Structure of the 16 S ribosomal RNA of the thermophilic cyanobacterium <i>chlorogloeopsis</i> HTF (‘<i>mastigocladus laminosus</i> HTF’) strain PCC7518, and phylogenetic analysis

Wilmotte, Annick; Auwera, Gert Van der; Wächter, Rupert De

doi:10.1016/0014-5793(93)81499-p

Cited by 394 publications

(258 citation statements)

References 24 publications

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“…1). Primer 322 is identical to primer 14 of Wilmotte et al (1993) ; primer 323 is primer 17 of Wilmotte et al (1993) and 373 is complementary to it ; primer 340 corresponds to primer 18 of the latter authors with the NotI site and TTT extension omitted.…”

Section: Methodsmentioning

confidence: 99%

Comparison of conserved structural and regulatory domains within divergent 16S rRNA–23S rRNA spacer sequences of cyanobacteria The GenBank accession numbers for the sequences reported in this paper are AF180968 and AF180969 for ITS-L and ITS-S, respectively.

et al. 2000

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PCR amplification of the internal transcribed spacer (ITS) between the 16SrRNA and 23S rRNA genes of the cyanobacterium Nostoc PCC 7120 gave three products. Two represented true ITS regions of different sizes, while the third was a heteroduplex. The longer spacer (ITS-L) contained 512 nucleotides and carried tRNA Ile and tRNA Ala genes, separated by a large stem-loop structure (V2) composed of short tandemly repeated repetitive sequences. Both tRNA genes, and the 5' half of the intervening stem, were absent from the shorter spacer (ITS-S), of length 283 nucleotides, which was otherwise almost completely identical to ITS-L. The two spacer regions of Nostoc PCC 7120 were aligned to published ITS sequences of cyanobacteria, the cyanelle of Cyanophora paradoxa and Escherichia coli. Although the ITS regions of cyanobacteria vary in length from 283 to 545 nucleotides and contain either both tRNA Ile and tRNA Ala genes, only the tRNA Ile gene, or neither, there is no correlation between ITS size and coding capacity for tRNAs. Putative secondary structures were determined for the deduced transcripts of the rrn operons of several cyanobacteria and were compared to that of E. coli. Highly conserved motifs important for folding and for maturation of the rRNA transcripts were identified, and regions homologous to bacterial antiterminators (box B-box A) were located. The conserved and variable regions of the cyanobacterial ITS are potential targets of PCR primers and oligonucleotide probes for detection and identification of cyanobacteria at different taxonomic levels.

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Section: Methodsmentioning

confidence: 99%

Comparison of conserved structural and regulatory domains within divergent 16S rRNA–23S rRNA spacer sequences of cyanobacteria The GenBank accession numbers for the sequences reported in this paper are AF180968 and AF180969 for ITS-L and ITS-S, respectively.

et al. 2000

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“…The validity of a gap between Mastigocladus and unbranched Chlorogloeopsis (KOMÁ-REK and HAUER 2010) was proved also by 16S rRNA analysis (WILMOTTE et al 1993); they also proposed that the ability to produce heterocytes can be lost by mutation. Also, Chlorogloeopsis fritschii is not so homogenous a species, since two different types of germination of akinetes were observed (HINDÁK 2008).…”

Section: Notesmentioning

confidence: 97%

Cyanobacteria of the thermal spring at Pancharevo, Sofia, Bulgaria

Lukavský¹,

Furnadzhieva²,

Пиларски³

2011

Acta Botanica Croatica

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-Eight taxa of cyanobacteria were identified in the thermal spring at Pancharevo (in the Sofia basin, Bulgaria). As well as the widespread Lyngbya thermalis, Phormidesmis molle (syn. Phormidium molle), Phormidium papyraceum, Phormidium corium and Mastigocladus laminosus, four species were identified for the first time in Bulgaria: Calothrix thermalis, Gloeocapsa gelatinosa, Leibleinia epiphytica and Symploca thermalis.

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“…16S rRNA gene libraries of 13 C-enriched DNA 16S rRNA clone libraries, each comprising 96 clones, were prepared from combined fractions containing the 13 C-enriched DNA from each of the three SIP incubations using general eubacterial primers 27f and 1492r and partially sequenced using primer 27f (Wilmotte et al, 1993) at the Beckman Coulter Genomics sequencing facility (Danvers, MA, USA). The 13 C-enriched heavy DNA fractions were selected based on the DGGE evidence, which is discussed below.…”

Section: Sip Incubationsmentioning

confidence: 99%

Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

et al. 2013

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The massive influx of crude oil into the Gulf of Mexico during the Deepwater Horizon (DWH) disaster triggered dramatic microbial community shifts in surface oil slick and deep plume waters. Previous work had shown several taxa, notably DWH Oceanospirillales, Cycloclasticus and Colwellia, were found to be enriched in these waters based on their dominance in conventional clone and pyrosequencing libraries and were thought to have had a significant role in the degradation of the oil. However, this type of community analysis data failed to provide direct evidence on the functional properties, such as hydrocarbon degradation of organisms. Using DNA-based stable-isotope probing with uniformly 13 C-labelled hydrocarbons, we identified several aliphatic (Alcanivorax, Marinobacter)-and polycyclic aromatic hydrocarbon (Alteromonas, Cycloclasticus, Colwellia)-degrading bacteria. We also isolated several strains (Alcanivorax, Alteromonas, Cycloclasticus, Halomonas, Marinobacter and Pseudoalteromonas) with demonstrable hydrocarbon-degrading qualities from surface slick and plume water samples collected during the active phase of the spill. Some of these organisms accounted for the majority of sequence reads representing their respective taxa in a pyrosequencing data set constructed from the same and additional water column samples. Hitherto, Alcanivorax was not identified in any of the previous water column studies analysing the microbial response to the spill and we discuss its failure to respond to the oil. Collectively, our data provide unequivocal evidence on the hydrocarbondegrading qualities for some of the dominant taxa enriched in surface and plume waters during the DWH oil spill, and a more complete understanding of their role in the fate of the oil.

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Structure of the 16 S ribosomal RNA of the thermophilic cyanobacterium chlorogloeopsis HTF (‘mastigocladus laminosus HTF’) strain PCC7518, and phylogenetic analysis

Cited by 394 publications

References 24 publications

Comparison of conserved structural and regulatory domains within divergent 16S rRNA–23S rRNA spacer sequences of cyanobacteria The GenBank accession numbers for the sequences reported in this paper are AF180968 and AF180969 for ITS-L and ITS-S, respectively.

Comparison of conserved structural and regulatory domains within divergent 16S rRNA–23S rRNA spacer sequences of cyanobacteria The GenBank accession numbers for the sequences reported in this paper are AF180968 and AF180969 for ITS-L and ITS-S, respectively.

Cyanobacteria of the thermal spring at Pancharevo, Sofia, Bulgaria

Hydrocarbon-degrading bacteria enriched by the Deepwater Horizon oil spill identified by cultivation and DNA-SIP

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