Comparison of a newly developed binary typing with ribotyping and multilocus sequence typing methods for Clostridium difficile

Li, Zhirong; Zhao, Jianhong; Xu, Kaiyue; Tian, Tiantian; Yang, Jing; Qiang, Cuixin; Shi, Dongquan; Wei, Haiming; Sun, Suzhen; Cui, Qing-qing; Li, Ruxin; Niu, Yanan; Huang, Bixing

doi:10.1016/j.mimet.2018.02.012

Cited by 1 publication

(2 citation statements)

References 21 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…However, these approaches application limited due to long turnaround duration, high cost while poor reproducibility and portability, as well as difficulty in data analysis. Subsequently, advanced technology developing with binary typing [ 14 , 15 ] and single-molecule real-time (SMRT) sequencing [ 16 ]. Recently, high-throughput sequencing genomics has been applied owing to advantages aspect of shorten turnaround duration, simplicity and distinguishability as well as portability [ 15 ].…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Complete genome sequence of the Clostridium difficile LCL126

et al. 2021

View full text Add to dashboard Cite

Clostridium difficile (C. difficile) is a kind of obligate anaerobic gram-positive Bacillus related with intestinal diseases and antibiotic treatment. In present study, the C. difficile genome was studied employing met genomic technology. Genome sequencing identified C. difficile LCL126 has total size of 4,301,949 bp with a 27.97% of GC content. Specifically, 4119 predicted coding genes, 188 repeat sequences, 13 prophages and 8 gene islands were detected. Additionally, gene function analysis aspect of the function annotation, effector, and virulence were concluded that total of 3367 cluster of orthologous groups of proteins genes and classified into 24 categories, while the most outstanding class was metabolic process (1533) and catalytic activity (1498). The carbohydrate-active enzymes have been detected 127 genes, pathogenicity analysis revealed that 133 reduced and 22 increased virulence (hypervirulence) genes, while 54 unaffected and 10 loss of pathogenicity genes were found. Furthermore, perform the visualization and methylation expression were revealed that the dominant types comprised m4C, m5C, and m6C with the number of 6989, 36,666, and 3534, respectively. Overall, whole genome sequence information of C. difficile LCL126 was obtained and functional prediction was revealed its possible toxicological potential genes existence.

show abstract

Section: Introductionmentioning

confidence: 99%

“…Subsequently, advanced technology developing with binary typing [ 14 , 15 ] and single-molecule real-time (SMRT) sequencing [ 16 ]. Recently, high-throughput sequencing genomics has been applied owing to advantages aspect of shorten turnaround duration, simplicity and distinguishability as well as portability [ 15 ].…”

Section: Introductionmentioning

confidence: 99%