Dataset

Draft genome assemblies of 380 rhizobia isolates (Bradyrhizobia) from Southwestern Australia

Commonwealth Scientific and Industrial Research Organisation
Simonsen, Anna ; Prober, Suzanne ; Barrett, Luke ; Edwards, Owain ; Thrall, Pete
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ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=http://hdl.handle.net/102.100.100/44182?index=1&rft.title=Draft genome assemblies of 380 rhizobia isolates (Bradyrhizobia) from Southwestern Australia&rft.identifier=csiro:21762&rft.publisher=Commonwealth Scientific and Industrial Research Organisation (CSIRO)&rft.description=Draft genome assemblies of 380 Bradyrhizobium isolates collected from soil samples at the base of Acacia acuminata trees in Southwest AustraliaSoil samples were collected across 20 sites in Southwest Australia at the base of Acacia acuminata trees. Acacia acuminata seedlings were grown in the soil under glasshouse conditions in order to trap rhizobia in seedling root nodules. Rhizobia cells were first cultured from Acacia nodules on yeast-mannitol agar media plates. DNA was extracted from cell cultures and the DNA was used to create 380 indexed paired-end 150bp Illumina libraries. Illumina libraries were sequenced on two Illumina2000 lanes. Sequence data from each sequencing lane were separated into individual sequence sample files. Poor quality reads were removed from each sample sequence file using Trmmomatic. Reads from each sample were assembled in SPades using settings at k=33,55,77. Contigs within each draft assembly with a coverage lower than 5 and 200 base pairs were removed from each draft assembly.&rft.creator=Simonsen, Anna &rft.creator=Prober, Suzanne &rft.creator=Barrett, Luke &rft.creator=Edwards, Owain &rft.creator=Thrall, Pete &rft.date=2017&rft.edition=v1&rft.coverage=northlimit=-27.5656; southlimit=-34.4072; westlimit=114.6203; eastLimit=121.6273; projection=WGS84&rft_rights=All Rights (including copyright) CSIRO 2017.&rft_rights=Creative Commons Attribution https://creativecommons.org/licenses/by/4.0/&rft_subject=Bradyrhizobium, rhizobia, genome, symbiont, soil, bacteria, Acacia, legume&rft_subject=Genomics&rft_subject=BIOLOGICAL SCIENCES&rft_subject=GENETICS&rft_subject=Microbial Ecology&rft_subject=MICROBIOLOGY&rft_subject=Microbial Genetics&rft.type=dataset&rft.language=English Access the data

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Creative Commons Attribution
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All Rights (including copyright) CSIRO 2017.

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Brief description

Draft genome assemblies of 380 Bradyrhizobium isolates collected from soil samples at the base of Acacia acuminata trees in Southwest Australia

Lineage

Soil samples were collected across 20 sites in Southwest Australia at the base of Acacia acuminata trees. Acacia acuminata seedlings were grown in the soil under glasshouse conditions in order to trap rhizobia in seedling root nodules. Rhizobia cells were first cultured from Acacia nodules on yeast-mannitol agar media plates. DNA was extracted from cell cultures and the DNA was used to create 380 indexed paired-end 150bp Illumina libraries. Illumina libraries were sequenced on two Illumina2000 lanes. Sequence data from each sequencing lane were separated into individual sequence sample files. Poor quality reads were removed from each sample sequence file using Trmmomatic. Reads from each sample were assembled in SPades using settings at k=33,55,77. Contigs within each draft assembly with a coverage lower than 5 and 200 base pairs were removed from each draft assembly.

Data time period: 2016-08-01 to 2017-09-30

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121.6273,-27.5656 121.6273,-34.4072 114.6203,-34.4072 114.6203,-27.5656 121.6273,-27.5656

118.1238,-30.9864

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Identifiers
  • Local : 102.100.100/44182