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SRX171379: Mesorhizobia loti s_3_TAGCTT
1 ILLUMINA (Illumina Genome Analyzer II) run: 2M spots, 310.6M bases, 184.8Mb downloads

Submitted by: UNIVERSITY OF SOUTHERN CALIFORNIA
Study: Association mapping reveals novel serpentine adaptation gene clusters in a population of symbiotic Mesorhizobium
show Abstracthide Abstract
The genetic variants that underlie microbial environmental adaptation are key components of models of microbial diversification. Characterizing adaptive variants and the pangenomic context in which they evolve remains a frontier in understanding how microbial diversity is generated. The genomics of rhizobium adaptation to contrasting soil environments is ecologically and agriculturally important because these bacteria are responsible for half of all current biologically fixed nitrogen, yet they live the majority of their lives in soil. Our study uses whole-genome sequencing to describe the pan-genome of a focal clade of wild mesorhizobia that show contrasting levels of nickel adaptation despite high relatedness (99.8% identity at 16S). We observe ecotypic specialization within an otherwise genomically cohesive population, rather than finding distinct specialized bacterial lineages in contrasting soil types. This finding supports recent reports that heterogeneous environments impose selection that maintains differentiation only at a small fraction of the genome. Our work further uses a genome-wide association study to propose candidate genes for nickel adaptation. Several candidates show homology to genetic systems involved in nickel tolerance and one cluster of candidates correlates perfectly with soil origin, which validates our approach of ascribing genomic variation to adaptive divergence.
Sample: Mesorhizobia loti s_3_TAGCTT
SAMN01095839 • SRS352166 • All experiments • All runs
Library:
Name: Mesorhizobia loti s_3_TAGCTT
Instrument: Illumina Genome Analyzer II
Strategy: WGS
Source: GENOMIC
Selection: unspecified
Layout: PAIRED
Spot descriptor:
forward77  reverse

Runs: 1 run, 2M spots, 310.6M bases, 184.8Mb
Run# of Spots# of BasesSizePublished
SRR5285922,043,371310.6M184.8Mb2016-04-20

ID:
213046

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