Journal of Microbiology

Journal Article

Evidence of the genetic diversity and clonal population structure of Oenococcus oeni strains isolated from different wine-making regions of China: Dongliang Yu , Kan Shi , Xiangyuan Wen , Fangshu Xie , Tao Wang , Shuwen Liu , Ling He; J. Microbiol. 2018;56(8):556-564. Published online July 25, 2018; DOI: https://doi.org/10.1007/s12275-018-7568-7

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Studies of the genetic diversity and population structure of Oenococcus oeni (O. oeni) strains from China are lacking compared to other countries and regions. In this study, amplified fragment length polymorphism (AFLP) and multilocus sequence typing (MLST) methods were used to investigate the genetic diversity and regional evolutionary patterns of 38 O. oeni strains isolated from different wine-making regions in China. The results indicated that AFLP was markedly more efficient than MLST for typing O. oeni strains. AFLP distinguished 37 DNA patterns compared to 7 sequence types identified using MLST, corresponding to discriminatory indices of 0.999 and 0.602, respectively. The AFLP results revealed a high level of genetic diversity among the O. oeni strains from different regions of China, since two subpopulations and an intraspecific homology higher than 60% were observed. Phylogenetic analysis of the O. oeni strains using the MLST method also identified two major phylogroups, which were differentiated into two distinct clonal complexes by minimum spanning tree analysis. Neither intragenic nor intergenic recombination verified the existence of the clonal population structure of the O. oeni strains.

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Impact of indigenous Oenococcus oeni and Lactiplantibacillus plantarum species co-culture on Cabernet Sauvignon wine malolactic fermentation: Kinetic parameters, color and aroma
Biying Zhang, Doudou Liu, Hui Liu, Jiaxin Shen, Jiaxuan Zhang, Ling He, Jin Li, Penghui Zhou, Xueqiang Guan, Shuwen Liu, Kan Shi
Food Chemistry: X.2024; 22: 101369. CrossRef
Lactic acid bacteria as an eco-friendly approach in plant production: Current state and prospects
Haitam Lahmamsi, Samir Ananou, Rachid Lahlali, Abdessalem Tahiri
Folia Microbiologica.2024; 69(3): 465. CrossRef
Molecular and Physiological Properties of Indigenous Strains of Oenococcus oeni Selected from Nero di Troia Wine (Apulia, Italy)
Maria Stella Cappello, Vittorio Falco, Rosita Curcio, Giovanni Mita, Giacomo Zapparoli
Microorganisms.2022; 10(4): 795. CrossRef
Molecular typing tools for identifying and characterizing lactic acid bacteria: a review
Anshul Sharma, Sulhee Lee, Young-Seo Park
Food Science and Biotechnology.2020; 29(10): 1301. CrossRef

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Clonal Spread of Carbapenem Resistant Acinetobacter baumannii ST92 in a Chinese Hospital during a 6-Year Period: Lei Huang , Liying Sun , Yan Yan; J. Microbiol. 2013;51(1):113-117. Published online March 2, 2013; DOI: https://doi.org/10.1007/s12275-013-2341-4

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Abstract: The carbapenem resistance rate of Acinetobacter baumannii in our hospital has increased steadily since 2004. The molecular epidemiology of carbapenem resistant A. baumannii (CRAB) clinical isolates was characterized by multilocus sequence typing (MLST) and rep-PCR in parallel, with pandrug susceptible A. baumannii (PSAB) used as control. MLST was performed to determine the sequence types (STs), and eBURST algorithm was used to analyze their relatedness. Carbapenem resistance related genes (oxa-23, oxa-24, oxa-51, oxa-58, imp, vim, and adeB) were screened using Polymerase Chain Reaction (PCR) method. 23 STs were identified in the 65 included isolates, with ST92 being the predominant clone. PSAB clustered into more singletons than CRAB. The positivity of oxa-23 and adeB correlated with high level carbapenem resistance (MICIPM>32 mg/L, MICMEM>32 mg/L) of CRAB ST92 isolates in 2009, which was different from the resistance pattern (MICIPM≤4 mg/L, 8 mg/L ≤MICMEM≤16 mg/L) of CRAB ST92 isolates in 2004. These observations suggest that clonal spread of CRAB ST92 isolates longitudinally is the possible reason for carbapenem resistance rate increase and correlate with high level carbapenem resistance in our hospital.

Journal Articles

Re-identification of Aspergillus fumigatus sensu lato Based on a New Concept of Species Delimitation: Seung-Beom Hong , Dae-Ho Kim , In-Cheol Park , Young-Joon Choi , Hyeon-Dong Shin , Robert Samson; J. Microbiol. 2010;48(5):607-615. Published online November 3, 2010; DOI: https://doi.org/10.1007/s12275-010-0084-z

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Abstract: The species concept of Aspergillus fumigatus sensu stricto has recently been defined by polyphasic taxonomy. Based on the new concept of species delimitations, 146 worldwide strains of Aspergillus fumigatus sensu lato were re-identified. Of those 146 strains, 140 (95.8%) could be identified as A. fumigatus sensu stricto, 3 (2.1%) as A. lentulus, and the remaining 3 strains as A. viridinutans complex, Neosartorya udagawae, and N. cf. nishimurae. Of 98 clinical strains, only 1 from dolphin nostril was identified as A. lentulus and not A. fumigatus sensu stricto. Random amplification of polymorphic DNA-polymerase chain reaction (RAPD-PCR) with primers PELF and URP1F produced nearly the same band patterns among 136 strains of A. fumigatus sensu stricto while discriminated the species from its related species. We also discussed about identification of several atypical A. fumigatus strains from clinical environments.

Genotypic Characteristics of Haemophilus influenzae Isolates from Pediatric Pneumonia Patients in Chengdu City, Sichuan, China: Tian Guozhong , Zhang Li , Li Machao , Wang Xiaolei , Zheng Yuhong , Li Xiaojing , Huang Cheng , Li Xuechun , Xie Yongqiong , Xu Li , Ren Hongyu , Shao Zhujun; J. Microbiol. 2009;47(4):494-497. Published online September 9, 2009; DOI: https://doi.org/10.1007/s12275-009-0002-4

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7 Scopus

Abstract: Two hundred and seventy-three Haemophilus influenzae strains isolated from pediatric pneumonia patients in China were studied. We used Multilocus Sequence Typing (MLST) to analyze genotypic characteristics. All strains were biotyped and serotyped. Relatedness and patterns of genes among isolates were determined by the analysis of MLST and eBURST. H. influenzae primarily causes acute pneumonia in children under 1 year old. Nontypeable H. influenzae was responsible for most cases of pediatric pneumonia. All 273 strains were classified into eight biotypes. They mostly belonged to the I, II, and III biotypes (17.6%, 43.6%, and 22.7%, respectively). 62 strains (22.7%) produced β-lactamase. We found 28 novel alleles. Fifty different STs were found by MLST, of which 39 were novel. These were ST477 through ST508 and ST521 through ST527. Group 17 and predicted founders 503 were new groups in this study. No STs correlated with strains from Korea, which is adjacent to China. The H. influenzae strains from China appeared to have heterogeneous ST types patterns which may be the reason no outbreaks or epidemics of H. influenzae infections have occurred in Chengdu city, Sichuan, China.

The Molecular Characterization of Serogroup C Neisseria meningitidis Strains Circulating in Beijing: Tie-gang Zhang , Jing-guo He , Xiong He , Li-Juan Chen , Zhu-jun Shao , Mei-ping Sun; J. Microbiol. 2006;44(6):685-688.; DOI: https://doi.org/2455 [pii]

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Abstract: The aim of this study was to characterize the molecular features of serogroup C Neisseria meningitidis strains circulating in Beijing, China. Twenty out of 23 strains belonged to ST 4821. The causative serosubtype for meningococcal meningitis was P1.12-1,16-8. All of the strains expressed class 3 PorB protein. Among the five pulsed-field gel electrophoresis patterns observed, pattern III predominated.

Laboratory Confirmation of A Suspicious Meningococcal Meningitis Death Case: Tie-gang Zhang , Xiong He , Li-juan Chen , Jing-guo He , Ming Luo , Jie Yang , Zhu-jun Shao , Mei-ping Sun; J. Microbiol. 2006;44(4):457-460.; DOI: https://doi.org/2405 [pii]

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Abstract: A suspicious meningococcal meningitis death case was reported to the Beijing CDC. The blood specimen was analyzed via multi-PCR and MLST. 6 isolates from close contacts were analyzed via PFGE and MLST. According to the results of the above analyses, the cause of this case was identified as a serogroup A Neisseria meningitidis, which, in terms of sequence typing, belonged the ST7 group.

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