A New SNP-Based Genotyping Method for C. psittaci: Application to Field Samples for Quick Identification

被引:16
作者
Vorimore, Fabien [1 ]
Aaziz, Rachid [1 ]
de Barbeyrac, Bertille [2 ]
Peuchant, Olivia [2 ]
Szymanska-Czerwinska, Monika [3 ]
Herrmann, Bjorn [4 ,5 ]
Schnee, Christiane [6 ]
Laroucau, Karine [1 ]
机构
[1] Paris Est Univ, Bacterial Zoonosis Unit, Lab Anim Hlth, ANSES Maisons Alfort, F-94706 Paris, France
[2] Univ Bordeaux, Mycoplasma & Chlamydia Infect Humans, F-33076 Bordeaux, France
[3] Natl Vet Res Inst, Dept Cattle & Sheep Dis, PL-24100 Pulawy, Poland
[4] Uppsala Univ Hosp, Dept Clin Microbiol, S-75185 Uppsala, Sweden
[5] Uppsala Univ, Dept Med Sci, Sect Clin Bacteriol, S-75123 Uppsala, Sweden
[6] Fed Res Inst Anim Hlth, Friedrich Loeffler Inst, Inst Mol Pathogenesis, D-07743 Jena, Germany
关键词
Chlamydia psittaci; SNP; PCR-high-resolution melting (HRM); psittacosis; avian chlamydiosis; genotyping;
D O I
10.3390/microorganisms9030625
中图分类号
Q93 [微生物学];
学科分类号
071005 ; 100705 ;
摘要
Chlamydia (C.) psittaci is the causative agent of avian chlamydiosis and human psittacosis. In this study, we extracted single-nucleotide polymorphisms (SNPs) from the whole genome sequences of 55 C. psittaci strains and identified eight major lineages, most of which are host-related. A combined PCR/high-resolution melting (HRM) assay was developed to screen for eight phylogenetically informative SNPs related to the identified C. psittaci lineages. The PCR-HRM method was validated on 11 available reference strains and with a set of 118 field isolates. Overall, PCR-HRM clustering was consistent with previous genotyping data obtained by ompA and/or MLST analysis. The method was then applied to 28 C. psittaci-positive samples from animal or human cases. As expected, PCR-HRM typing results from human samples identified genotypes linked to ducks and pigeons, a common source of human exposure, but also to the poorly described Mat116-like genotype. The new genotyping method does not require time-consuming sequencing and allows a quick identification of the source of infection.
引用
收藏
页码:1 / 9
页数:10
相关论文
共 26 条
  • [1] Two new serovars of Chlamydia psittaci from North American birds
    Andersen, AA
    [J]. JOURNAL OF VETERINARY DIAGNOSTIC INVESTIGATION, 1997, 9 (02) : 159 - 164
  • [3] Balsamo G, 2017, J AVIAN MED SURG, V31, P262, DOI 10.1647/217-265
  • [4] Nucleotide and phylogenetic analyses of the Chlamydia trachomatis ompA gene indicates it is a hotspot for mutation
    Brunelle B.W.
    Sensabaugh G.F.
    [J]. BMC Research Notes, 5 (1)
  • [5] Whole-Genome Sequences of Low-Virulence Strain CB3 and Mild Strain CB7 of Chlamydia psittaci
    Chu, Jun
    Sun, Ruixue
    Wu, Zongxue
    Liu, Shanshan
    Li, Dongfang
    Zhang, Qiang
    Ling, Yong
    Gong, Yanping
    Wu, Renhua
    Wu, Honglong
    Zhou, Jizhang
    He, Cheng
    Ni, Peixiang
    [J]. GENOME ANNOUNCEMENTS, 2014, 2 (03)
  • [6] Henning K, 2000, DEUT TIERARZTL WOCH, V107, P49
  • [7] Animal sources for zoonotic transmission of psittacosis: a systematic review
    Hogerwerf, Lenny
    Roof, Inge
    de Jong, Marianne J. K.
    Dijkstra, Frederika
    van der Hoek, Wim
    [J]. BMC INFECTIOUS DISEASES, 2020, 20 (01)
  • [8] ART: a next-generation sequencing read simulator
    Huang, Weichun
    Li, Leping
    Myers, Jason R.
    Marth, Gabor T.
    [J]. BIOINFORMATICS, 2012, 28 (04) : 593 - 594
  • [9] Avian host range of Chlamydophila spp. based on isolation, antigen detection and serology
    Kaleta, EF
    Taday, EMA
    [J]. AVIAN PATHOLOGY, 2003, 32 (05) : 435 - 462
  • [10] STRUCTURES OF AND ALLELIC DIVERSITY AND RELATIONSHIPS AMONG THE MAJOR OUTER-MEMBRANE PROTEIN (OMPA) GENES OF THE 4 CHLAMYDIAL SPECIES
    KALTENBOECK, B
    KOUSOULAS, KG
    STORZ, J
    [J]. JOURNAL OF BACTERIOLOGY, 1993, 175 (02) : 487 - 502