Section: Phytoplasma Nomenclature: Delineation Of Candidatu...mentioning

confidence: 99%

Phytoplasma Taxonomy: Nomenclature, Classification, and Identification

Wei

Zhao

2022

Biology

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Phytoplasmas are pleomorphic, wall-less intracellular bacteria that can cause devastating diseases in a wide variety of plant species. Rapid diagnosis and precise identification of phytoplasmas responsible for emerging plant diseases are crucial to preventing further spread of the diseases and reducing economic losses. Phytoplasma taxonomy (identification, nomenclature, and classification) has lagged in comparison to culturable bacteria, largely due to lack of axenic phytoplasma culture and consequent inaccessibility of phenotypic characteristics. However, the rapid expansion of molecular techniques and the advent of high throughput genome sequencing have tremendously enhanced the nucleotide sequence-based phytoplasma taxonomy. In this article, the key events and milestones that shaped the current phytoplasma taxonomy are highlighted. In addition, the distinctions and relatedness of two parallel systems of ‘Candidatus phytoplasma’ species/nomenclature system and group/subgroup classification system are clarified. Both systems are indispensable as they serve different purposes. Furthermore, some hot button issues in phytoplasma nomenclature are also discussed, especially those pertinent to the implementation of newly revised guidelines for ‘Candidatus Phytoplasma’ species description. To conclude, the challenges and future perspectives of phytoplasma taxonomy are briefly outlined.

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Section: Phytoplasma Nomenclature: Delineation Of Candidatu...mentioning

confidence: 99%

Phytoplasma Taxonomy: Nomenclature, Classification, and Identification

Wei

Zhao

2022

Biology

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“…On the other hand, the phytoplasma 16SrXIII-F was detected for the first time in Chile in strawberry orchards of the Region of Valparaíso, associated with symptoms of phyllody and virescence [36]. Subsequent studies showed that this phytoplasma was present in all the strawberry production regions in Chile, including the localities where positive citrus samples have been detected in this survey [21,37]. In addition, this phytoplasma has been reported in calafate (Berberis microphylla G.…”

Section: Discussionmentioning

confidence: 80%

“…The digestion with the BfaI enzyme generated differentiable profiles with the strains of the mentioned subgroups, identical only to those of the ribosomal subgroup 16SrV-A (Figure 2). The enzymes used for in silico RFLP of the phytoplasma strain CTC170 (deposited in GenBank under the accession number OL672243) were KpnI and RsaI [21]. Both digestion profiles show that the Chilean strains are identical to the strains in the subgroup 16SrXIII-F (Figure 3).…”

Section: Resultsmentioning

confidence: 99%

Survey for ‘Candidatus Liberibacter’ and ‘Candidatus Phytoplasma’ in Citrus in Chile

et al. 2021

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The considerable economic losses in citrus associated with ‘Candidatus Liberibacter’ and ‘Candidatus Phytoplasma’ presence have alerted all producing regions of the world. In Chile, none of these bacteria have been reported in citrus species. During the years 2017 and 2019, 258 samples presenting symptoms similar to those associated with the presence of these bacteria were examined. No detection of ‘Ca. Liberibacter’ associated with “huanglongbing” disease was obtained in the tested samples; therefore, this quarantine pest is maintained as absent in Chile. However, 14 plants resulted positive for phytoplasmas enclosed in subgroups 16SrV-A (12 plants) and 16SrXIII-F (2 plants). Although they have been found in other plant species, this is the first report of these phytoplasmas in citrus worldwide.

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“…An interesting aspect of this group of phytoplasmas is their geographical distribution, which seems to be restricted to the American continent (Fernández et al, 2016;. In addition, only few host species have been associated to MPV group, among them strawberry (Jomantiene et al, 1998;Fernández et al, 2015;Melo et al, 2018;Cui et al, 2019), potato (Santos-Cervantes et al, 2010), periwinkle (Lee et al, 1998), papaya (Melo et al, 2013), broccoli in addition to those already mentioned for 'Ca. P. meliae' above.…”

Section: Introductionmentioning

confidence: 99%

Genome characterization of ‘Candidatus Phytoplasma meliae’ (isolate ChTYXIII)

Fernández

2021

Preprint

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Candidatus Phytoplasma meliae (subgroups 16SrXIII-G and XIII-C) has been reported in association to chinaberry yellowing disease in Argentina, Bolivia and Paraguay. In Argentina, this disease constitutes a major phytosanitary problem for chinaberry forestry production. To date, no genome information of this phytoplasma and others from 16SrXIII-group has been published, hindered its characterization at genomic level. Here we analyze the draft genome of Candidatus Phytoplasma meliae strain ChTYXIII obtained from a chinaberry-infected plant using a metagenomics approach. The draft assembly consists of twenty-one contigs with a total length of 751.949 bp. The annotation contains 669 CDSs, 34tRNA and one set of rRNA operons. Metabolic pathways analysis indicated that the ChTYXIII contains the complete core genes for glycolysis and functional sec system for translocation of proteins. The phylogenetic relationships inferred 132 single copy genes (orthologues core) analysis revealed that Ca. P. meliae constitutes a clade closely related to the Ca. australiense and Ca. P. solani. Thirty-one putative effectors were identified, among which a homologue to SAP11 was found and others that have only been described in this pathogen. This work provides relevant genomic information for Ca. P. meliae and constitutes the first genome described for the group 16SrXIII (MPV).

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Detection and identification of 16SrXIII-F and a novel 16SrXIII phytoplasma subgroups associated with strawberry phyllody in Chile

Cited by 13 publications

References 29 publications

Phytoplasma Taxonomy: Nomenclature, Classification, and Identification

Phytoplasma Taxonomy: Nomenclature, Classification, and Identification

Survey for ‘Candidatus Liberibacter’ and ‘Candidatus Phytoplasma’ in Citrus in Chile

Genome characterization of ‘Candidatus Phytoplasma meliae’ (isolate ChTYXIII)

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