scholarly journals Whole Genome Comparison of Campylobacter jejuni Human Isolates Using a Low-Cost Microarray Reveals Extensive Genetic Diversity

2001 ◽  
Vol 11 (10) ◽  
pp. 1706-1715 ◽  
Author(s):  
N. Dorrell
Keyword(s):  
Genetic Diversity ◽  
Campylobacter Jejuni ◽  
Low Cost ◽  
Genome Comparison ◽  
Whole Genome ◽  
Whole Genome Comparison

scholarly journals Author response: Whole genome comparison of a large collection of mycobacteriophages reveals a continuum of phage genetic diversity

2015 ◽  
Author(s):  
Welkin H Pope ◽  
Charles A Bowman ◽  
Daniel A Russell ◽  
Deborah Jacobs-Sera ◽  
David J Asai ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Author Response ◽  
Genome Comparison ◽  
Whole Genome ◽  
Large Collection ◽  
Whole Genome Comparison

scholarly journals Whole-Genome Comparison of Two Campylobacter jejuni Isolates of the Same Sequence Type Reveals Multiple Loci of Different Ancestral Lineage

PLoS ONE ◽  
2011 ◽  
Vol 6 (11) ◽  
pp. e27121 ◽  
Author(s):  
Patrick J. Biggs ◽  
Paul Fearnhead ◽  
Grant Hotter ◽  
Vathsala Mohan ◽  
Julie Collins-Emerson ◽  
...  
Keyword(s):  
Campylobacter Jejuni ◽  
Sequence Type ◽  
Genome Comparison ◽  
Whole Genome ◽  
Multiple Loci ◽  
Ancestral Lineage ◽  
Whole Genome Comparison

scholarly journals Comparative Genomics and Specific Functional Characteristics Analysis of Lactobacillus acidophilus

2021 ◽  
Vol 9 (9) ◽  
pp. 1992
Author(s):  
Zheng Huang ◽  
Xingya Zhou ◽  
Catherine Stanton ◽  
Reynolds Paul Ross ◽  
Jianxin Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Analysis ◽  
Lactobacillus Acidophilus ◽  
Genome Comparison ◽  
Fermented Foods ◽  
Whole Genome ◽  
Human Gastrointestinal Tract ◽  
Characteristics Analysis ◽  
Whole Genome Comparison ◽  
The Difference

Lactobacillus acidophilus is a common kind of lactic acid bacteria usually found in the human gastrointestinal tract, oral cavity, vagina, and various fermented foods. At present, many studies have focused on the probiotic function and industrial application of L. acidophilus. Additionally, dozens of L. acidophilus strains have been genome sequenced, but there has been no research to compare them at the genomic level. In this study, 46 strains of L. acidophilus were performed comparative analyses to explore their genetic diversity. The results showed that all the L. acidophilus strains were divided into two clusters based on ANI values, phylogenetic analysis and whole genome comparison, due to the difference of their predicted gene composition of bacteriocin operon, CRISPR-Cas systems and prophages mainly. Additionally, L. acidophilus was a pan-genome open species with a difference in carbohydrates utilization, antibiotic resistance, EPS operon, surface layer protein operon and other functional gene composition. This work provides a better understanding of L. acidophilus from a genetic perspective, and offers a frame for the biotechnological potentiality of this species.

scholarly journals Whole genome-based characterisation of antimicrobial resistance and genetic diversity in Campylobacter jejuni and Campylobacter coli from ruminants

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Medelin Ocejo ◽  
Beatriz Oporto ◽  
José Luis Lavín ◽  
Ana Hurtado
Keyword(s):  
Genetic Diversity ◽  
Antimicrobial Resistance ◽  
Campylobacter Jejuni ◽  
Resistance Genes ◽  
Campylobacter Coli ◽  
Whole Genome ◽  
Northern Spain ◽  
Sequence Alignments ◽  
Phenotypic Data ◽  
Wide Range

AbstractCampylobacter, a leading cause of gastroenteritis in humans, asymptomatically colonises the intestinal tract of a wide range of animals.Although antimicrobial treatment is restricted to severe cases, the increase of antimicrobial resistance (AMR) is a concern. Considering the significant contribution of ruminants as reservoirs of resistant Campylobacter, Illumina whole-genome sequencing was used to characterise the mechanisms of AMR in Campylobacter jejuni and Campylobacter coli recovered from beef cattle, dairy cattle, and sheep in northern Spain. Genome analysis showed extensive genetic diversity that clearly separated both species. Resistance genotypes were identified by screening assembled sequences with BLASTn and ABRicate, and additional sequence alignments were performed to search for frameshift mutations and gene modifications. A high correlation was observed between phenotypic resistance to a given antimicrobial and the presence of the corresponding known resistance genes. Detailed sequence analysis allowed us to detect the recently described mosaic tet(O/M/O) gene in one C. coli, describe possible new alleles of blaOXA-61-like genes, and decipher the genetic context of aminoglycoside resistance genes, as well as the plasmid/chromosomal location of the different AMR genes and their implication for resistance spread. Updated resistance gene databases and detailed analysis of the matched open reading frames are needed to avoid errors when using WGS-based analysis pipelines for AMR detection in the absence of phenotypic data.

scholarly journals Whole genome comparison of donor and cloned dogs

2013 ◽  
Vol 3 (1) ◽  
Author(s):  
Hak-Min Kim ◽  
Yun Sung Cho ◽  
Hyunmin Kim ◽  
Sungwoong Jho ◽  
Bongjun Son ◽  
...  
Keyword(s):  
Genome Comparison ◽  
Whole Genome ◽  
Whole Genome Comparison
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