Genomic Islands in the<i>Corynebacterium efficiens</i>Genome

Zhang, Ren; Zhang, Chun‐Ting

doi:10.1128/aem.71.6.3126-3130.2005

Cited by 21 publications

(17 citation statements)

References 17 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Previous work indicated that genomic island contains cluster of horizontally transferred genes (Zhang and Zhang, 2005). In present study, five genomic islands were detected in the genome of S. pomeroyi DSS-3 (Fig.…”

Section: Evolutionary Analysis and General Conclusionmentioning

confidence: 55%

Genomic analysis of the aromatic catabolic pathways fromSilicibacter pomeroyi DSS-3

2009

View full text Add to dashboard Cite

Genomic analysis of the catabolic potentialities of Silicibacter pomeroyi DSS-3 against a wide range of natural aromatic compounds and sequence comparisons with the entire genome of this microorganism predicted the existence of at least seven main pathways for the conversion of the aromatic compounds to the intermediates which enter into TCA cycle, that is, the catechol (cat I and cat II genes) and protocatechuate (pca genes) branches of the β-ketoadipate pathway, the phenylacetate pathway (paa genes), the gentisate pathway (gtd genes), the homogentisate pathway (hmg/hppD genes), as well as the homoprotocatechuate pathway (hpc genes). Furthermore, the genes encoding those enzymes involved in the peripheral pathways leading to the β-ketoadipate central pathway were also mapped, i.e., 4-hydroxybenzoate (pob), benzoate (ben), quinate (qui), phenylpropenoid compounds (fcs, ech, vdh, cal, van, acd and act), tyrosine (hpp) and n-phenylalkanoic acids (fad). Evidences showed that S. pomeroyi DSS-3 have versatile abilities to the catabolism of aromatic compounds either in anaerobic or in aerobic pathway, suggesting such a strain might be a model of heuristic value for the study of the genomic organization, the evolution of genes, as well as the catalytic or transcriptional mechanisms of enzymes for aromatic degradation in marine bacteria. Further, it would provide new insights into the biodegradation of aromatic compounds in marine bacteria and marine environments.

show abstract

Section: Evolutionary Analysis and General Conclusionmentioning

confidence: 55%

Genomic analysis of the aromatic catabolic pathways fromSilicibacter pomeroyi DSS-3

2009

View full text Add to dashboard Cite

show abstract

“…Moreover, none was found in PcaCP, PaeCP and CphCP. When looking at integrase and transposase encoding sequences, we found that DaCP sequence is very close (b 1000 bp) to a transposase and an integrase, and is preceded by a tRNA synthetase, commonly found next to transposable elements (Klockgether et al, 2004;Zhang and Zhang, 2005). Inverted repeats were also detected, suggesting that CP can be transmitted also through transposition.…”

Section: Lateral Gene Transfer Among Prokaryotesmentioning

confidence: 91%

Phylogenetic distribution of catalase-peroxidases: Are there patches of order in chaos?

Passardi

Zámocký

Favet

et al. 2007

Gene

View full text Add to dashboard Cite

“…Both genomic islands are flanked at one end by ISs. Genomic island CEGI-3 (40.4 kb) is flanked by a 26-bp direct repeat element and encodes an integrase at the 5Ј junction (494). Seven of the 50 predicted genes of CEGI-3 encode proteins similar to late proteins of the lytic bacteriophage BFK20 (52).…”

Section: Prophage-like Elements In the C Glutamicum Genomementioning

confidence: 99%

Genomics ofActinobacteria: Tracing the Evolutionary History of an Ancient Phylum

Ventura

Canchaya

Tauch

et al. 2007

Microbiol Mol Biol Rev

946

638

View full text Add to dashboard Cite

SUMMARY Actinobacteria constitute one of the largest phyla among Bacteria and represent gram-positive bacteria with a high G+C content in their DNA. This bacterial group includes microorganisms exhibiting a wide spectrum of morphologies, from coccoid to fragmenting hyphal forms, as well as possessing highly variable physiological and metabolic properties. Furthermore, Actinobacteria members have adopted different lifestyles, and can be pathogens (e.g., Corynebacterium, Mycobacterium, Nocardia, Tropheryma, and Propionibacterium), soil inhabitants (Streptomyces), plant commensals (Leifsonia), or gastrointestinal commensals (Bifidobacterium). The divergence of Actinobacteria from other bacteria is ancient, making it impossible to identify the phylogenetically closest bacterial group to Actinobacteria. Genome sequence analysis has revolutionized every aspect of bacterial biology by enhancing the understanding of the genetics, physiology, and evolutionary development of bacteria. Various actinobacterial genomes have been sequenced, revealing a wide genomic heterogeneity probably as a reflection of their biodiversity. This review provides an account of the recent explosion of actinobacterial genomics data and an attempt to place this in a biological and evolutionary context.

show abstract

Genomic Islands in theCorynebacterium efficiensGenome

Cited by 21 publications

References 17 publications

Genomic analysis of the aromatic catabolic pathways fromSilicibacter pomeroyi DSS-3

Genomic analysis of the aromatic catabolic pathways fromSilicibacter pomeroyi DSS-3

Phylogenetic distribution of catalase-peroxidases: Are there patches of order in chaos?

Genomics ofActinobacteria: Tracing the Evolutionary History of an Ancient Phylum

Contact Info

Product

Resources

About