Development of multilocus sequence typing (MLST) assay for Mycoplasma iowae

Ghanem, Mostafa; El‐Gazzar, Mohamed

doi:10.1016/j.vetmic.2016.08.013

Cited by 12 publications

(5 citation statements)

References 19 publications

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“…MLST schemes have been developed for many Mollicutes , almost exclusively Mycoplasma and Ureaplasma , because of their impacts on humans and animals (16–18). For phytoplasmas, most of the MLST schemes that have been developed for “ Candidatus Phytoplasma” species or 16S taxonomic groups target rRNAs, housekeeping genes, protein coding genes, and also positively selected genes involved in the interaction with the host (19, 20).…”

Section: Introductionmentioning

confidence: 99%

Multilocus Sequence Analysis Reveals Three Distinct Populations of “ Candidatus Phytoplasma palmicola” with a Specific Geographical Distribution on the African Continent

Pilet

Quaicoe

Osagie

et al. 2019

Appl Environ Microbiol

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To sustain epidemiological studies on coconut lethal yellowing disease (CLYD), a devastating disease in Africa caused by a phytoplasma, we developed a multilocus sequence typing (MLST) scheme for “CandidatusPhytoplasma palmicola” based on eight housekeeping genes. At the continental level, eight different sequence types were identified among 132 “CandidatusPhytoplasma palmicola”-infected coconuts collected in Ghana, Nigeria, and Mozambique, where CLYD epidemics are still very active. “CandidatusPhytoplasma palmicola” appeared to be a bacterium that is subject to strong bottlenecks, reducing the fixation of positively selected beneficial mutations into the bacterial population. This phenomenon, as well as a limited plant host range, might explain the observed country-specific distribution of the eight haplotypes. As an alternative means to increase fitness, bacteria can also undergo genetic exchange; however, no evidence for such recombination events was found for “CandidatusPhytoplasma palmicola.” The implications for CLYD epidemiology and prophylactic control are discussed. The usefulness of seven housekeeping genes to investigate the genetic diversity in the genus “CandidatusPhytoplasma” is underlined.IMPORTANCECoconut is an important crop for both industry and small stakeholders in many intertropical countries. Phytoplasma-associated lethal yellowing-like diseases have become one of the major pests that limit coconut cultivation as they have emerged in different parts of the world. We developed a multilocus sequence typing scheme (MLST) for tracking epidemics of “Ca. Phytoplasma palmicola,” which is responsible for coconut lethal yellowing disease (CLYD) on the African continent. MLST analysis applied to diseased coconut samples collected in western and eastern African countries also showed the existence of three distinct populations of “Ca. Phytoplasma palmicola” with low intrapopulation diversity. The reasons for the observed strong geographic patterns remain to be established but could result from the lethality of CLYD and the dominance of short-distance insect-mediated transmission.

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Section: Introductionmentioning

confidence: 99%

Multilocus Sequence Analysis Reveals Three Distinct Populations of “ Candidatus Phytoplasma palmicola” with a Specific Geographical Distribution on the African Continent

Pilet

Quaicoe

Osagie

et al. 2019

Appl Environ Microbiol

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“…Several sequence-based methods were developed and widely used to replace the traditional DNA fingerprinting techniques and minimize the need for M. gallisepticum isolation, which is often a challenging task due to the fastidious nature of mycoplasmas (10,11). The first gene-targeted sequence typing (GTS) scheme was developed in 2005.…”

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confidence: 99%

“…In 2007, a single-locus typing scheme was developed based on the variable intergenic spacer region (IGSR) (660 nucleotides) between 23S rRNA and 16S rRNA (13). In addition to improved reproducibility, the most valuable advantage of these sequence typing techniques over DNA fingerprinting techniques is that M. gallisepticum isolation is not required (10). Later, IGSR was used in combination with GTS to improve the discriminatory power (unpublished observation).…”

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confidence: 99%

Core Genome Multilocus Sequence Typing: a Standardized Approach for Molecular Typing of Mycoplasma gallisepticum

et al. 2018

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is the most virulent and economically important species for poultry worldwide. Currently, strain differentiation based on sequence analysis of 5 loci remains insufficient for accurate outbreak investigation. Recently, whole-genome sequences (WGS) of many human and animal pathogens have been successfully used for microbial outbreak investigations. However, the massive sequence data and the diverse properties of different genes within bacterial genomes results in a lack of standard reproducible methods for comparisons among whole genomes. Here, we proposed the development of a core genome multilocus sequence typing (cgMLST) scheme for strains and field isolates. For development of this scheme, a diverse collection of 37 genomes was used to identify cgMLST targets. A total of 425 conserved genes (49.85% of genome) were selected as core genome targets. A total of 81 genomes from 5 countries on 4 continents were typed using cgMLST. Analyses of phylogenetic trees generated by cgMLST displayed a high degree of agreement with geographical and temporal information. Moreover, the high discriminatory power of cgMLST allowed differentiation between strains of the same outbreak. cgMLST represents a standardized, accurate, highly discriminatory, and reproducible method for differentiation among isolates. cgMLST provides stable and expandable nomenclature, allowing for comparison and sharing of typing results among laboratories worldwide. cgMLST offers an opportunity to harness the tremendous power of next-generation sequencing technology in applied avian mycoplasma epidemiology at both local and global levels.

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“…But, considering that MLST databases contain reference data and are freely accessible via internet websites, in this study, we selected MLST method for M. synoviae genotyping. MLST is a well-established molecular typing method that has been applied successfully for many bacterial species, including Mycoplasma spp., such as M. bovis ( Menghwar et al, 2017 ), M. Iowae ( Ghanem and El-Gazzar, 2016 ), M. gallisepicum ( Ghanem and El-Gazzar, 2019 ), M. Hyopneumonaie ( Zhang et al, 2021 a), M. agalactiae ( McAuliffe et al, 2011 ), and M. Hyorhinis ( Földi et al., 2020 ).…”

Section: Discussionmentioning

confidence: 99%

Epidemiological investigations and multilocus sequence typing of Mycoplasma synoviae isolates from chicken farms in China

et al. 2023

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Development of multilocus sequence typing (MLST) assay for Mycoplasma iowae

Cited by 12 publications

References 19 publications

Multilocus Sequence Analysis Reveals Three Distinct Populations of “ Candidatus Phytoplasma palmicola” with a Specific Geographical Distribution on the African Continent

Multilocus Sequence Analysis Reveals Three Distinct Populations of “ Candidatus Phytoplasma palmicola” with a Specific Geographical Distribution on the African Continent

Core Genome Multilocus Sequence Typing: a Standardized Approach for Molecular Typing of Mycoplasma gallisepticum

Epidemiological investigations and multilocus sequence typing of Mycoplasma synoviae isolates from chicken farms in China

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