Ekundayo Temitope, Okoh Anthony
SAMRC Microbial Water Quality Monitoring Centre, University of Fort Hare, Alice 5700, Eastern Cape, South Africa.
Applied and Environmental Microbiology Research Group, Department of Biochemistry and Microbiology, University of Fort Hare, Alice 5700, Eastern Cape, South Africa.
Microorganisms. 2020 Jul 20;8(7):1081. doi: 10.3390/microorganisms8071081.
Molecular signatures of strain specific to pathogenic and nonpathogenic variants are not well established till present. There is a need for intra-species barcoding of to aid infection control. This study aims at characterizing and assessing intra-species diversity and abundance of isolated from three freshwaters in the Eastern Cape Province. The study used a Plesiomonas-specific PCR to characterize the isolates. Intra-species (dis)similarities were assessed using ERIC-PCR and (GTG)5-PCR techniques. The DNA fingerprints produced were electrophoresed, digitized, and documented via computer-assisted pattern analysis. The fingerprints were analyzed using neighbor-joining clustering (NJC) based on Euclidean similarity index. Results revealed 80%, 83.64%, and 80% of the water samples from Tyhume, Kat, and Kubusie rivers, respectively, positive for isolation. The prevalence of from sites ranged from 13.5% to 88.9%. NJC delineated 48 isolates to 8 clades (ERIC-fingerprints) and 34 isolates into 7 clades ((GTG)5-fingerprints). The relative abundance of unique strains ranged from 6.3% to 22.9% via the two methods. Both fingerprinting approaches have strain-differentiating potential for , however ERIC-PCR possessed higher resolution ( = 37.46) advantage over (GTG)5-PCR ( = 29.64). In conclusion, the study achieved intra-species diversity and abundance of from aquatic milieu and provide further opportunity for intra-species-specific barcoding.
致病性和非致病性变体的菌株特异性分子特征至今尚未完全明确。需要对物种进行种内条形码标记以辅助感染控制。本研究旨在对从东开普省三条淡水中分离出的[细菌名称未给出]进行种内多样性和丰度的表征与评估。该研究使用嗜水气单胞菌特异性PCR对分离株进行表征。使用ERIC-PCR和(GTG)5-PCR技术评估种内（不）相似性。产生的DNA指纹经电泳、数字化，并通过计算机辅助模式分析进行记录。基于欧几里得相似性指数，使用邻接法聚类（NJC）对指纹进行分析。结果显示，分别从泰胡梅河、卡特河和库布西河中采集的水样中，有80%、83.64%和80%的水样检测出[细菌名称未给出]呈阳性。不同地点[细菌名称未给出]的流行率在13.5%至88.9%之间。NJC将48个分离株划分为8个进化枝（ERIC指纹），34个分离株划分为7个进化枝（(GTG)5指纹）。通过两种方法，独特菌株的相对丰度在6.3%至22.9%之间。两种指纹分析方法都具有区分[细菌名称未给出]菌株的潜力，然而ERIC-PCR具有更高的分辨率（= 37.46），优于(GTG)5-PCR（= 29.64）。总之，该研究实现了从水生环境中获取[细菌名称未给出]的种内多样性和丰度，并为种内特异性条形码标记提供了进一步的机会。
