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Showing results for: [ Microbial Ecology ]
An in-house amplicon clustering and classification pipeline built around tools from USEARCH and RDP. It handles both 16S and 18S rDNA sequence data, and can be customised to use other reference sets a... morend marker genes.less
Onshore Gas_General Prog Operations - - Published 01 Nov 2017
Outdoor freshwater mesocosms spiked with varying concentrations of copper were sampled in order to profile microbial communities. Samples collected include water, sediment and cellulose baits. DNA was... more extracted from all sample types. In addition to this, RNA was extracted from sediment samples and reverse transcribed to get cDNA. The v4 region of the 16S ribosomal RNA gene was amplified using Earth Microbiome primers 515F and 806R.
The 16S rRNA gene amplicons were sequenced on the Illumina MiSeq platform with 250 base pair-end reads. Forward and reverse read alignments, quality filtering, chimera checking and OTU clustering were performed using USEARCH v9.
OTU sequences were submitted to GenBank, however, 130 were found to be too novel for submission and thus are made available here.less
Legacy data - Microbial community survey - Published 10 Oct 2017
Draft genome assemblies of 380 Bradyrhizobium isolates collected from soil samples at the base of Acacia acuminata trees in Southwest Australia
Biodiversity Eco Know & Serv - Awards & - Survey of rhizobia in soils of South-West Australia - Published 03 Mar 2017
454 16S and 18S amplicon data associated with the manuscript "Comparison of biofilm ecology supporting growth of individual Naegleria species in a drinking water distribution system."
1006.12 74718 Biofilm, Naegleria and amo - Aquatic Ecology Ecogenomics - Published 30 Jan 2017
454 reads and metadata for Fungal ITS and Bacterial 16S from the Wog Wog Habitat Fragmentation Experiment collected in Spring of 2011.
Legacy data - Soil Biodiversity Survey - Published 06 Jul 2014
Genomic information for Bacillus pumilus 'Fairview' including: all contigs Velvet split by base pair size.
1218.1 MECSM Phase 2 - Survey of microbiology in coal seam gas reservoirs - Published 10 Mar 2014
Genomic information for Cairneyella variabilis including:
- All protein calls from AUGUSTUS 2.6.1 (generated 24-10-2013)
- cdsexons calls from AUGUSTUS 2.6.1 (generated 24-10-2013)
- coding sequence ... morecalls for proteins from AUGUSTUS 2.6.1 (generated 24-10-2013)
- all contigs less than 1000 bp from Velvet
- all proteins with signal peptides from SignalP
- mitochondrial genome
Legacy data - Fungal genomics - Published 18 Sep 2014
The Wildlife Parasite and Pathology Collection is a biodiversity resource backing up nearly 40 years of research into the biology and taxonomy of Australian native and introduced parasites and the bio... morelogy and pathology of their hosts.
The Collection currently holds 9,228 irreplaceable specimens of 1074 parasite species, covering 94 families in 13 orders, from 7,358 individual postmortems on 579 host species. The collection documents 24,110 individual host-parasite associations, representing 3,307 unique associations between a given parasite species and a given host species.
The Collection focuses on the parasites of the terrestrial vertebrates of Australia and Papua New Guinea and rodents of South-East Asia. There are also specimens from other parts of the world.less
Australian National Wildlife Collection - Biological Specimen Collections - Published 24 Jan 2013