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  • Oxford University Press  (3)
  • GFZ  (1)
  • 2015-2019  (4)
  • 1990-1994
  • 2017
  • 2016  (4)
  • 1
    Publication Date: 2016-01-31
    Description: The inclusion of phylogenetic metrics in community ecology has provided insights into important ecological processes, particularly when combined with high-throughput sequencing methods; however, these approaches have not been widely used in studies of fungal communities relative to other microbial groups. Two obstacles have been considered: (1) the internal transcribed spacer (ITS) region has limited utility for constructing phylogenies and (2) most PCR primers that target the large subunit (LSU) ribosomal unit generate amplicons that exceed current limits of high-throughput sequencing platforms. We designed and tested a PCR primer (LR22R) to target approximately 300–400 bp region of the D2 hypervariable region of the fungal LSU for use with the Illumina MiSeq platform. Both in silico and empirical analyses showed that the LR22R–LR3 pair captured a broad range of fungal taxonomic groups with a small fraction of non-fungal groups. Phylogenetic placement of publically available LSU D2 sequences showed broad agreement with taxonomic classification. Comparisons of the LSU D2 and the ITS2 ribosomal regions from environmental samples and known communities showed similar discriminatory abilities of the two primer sets. Together, these findings show that the LR22R–LR3 primer pair has utility for phylogenetic analyses of fungal communities using high-throughput sequencing methods.
    Print ISSN: 0168-6496
    Electronic ISSN: 1574-6941
    Topics: Biology
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  • 2
    Publication Date: 2016-10-20
    Description: Sialic acid groups of protein N -glycans are important determinants of biological activity. Exposed at the end of the glycan chain, they are potential targets for glycan remodeling. Sialyltransferases (STs; EC 2.4.99) are the enzymes that catalyze the sialic acid transfer from a CMP-activated donor on to a carbohydrate acceptor in vivo. Recombinant expression of the full-length human β-galactoside α2,6 sialyltransferase I (ST6Gal-I) was hampered and therefore variants with truncated N-termini were investigated. We report on the distinct properties of two N-terminally truncated versions of ST6Gal-I, namely 89ST6Gal-I and 108ST6Gal-I, which were successfully expressed in human embryonic kidney cells. The different properties of these enzymes result most probably from the loss of interactions from helix α1 in the 108ST6Gal-I variant, which plays a role in acceptor substrate binding. The K m for N -acetyl- d -lactosamine was 10-fold increased for 108ST6Gal-I (84 mM) as compared to 89ST6Gal-I (8.3 mM). The two enzyme variants constitute a suitable tool box for the terminal modification of N -glycans. While the enzyme 89ST6Gal-I exhibited both ST (di-sialylation) and sialidase activity on a monoclonal antibody, the enzyme 108ST6Gal-I showed only ST activity with specificity for mono-sialylation.
    Print ISSN: 0959-6658
    Electronic ISSN: 1460-2423
    Topics: Biology , Medicine
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  • 3
    Publication Date: 2016-01-18
    Print ISSN: 0260-1230
    Electronic ISSN: 1464-3766
    Topics: Biology
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  • 4
    Publication Date: 2017-01-31
    Description: The South American continent as we know it formed during the break-up of West Gondwana between 150 and 110 million years ago, when the South Atlantic Rift system evolved into the South Atlantic ocean. Using state-of-the-art global tectonic reconstructions in conjunction with numerical and analytical modelling, we investigate the geodynamics of rift systems as they evolve into an ocean basin. We find that rifts initially stretch very slowly along the future splitting zone, but then move apart very quickly before the onset of rupture. In case of the split between South America and Africa, the divergence rate increased from initially 5 to 7 millimetres per year to over 40 millimetres per year within few million years. Intriguingly, abrupt rift acceleration did not only occur during the splitting of West Gondwana, but also during the separation of Australia and Antarctica, North America and Greenland, Africa and South America, in the North Atlantic or the South China Sea. We elucidate the underlying process by reproducing the rapid transition from slow to fast extension using analytical and numerical modelling with constant force boundary conditions. The mechanical models suggest that the two-phase velocity behaviour is caused by a rift-intrinsic strength–velocity feedback similar to a rope that snaps when pulled apart. This mechanism provides an explanation for several previously unexplained rapid absolute plate motion changes, offering new insights into the balance of plate driving forces through time.
    Type: Article , NonPeerReviewed
    Format: text
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