Marine integrons containing novel integrase genes, attachment sites, attI, and associated gene cassettes in polluted sediments from Suez and Tokyo Bays

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Show simple item record Elsaied, H Stokes, H Kitamura, K Kurusu, Y Kamagata, Y Maruyama, A 2012-02-02T06:54:16Z 2011-01
dc.identifier.citation ISME Journal, 2011, 5 (7), pp. 1162 - 1177
dc.identifier.issn 1751-7362
dc.identifier.other C1 en_US
dc.description.abstract In order to understand the structure and biological significance of integrons and associated gene cassettes in marine polluted sediments, metagenomic DNAs were extracted from sites at Suez and Tokyo Bays. PCR amplicons containing new integrase genes, intI, linked with novel gene cassettes, were recovered and had sizes from 1.8 to 2.5 kb. This approach uncovered, for the first time, the structure and diversity of both marine integron attachment site, attI, and the first gene cassette, the most efficiently expressed integron-associated gene cassette. The recovered 13 and 20 intI phylotypes, from Suez and Tokyo Bay samples, respectively, showed a highly divergence, suggesting a difference in integron composition between the sampling sites. Some intI phylotypes showed similarity with that from Geobacter metallireducens, belonging to Deltaproteobacteria, the dominant class in both sampling sites, as determined by 16S rRNA gene analysis. Thirty distinct families of putative attI site, as determined by the presence of an attI-like simple site, were recovered. A total of 146 and 68 gene cassettes represented Suez and Tokyo Bay unsaturated cassette pools, respectively. Gene cassettes, including a first cassette, from both sampling sites encoded two novel families of glyoxalase/bleomycin antibiotic-resistance protein. Gene cassettes from Suez Bay encoded proteins similar to haloacid dehalogenases, protein disulfide isomerases and death-oncuring and plasmid maintenance system killer proteins.
dc.publisher Nature Publishing Group
dc.relation.isbasedon 10.1038/ismej.2010.208
dc.title Marine integrons containing novel integrase genes, attachment sites, attI, and associated gene cassettes in polluted sediments from Suez and Tokyo Bays
dc.type Journal Article
dc.parent ISME Journal
dc.journal.volume 7
dc.journal.volume 5
dc.journal.number 7 en_US
dc.publocation United Kingdom en_US
dc.publocation California, US
dc.identifier.startpage 1162 en_US
dc.identifier.endpage 1177 en_US SCI.Institute for Biotechnology of Infectious Diseases en_US
dc.conference Verified OK en_US
dc.conference National Conference of the American Association for Artificial Intelligence
dc.for 0605 Microbiology
dc.for 0602 Ecology
dc.personcode 105741
dc.percentage 50 en_US Ecology en_US
dc.classification.type FOR-08 en_US
dc.edition en_US
dc.custom en_US en_US 2011-08-07
dc.location.activity en_US
dc.location.activity San Francisco, California, US
dc.description.keywords integrons; gene cassettes; metagenome; polluted marine sediment en_US
dc.description.keywords Bagging Predictors, benchmark data-sets, learning algorithms
dc.description.keywords integrons
dc.description.keywords gene cassettes
dc.description.keywords metagenome
dc.description.keywords polluted marine sediment
pubs.embargo.period Not known
pubs.organisational-group /University of Technology Sydney
pubs.organisational-group /University of Technology Sydney/Faculty of Science
utslib.copyright.status Closed Access 2015-04-15 12:17:09.805752+10
utslib.collection.history Uncategorised (ID: 363)
utslib.collection.history Closed (ID: 3)

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