The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

Kovács, Áron Botond; Kreizinger, Zsuzsa; Forró, Barbara; Grózner, Dénes; Mitter, Alexa; Marton, Szilvia; Bali, Krisztina; Sawicka, Anna; Tomczyk, Grzegorz; Bányai, Krisztiàn; Gyuranecz, Miklós

doi:10.1186/s12864-020-06817-2

Cited by 12 publications

(6 citation statements)

References 32 publications

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“…One of the most commonly used methods for bacterial typing in whole genome sequencing is the gene-by-gene cgMLST approach. The cgMLST method focuses on a wide range of CDSs present in most strains, which permits high discrimination and renders the system less prone to mutations such as insertions and deletions ( 33 ). Additionally, cgMLST does not require a specific reference genome, making it a suitable method for identifying potential clusters from samples of an entire species ( 34 ).…”

Section: Resultsmentioning

confidence: 99%

Core-genome multilocus sequence typing and core-SNP analysis of Clostridium neonatale strains isolated in different spatio-temporal settings

Mesa,

Delannoy,

Ferraris

et al. 2023

Microbiol Spectr

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Clostridium neonatale was described as a new species within the Clostridium genus cluster I sensu stricto . It was recovered from the gut microbiota of infants and has been associated with necrotizing enterocolitis (NEC), a severe gastrointestinal disease affecting preterm neonates. In the absence of molecular typing methods, we developed a core (cg)-genome multilocus sequence typing (MLST) scheme based on 48 newly sequenced and 12 publicly available genomes of C. neonatale . Using the ChewBBACA algorithm, a stable MLST scheme consisting of 2,350 target genes (with genomes having ≥95% cgMLST targets) is proposed. The strains are distributed among five clades, and while some are clonality related within clades, the C. neonatale strain distribution is independent of geographic or temporal clustering. When considering strains isolated from patients with and without NEC, there were no observable differences in clustering. When compared to a core-single nucleotide polymorphism (SNP) analysis approach (31,248 positions), we showed that both cgMLST and cgSNP have comparable genetic discrimination of strains. In this study, we validated the use of cgMLST and cgSNP-based typing methods for the genetic comparison of clinical isolates of C. neonatale , which will allow for future surveillance and epidemiological clinical investigations of this potential opportunistic pathogen. IMPORTANCE Clostridium neonatale has been isolated from the fecal samples of asymptomatic neonates and cases of necrotizing enterocolitis (NEC). Taking advantage of a large collection of independent strains isolated from different spatio-temporal settings, we developed and established a cgMLST scheme for the molecular typing of C. neonatale . Both the cgMLST and cgSNP methods demonstrate comparable discrimination power. Results indicate geographic- and temporal- independent clustering of C. neonatale NEC-associated strains. No specific cgMLST clade of C. neonatale was genetically associated with NEC.

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Section: Resultsmentioning

confidence: 99%

Core-genome multilocus sequence typing and core-SNP analysis of Clostridium neonatale strains isolated in different spatio-temporal settings

Mesa,

Delannoy,

Ferraris

et al. 2023

Microbiol Spectr

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“…For the classification of aeromonads, multilocus phylogenetic analysis (MLPA) using the sequence of housekeeping genes ( gyrA , gyrB , rpoB , rpoD , recA , dnaJ , dnaK , dnaX , atpD , gltA , radA , zipA , cnp60 , mdh , metG , ppsA , tsf ) is one of the most accurate methods with classification accuracy up to 100% 88–91 . In recent years, core genome multilocus sequence typing (cgMLST) or whole‐genome multilocus sequence typing (wgMLST) offered an excellent platform for bacterial strain‐level identification and characterization 92–96 . The novel platform based on whole‐genome sequencing should be investigated in Aeromonas ‐related studies in the future.…”

Section: Overview Of Motile Aeromonas Infections In Fish Aquaculturementioning

confidence: 99%

“…[88][89][90][91] In recent years, core genome multilocus sequence typing (cgMLST) or whole-genome multilocus sequence typing (wgMLST) offered an excellent platform for bacterial strain-level identification and characterization. [92][93][94][95][96] The novel platform based on whole-genome sequencing should be investigated in Aeromonas-related studies in the future.…”

Section: Pathology and Diagnosismentioning

confidence: 99%

Non‐antibiotic approaches to combat motile Aeromonas infections in aquaculture: Current state of knowledge and future perspectives

Dien

Ngo²,

Nguyen

et al. 2022

Reviews in Aquaculture

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Inland aquaculture contributed by three major fish groups, including carps, tilapias, and catfish plays a vital role in global food security and nutrition, particularly in low and middle-income countries. However, the sustainable development of this sector is hampered by disease epidemics, especially those caused by bacteria such as Aeromonas species. At least eight pathogenic motile Aeromonas species (A. hydrophila, A. veronii, A. jandaei, A. caviae, A. sobria, A. bestiarum, A. dhakensis and A. schubertii) have been reported in aquaculture with some causing up to 100% mortality during disease outbreaks. Simultaneously, emerging multidrug-resistant Aeromonas due to a long-inappropriate use of antibiotics is alarming and highlights a global public health concern and negative socioeconomic impacts. Here, we provide a comprehensive overview of motile Aeromonas infections, antibiotic use and antimicrobial resistance of Aeromonas species. This contribution also highlights the non-antibiotic approaches (the solutions for preventing or treating of bacterial diseases without resorting to antibiotic use) to control motile Aeromonas infections. In addition to the current state of knowledge and limitations of each prophylaxis/therapy, perspectives for future research are discussed critically, including oral/immersion multivalent vaccines, microencapsulated synbiotics, exogenous metabolites, and novel lytic bacteriophage cocktails. Some emerging applicable nanotechnology themes such as nanovaccines, nanobioactive compounds, and nanobubbles are also included in this review. In

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“…In a previous report, duck salpingitis was associated with C. psittaci infection [1], E. coli and Tetratrichomonas sp. [2], M. anserisalpingitidis [5,36], and R. anatipestife [4]. Moreover, reproductive disorders in layers were associated with infections of E. coli [37], Staphylococci, Mannheimia haemolytica, Streptococcus bovis [7], G.anatis [9,10], G. anatis biovar haemolytica [38].…”

Section: Multi-agents Of Salpingitis During Production Peak Of Laying Hens and Breeder Ducksmentioning

confidence: 99%

Co-Infection of Escherichia coli, Enterococcus faecalis and Chlamydia psittaci Contributes to Salpingitis of Laying Layers and Breeder Ducks

et al. 2021

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Salpingitis is manifested as hemorrhagic follicular inflammation exudations and peritonitis, leading to reduced egg production and high culling of breeder flocks. From 2018 to 2021, increasing salpingitis during egg peak is threatening the poultry industry post-artificial insemination, both in breeder layers and breeder ducks across China. In our study, Escherichia coli (E. coli), Enterococcus faecalis (E. faecalis) and Chlamydia psittaci (C. psittaci) were isolated and identified from the diseased oviducts using biochemical tests and PCR. To identify and isolate pathogenicity, we inoculated the isolates into laying hens via an intravaginal route. Later, laying hens developed typical salpingitis after receiving the combination of the aforementioned three isolates (1 × 105 IFU/mL of C. psittaci and 1 × 106 CFU/mL of E. faecalis and E. coli, respectively), while less oviduct inflammation was observed in the layers inoculated with the above isolate alone. Furthermore, 56 breeder ducks were divided into seven groups, eight ducks per group. The birds received the combination of three isolates, synergic infection of E. coli and E. faecalis, and C. psittaci alone via vaginal tract, while the remaining ducks were inoculated with physiological saline as the control group. Egg production was monitored daily and lesions of oviducts and follicles were determined post-infection on day 6. Interestingly, typical salpingitis, degenerated follicles and yolk peritonitis were obviously found in the synergic infection of three isolates and the birds inoculated with C. psittaci alone developed hemorrhagic follicles and white exudates in oviducts, while birds with E. faecalis or E. coli alone did not develop typical salpingitis. Finally, higher E. coli loads were determined in the oviducts as compared to E. faecalis and C. psittaci infection. Taken together, the combination of E. coli and E. faecalis, and C. psittaci could induce typical salpingitis and yolk peritonitis both in laying hens and breeder ducks. Secondary infection of E. coli and E. faecalis via artificial insemination is urgently needed for investigation against salpingitis.

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The core genome multi-locus sequence typing of Mycoplasma anserisalpingitidis

Cited by 12 publications

References 32 publications

Core-genome multilocus sequence typing and core-SNP analysis of Clostridium neonatale strains isolated in different spatio-temporal settings

Core-genome multilocus sequence typing and core-SNP analysis of Clostridium neonatale strains isolated in different spatio-temporal settings

Non‐antibiotic approaches to combat motile Aeromonas infections in aquaculture: Current state of knowledge and future perspectives

Co-Infection of Escherichia coli, Enterococcus faecalis and Chlamydia psittaci Contributes to Salpingitis of Laying Layers and Breeder Ducks

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