Endospore-enriched sequencing approach reveals unprecedented diversity of Firmicutes in sediments

Environmental Microbiology Reports
Tina WunderlinPilar Junier

Abstract

We present a method for the physical isolation of endospores from environmental samples allowing the specific targeting of endospore-forming bacteria for sequencing (endospore-enriched community). The efficiency of the method was tested on lake sediment samples. After 16S rRNA gene amplicon sequencing, the composition in the endospore-enriched community was compared with the community from untreated control samples (whole community). In the whole community, Firmicutes had a relative abundance of 8% and 19% in the two different lake sediments. In contrast, in the endospore-enriched community, Firmicutes abundance increased to 90.6% and 83.9%, respectively, confirming the efficiency of the endospore enrichment. The relative abundance of other microbial groups that form spore-like resisting states (i.e. actinobacteria, cyanobacteria and myxococcales) was below 2% in the endospore-enriched community, indicating that the method is adapted to true endospores. Representatives from two out of the three known classes of Firmicutes (Bacilli and Clostridia) were detected and supposedly asporogenic groups (e.g. Ethanoligenes and Trichococcus) could be detected. The method presented here is a leap forward for ecological studies of endospore...Continue Reading

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Nov 20, 2013·Environmental Microbiology Reports·Tina WunderlinPilar Junier

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Citations

May 15, 2015·Computational and Structural Biotechnology Journal·Sevasti FilippidouPilar Junier
Apr 23, 2016·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Ravi P More, Hemant J Purohit
Jan 27, 2019·Applied and Environmental Microbiology·Alexander BurkertRachel Mackelprang
Apr 9, 2020·Communications Biology·Marianne EllegaardN John Anderson
Jul 18, 2020·Applied Microbiology and Biotechnology·Ahmad Ashyikin Noor NurulNur Ariffin Asma
Feb 12, 2020·Nature Microbiology·David VanInsbergheMartin F Polz
Sep 14, 2017·Frontiers in Microbiology·Gloria N OkpalaGerrit Voordouw
Dec 3, 2020·Environmental Microbiology·Jayne E RattrayCasey R J Hubert

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