SecY gene sequence analysis for finer differentiation of diversestrains in the aster yellows phytoplasma group

Lee, I.-M.; Zhao, Yan; Bottner, K. D.

doi:10.1016/j.mcp.2005.10.001

Cited by 126 publications

(92 citation statements)

References 13 publications

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“…It is not uncommon that closely related phytoplasma strains have unique ecological niches encompassing both plant host range and insect vectors (Lee et al, 1998b. (Lee et al, 2006a;Marcone et al, 2000;Martini et al, 2007).…”

Section: Introductionmentioning

confidence: 99%

Phylogenetic analysis and delineation of phytoplasmas based on secY gene sequences

Lee¹,

Bottner-Parker

Zhao

et al. 2010

International Journal of Systematic and Evolutionary Microbiology

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128

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The secY gene sequence is more variable than that of the 16S rRNA gene. Comparative phylogenetic analyses with 16S rRNA and secY gene sequences from 80 and 83 phytoplasma strains, respectively, were performed to assess the efficacy of these sequences for delineating phytoplasma strains within each 16Sr group. The phylogenetic interrelatedness among phytoplasma taxa inferred by secY gene-based phylogeny was nearly congruent with that inferred by 16S rRNA gene-based phylogeny. Phylogenetic analysis based on the secY gene permitted finer differentiation of phytoplasma strains, however. The secY gene-based phylogeny not only readily resolved 16Sr subgroups within a given 16Sr group, but also delineated distinct lineages irresolvable by 16S rRNA gene-based phylogeny. Such high resolving power makes the secY gene a more useful genetic marker than the 16S rRNA gene for finer differentiation of closely related phytoplasma strains based on RFLP analysis with selected restriction enzymes. Such strains were readily identified by collective secY RFLP patterns. The genetic interrelationships among these strains were determined by pattern similarity coefficients, which coincided with delineations by phylogenetic analysis. This study also revealed two heterogeneous spc operons present in the phytoplasma clade. This latter finding may have significant implications for phytoplasma evolution.

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Section: Introductionmentioning

confidence: 99%

Phylogenetic analysis and delineation of phytoplasmas based on secY gene sequences

Lee¹,

Bottner-Parker

Zhao

et al. 2010

International Journal of Systematic and Evolutionary Microbiology

Self Cite

128

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“…The rp gene was amplified by the primers rp(I)F1A/ rp(I)R1A that amplify about 1.2 kbp of the rp operon that encompassed genes rpl22 and rps3 (Lee et al, 2004). The secY gene (about 1.4 kbp) was amplified by AYsecYF1/ AYsecYR1 (Lee et al, 2006).…”

Section: Total Dna Extraction and Pcr Amplificationmentioning

confidence: 99%

Bitter gourd little leaf disease associated to 'Candidatus Phytoplasma asteris'

Win¹,

Kim²,

Jung³

2014

Trop. plant pathol.

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Little leaf disease symptoms including dwarfed, thickened and puckered leaves and shortened internodes of bitter gourd (Momordica charantia L.) plants were observed in Meiktila, Myanmar 2012. The causal agent was detected by polymerase chain reaction using universal phytoplasma primers, and classified by sequencing of 16S rRNA gene, ribosomal protein (rp) gene and protein translocase subunit (secY) gene and RFLP analysis. The expected target phytoplasma DNA fragment of 1.8 kbp was amplified from the bitter gourd little leaf (BitLL) diseased samples. The 16S rRNA gene sequence analysis of BitLL phytoplasma showed 99.7% to 99.9% identity with members of 'Candidatus Phytoplasma asteris' associated with sesame phyllody (SP), periwinkle phyllody (PeP) and periwinkle little leaf (PeLL) diseases in Myanmar. Moreover, rp and secY gene sequences of the BitLL isolate were 99.7% to 100%, and 99.9% to 100% identity among the SP, PeP and PeLL phytoplasma. However, putative restriction analysis revealed that the BitLL isolate missed one Mse I site on rp gene sequence while other isolates had the same restriction sites. Phylogenetic analysis of the three genes confirmed that the phytoplasma belongs to the 'Ca. P. asteris'. This is the first report of 'Ca. P. asteris' infecting a member of the family Cucurbitaceae in Myanmar.

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“…However, because of its highly conserved nature, the 16S rRNA gene may not be adequate for finer differentiation of closely related but distinct phytoplasmas strains. The additional markers such as secY, tuf and rp genes as well as 16S-23S intergenic spacer region genes sequencing have been used for subgroup differentiation of 16SrI phytoplasmas which were divided into 11 subgroups [7,14,17]. Similarly tuf gene and rp operon have been used to subdivide the members of 16SrXII phytoplasma group [24].…”

Section: Introductionmentioning

confidence: 99%

Molecular Characterization and Phylogeny of a Phytoplasma Associated with Phyllody Disease of toria (Brassica rapa L. subsp. dichotoma (Roxb.)) in India

Azadvar

2010

Indian J. Virol.

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Samples from toria plants (Brassica rapa L. subsp. dichotoma (Roxb.)) exhibiting phyllody, virescence, witches broom, extensive malformation of floral parts, formation of bladder like siliquae and flower sterility were collected from four different locations in India. Sequencing and phylogenetic analysis of the 16S rRNA, a part of 23S rRNA, partial sec A genes, rp gene and 16S-23S intergenic spacer region indicated that the phytoplasmas associated with toria phyllody (TP) symptoms were identical and belonged to 16SrIX phytoplasma Pigeon pea witches'-broom (PPWB) group. The iPhyClassifier generated virtual RFLP pattern of 1.25 kb 16S rDNA sequences indicated that TP phytoplasma belongs to 16SrIX-C phytoplasma subgroup. Complete 23S rRNA gene of TP phytoplasma had 2,787 nucleotides and is the first sequence of 16SrIX phytoplasma group. Restriction digestion of 16S rDNA and 23S rDNA PCR products has also shown that TP phytoplasmas from all the four locations in India were identical. Toria is a previously unreported host for a phytoplasma in16SrIX-C subgroup.

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SecY gene sequence analysis for finer differentiation of diversestrains in the aster yellows phytoplasma group

Cited by 126 publications

References 13 publications

Phylogenetic analysis and delineation of phytoplasmas based on secY gene sequences

Phylogenetic analysis and delineation of phytoplasmas based on secY gene sequences

Bitter gourd little leaf disease associated to 'Candidatus Phytoplasma asteris'

Molecular Characterization and Phylogeny of a Phytoplasma Associated with Phyllody Disease of toria (Brassica rapa L. subsp. dichotoma (Roxb.)) in India

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