Escherichia fergusonii identified in preputial swabs from healthy Aceh cattle by phylogenetic 16S rRNA analysis

Balqis, Ummu; Hambal, Muhammad; Admi, Masda; Safika, Safika; Meutia, N.; Sugito, Sugito; Dasrul,; Abdullah, Mohammed A.; Ferasyi, Teuku Reza; Lubis, Triva Murtina; Abrar, Mahdi; Darmawi, Darmawi

doi:10.21161/mjm.107417

Cited by 8 publications

(13 citation statements)

References 28 publications

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“…The first published biochemical profile of E. fergusonii revealed that they are motile and non-lactose fermenters, confirming our findings [31]. The study of Balqis et al [32] and Maheux et al [16] however reported varying patterns for lactose fermentation and motility.…”

Section: Discussionsupporting

confidence: 89%

First Detection of Carbapenem-Resistant Escherichia fergusonii Strains Harbouring Beta-Lactamase Genes from Clinical Samples

Adesina

Nwinyi

et al. 2019

Pathogens

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Recently discovered extraintestinal Escherichia fergusonii obtained from non-clinical samples has exhibited the potential for acquiring multiple beta-lactamase genes, just like many extraintestinal Escherichia coli strains. Albeit, they are often omitted or classified as E. coli. This study aimed to, therefore, identify carbapenem-resistant extended-spectrum beta-lactamase (ESBL) producing E. fergusonii isolates from clinical samples, determine their evolutionary relatedness using 16S rRNA sequencing analysis and screen for beta-lactamase genes. A total of 135 septic wound samples were obtained from patients on referral at a General Hospital in Lagos, Nigeria. For the phenotypic identification of isolates from culture-positive samples, morphological, and physiological tests were carried out. Identities of the isolates harbouring beta-lactamase genes were assigned to their genus strains using the 16S rRNA sequencing. The Kirby Bauer disc diffusion technique and double-disc synergy test were used to screen isolates for multidrug resistance and ESBL production. Carbapenem-resistant ESBL producing isolates were screened for beta-lactamase genes in a polymerase chain reaction. Three E. fergusonii isolates (CR11, CR35 and CR49) were obtained during this study. E. fergusonii strains were motile, non-lactose and non-sorbitol fermenting but positive for cellobiose and adonitol fermentation. The I6S rRNA assigned the phenotypically identified isolates to E. fergusonii species. All three isolates were multidrug-resistant, carbapenem-resistant and ESBL producers. Isolates CR11 and CR35 harboured cefotaximase (CTX-M) and temoniera (TEM) beta-lactamase genes while CR49 harboured sulfhydryl variable (SHV) beta-lactamase gene. We herein report the detection of multiple beta-lactamase genes in carbapenem-resistant ESBL producing E. fergusonii from clinical samples.

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Section: Discussionsupporting

confidence: 89%

First Detection of Carbapenem-Resistant Escherichia fergusonii Strains Harbouring Beta-Lactamase Genes from Clinical Samples

Adesina

Nwinyi

et al. 2019

Pathogens

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“…The 16S rRNA gene sequences data from isolate 3A were compared to the GenBank database using the Basic Local Alignment Search Tool (BLAST) software (blastn) available from the National Center for Biotechnology Information (NCBI) (http://www.ncbi.nlm.nih.gov/). The 16S rRNA sequence was analyzed and aligned using the ClustalW program, and the phylogenetic tree was constructed using MEGA 5.05 software (https://www.megasoftware.net/,) [12,13,17], based on the neighbor-joining tree method [18] and refers to the model p-distance, with bootstrap 1000× [19]. An outgroup for phylogenetic analysis used in this study is an Escherichia col i (Enterohemorrhagic E. coli ).…”

Section: Methodsmentioning

confidence: 99%

“…In our previous investigation of cellulolytic Enterobacte r [11], and cellulolytic Bacillu s [12], both bacteria were found in the rumen of Aceh cattle. Recently, in the preputial swabs of Aceh cattle, we found prevalence of 8.0% of Escherichia fergusonii identified by phylogenetic 16S rRNA analysis [13]. The 16S rRNA gene has highly conserved sequences within species and between species of the same genus so that this gene can be used as the common tool for the speciation or identification of bacteria.…”

Section: Introductionmentioning

confidence: 99%

Identification of Staphylococcus species isolated from preputium of Aceh cattle based on 16S rRNA gene sequences analysis

et al. 2019

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Aim:This research aimed to identify Staphylococcus species isolated from preputial swabs of healthy Aceh cattle, based on 16S ribosomal RNA gene analysis.Materials and Methods:The bacterium was isolated from preputial swabs of healthy Aceh cattle. The total DNA from the isolated bacteria was extracted using the Genomic DNA Mini Kit followed by polymerase chain reaction (PCR) amplification of the 16S rRNA gene. The product of PCR amplification was then sequenced and aligned to the known sequences in the GenBank database by multiple alignments and was also analyzed by bioinformatics software to construct a phylogenetic tree.Results:The results revealed that the bacterial isolate 3A had genetically closed relation to Staphylococcus pasteuri with <97% maximum identity. Data derived from the phylogenetic tree revealed that the bacterial isolate 3A was also related to Staphylococcus warneri, yet, it shows a different evolutionary distance with the ancestors (S. pasteuri).Conclusion:The results of this research suggested that the bacterium 3A, isolated from preputial swabs of healthy Aceh cattle, is a Staphylococcus species.

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“…Total DNA was extracted separately using the gDNA PrestoTM Bacteria Mini kit (Geneaid) with slight modification. Purified total DNA (50 µL, ~200 µg/mL) was eluted and used as the template for PCR assays as described in previous studies [14,15].…”

Section: Dna Extractionmentioning

confidence: 99%

“…The BacF primer was used since it have complement with sustainable regions in bacterial domain. Then, UniB primer was used concerned to it universal sustainability for 16SrRNA gene to E. coli [14,15]. A further step for this amplification processes were also followed the method and technique in previous studies [14,15].…”

Section: Polymerase Chain Reaction (Pcr) Amplification For Gene 16s Rrnamentioning

confidence: 99%

Isolation, Identification, and Critical Points of Risk of Escherichia coli O157:H7 Contamination at Aceh Cattle Breeding Centre

et al. 2020

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This study was aimed to identify possible critical points of Escherichia coli (E. coli ) O157:H7, a pathogenic agent, contamination in aceh cattle breeding centre. For this purpose, samples were collected from cattle faeces, hand of workers (animal keepers), and water sources in the farm using cross-sectional approach. A number of 85 samples of cattle faecal swab were collected randomly from the animals in the breeding centre. The samples of swab of hand of all workers (15 persons) were collected before and after work. Then, the water sources from 11 cattle house locations in the breeding centre were collected. The water sources were divided into three different locations, namely the water containers, taps, and water puddle on the floors. At each source a number of 11 samples were collected. Isolation of E. coli was conducted on Eosin Methylene Blue Agar (EMBA), followed by identification on Sorbitol MacConkey Agar (SMAC). Then Molecular subtyping of E. coli O157:H7 genes was conducted using multiplex-PCR analysis. Data were analysed descriptively. The results of this study showed that 72 samples (85 %) among 85 samples were positive for E. coli and the rest of samples were positive for other types of bacteria. Sample isolation from swabs of hand was found 3 positive E. coli before work and 1 positive E. coli after work from 15 workers. The most potential water sources for E. coli contamination were the water in taps, and water puddle on the floor of cattle houses. Then, two of samples of E. coli isolated from rectal swab were confirmed as E. coli O157:H7 using PCR test, based on the presence of stx2 gene. In conclusion, the risk of presence of E. coli as zoonotic agents of E. coli O157:H7 in aceh cattle as well as from the farm workers and surrounding area are high. An appropriate control strategy is needed to apply in the aceh cattle farm to prevent from E. coli O157:H7 outbreak in the future.

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Escherichia fergusonii identified in preputial swabs from healthy Aceh cattle by phylogenetic 16S rRNA analysis

Cited by 8 publications

References 28 publications

First Detection of Carbapenem-Resistant Escherichia fergusonii Strains Harbouring Beta-Lactamase Genes from Clinical Samples

First Detection of Carbapenem-Resistant Escherichia fergusonii Strains Harbouring Beta-Lactamase Genes from Clinical Samples

Identification of Staphylococcus species isolated from preputium of Aceh cattle based on 16S rRNA gene sequences analysis

Isolation, Identification, and Critical Points of Risk of Escherichia coli O157:H7 Contamination at Aceh Cattle Breeding Centre

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