Evidence from GC-TRFLP that Bacterial Communities in Soil Are Lognormally DistributedReport as inadecuate

Evidence from GC-TRFLP that Bacterial Communities in Soil Are Lognormally Distributed - Download this document for free, or read online. Document in PDF available to download.

The Species Abundance Distribution SAD is a fundamental property of ecological communities and the form and formation of SADs have been examined for a wide range of communities including those of microorganisms. Progress in understanding microbial SADs, however, has been limited by the remarkable diversity and vast size of microbial communities. As a result, few microbial systems have been sampled with sufficient depth to generate reliable estimates of the community SAD. We have used a novel approach to characterize the SAD of bacterial communities by coupling genomic DNA fractionation with analysis of terminal restriction fragment length polymorphisms GC-TRFLP. Examination of a soil microbial community through GC-TRFLP revealed 731 bacterial operational taxonomic units OTUs that followed a lognormal distribution. To recover the same 731 OTUs through analysis of DNA sequence data is estimated to require analysis of 86,264 16S rRNA sequences. The approach is examined and validated through construction and analysis of simulated microbial communities in silico. Additional simulations performed to assess the potential effects of PCR bias show that biased amplification can cause a community whose distribution follows a power-law function to appear lognormally distributed. We also show that TRFLP analysis, in contrast to GC-TRFLP, is not able to effectively distinguish between competing SAD models. Our analysis supports use of the lognormal as the null distribution for studying the SAD of bacterial communities as for plant and animal communities.

Author: James R. Doroghazi, Daniel H. Buckley

Source: http://plos.srce.hr/


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