Biodiversity Science ›› 2016, Vol. 24 ›› Issue (2): 205-215.doi: 10.17520/biods.2015127

• Orginal Article • Previous Article     Next Article

Genetic diversity of phytoplasmas: research status and prospects

Shaoshuai Yu1, 2, Qicong Xu1, Caili Lin1, Shengjie Wang1, Guozhong Tian1, *()   

  1. 1 Research Institute of Forest Ecology, Environment and Protection, Chinese Academy of Forestry, Key Laboratory of Forest Protection of State Forestry Administration, Beijing 100091, China
    2 International Nature Farming Research Center, Matsumoto 3901401, Japan
  • Received:2015-05-12 Accepted:2015-09-06 Online:2016-03-03
  • Tian Guozhong E-mail:tian3691@163.com

Phytoplasmas are cell wall-less prokaryotic pathogens causing many plant diseases with various host plants, widely geographical distribution and adverse impacts on economics and environments. Abundant genetic diversity of the phytoplasmas has been evidenced by vast researches. In the paper, we conducted a comparatively systematic and comprehensive schematic review and comment on the research status of phytoplasma genetic diversity. We discussed the potential research directions with respect to research technology and generation mechanism of phytoplasmal genetic variation as well as relationships to pathogenicity in future. Analysis on five phytoplasmas whose whole genomes have been completed has indicated the definite genetic variation in size, structure and function of phytoplasmal genomes, which lack many genes for standard metabolic functions. There are different number, size and function of the plasmids in various phytoplasma strains. Two copies of ribosomal RNA operons among all the phytoplasmas showed significant variation which provided the present foundation for classification and identification of phytoplasmas. Studies on protein-encoding genes, such as ribosomal protein (rp), elongation factors (tuf and fusA), translocation proteins (secY and secA), effector molecules as well as non-encoding sequences such as promoters and pseudogenes have further revealed the rich genetic diversity of phytoplasmas. Since inadequate information is known regarding the characteristics of morphology, cultivation, physiology and metabolism due to the difficulty in culturing phytoplasma in vitro, modern molecular techniques for example whole genome sequencing and multilocus sequence analysis (MLSA) are efficient ways to research phytoplasmal genetic variation. Discoveries and developed techniques have facilitated a system-wide approach to revealing phytoplasma genetic variation, phylogenetic evolution as well as the relationships of their interaction with hosts (plant and insect vector) and adaptation to ecological conditions from the molecular level, and led to new insights. This will be of great importance in increasing the level of classification and determination of phytoplasmas, epidemiological forecasting and the control of relevant diseases.

Key words: phytoplasma, genetic variation, phylogenetic evolution, classification and identification, plant (insect vector)-phytoplasma interaction, multilocus sequence analysis (MLSA)

Table 1

Essential characterization of five phytoplasma complete genomes (Oshima et al, 2004; Bai et al, 2006; Tran-Nguyen et al, 2008; Kube et al, 2008; Andersen et al, 2013)"

株系
Strains
洋葱黄化植原体
Onion yellows (OY-M)
翠菊黄化植原体
Aster yellows
witches’-broom
(AYWB)
苹果簇生植原体
Candidatus
mali (AT)
澳大利亚葡萄黄化 植原体
Candidatus australiense
(PAa)
草莓致死黄化 植原体
Strawberry lethal yellows
(SLY)
引起病害
Causing diseases
洋葱黄化
Onion yellows
翠菊黄化
Aster yellows
苹果丛枝
Apple proliferation
葡萄黄化
Grapevine yellows
草莓致死黄化
Strawberry lethal yellows
16Sr组 16Sr group 16SrI 16SrI 16SrX 16SrXII 16SrXII
基因组大小
Chromosome size (bp)
860,631 706,569 601,943 879,324 959,779
染色体形态
Chromosome organization
环状
Circular
环状
Circular
线状
Linear
环状
Circular
环状
Circular
G+C含量 G+C content (%) 28 27 21.4 27 27
编码区 Coding sequences (%) 73 72 78.9 74 78
总基因数 Total no. of genes 754 671 497 839 1,126
功能明确基因数
No. of protein-coding genes with assigned function
446 450 338 502 528
保守假拟基因数
No. of conserved hypothetical genes
51 149 72 214 249
假拟基因数
No. of hypothetical genes
257 72 87 123 349
tRNA基因数
No. of tRNA genes
32 31 32 35 35
rRNA操纵子数
No. of rRNA operons
2 2 2 2 2
质粒数量 No. of plasmids 2 4 0 1 1
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