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Open AccessArticle

Obtaining Genome Sequences of Mutualistic Bacteria in Single Microcystis Colonies

1
State Key Lab of Bioelectronics, School of Biological Science and Medical Engineering, Southeast University, Nanjing 210096, China
2
Wuxi Environmental Monitoring Center, Wuxi 210096, China
*
Authors to whom correspondence should be addressed.
Int. J. Mol. Sci. 2019, 20(20), 5047; https://doi.org/10.3390/ijms20205047
Received: 22 September 2019 / Revised: 9 October 2019 / Accepted: 10 October 2019 / Published: 11 October 2019
(This article belongs to the Section Molecular Microbiology)
Cells of Microcystis are associated with heterotrophic bacteria and organized in colonies in natural environment, which are basic elements in the mass occurrence of cyanobacterial species. Analyzing these colonies by using metagenomics is helpful to understand species composition and relationship. Meanwhile, the difference in population abundance among Microcystis colonies could be used to recover genome bins from metagenome assemblies. Herein, we designed a pipeline to obtain high-quality genomes of mutualistic bacteria from single natural Microcystis colonies. Single colonies were lysed, and then amplified by using multiple displacement amplification to overcome the DNA quantity limit. A two-step assembly was performed after sequencing and scaffolds were grouped into putative bins based on their differential-coverage among species. We analyzed six natural colonies of three prevailing Microcystis species from Lake Taihu. Clustering results proved that colonies of the same species were similar in the microbial community composition. Eight putative population genome bins with wide bacterial diversity and different GC content were identified based on coverage difference among colonies. At the phylum level, proteobacteria was the most abundant besides cyanobacteria. Six of the population bins were further refined into nearly complete genomes (completeness > 90%). View Full-Text
Keywords: cyanobacterial blooms; Microcystis; metagenomics; single Microcystis colony; mutualistic bacteria cyanobacterial blooms; Microcystis; metagenomics; single Microcystis colony; mutualistic bacteria
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MDPI and ACS Style

Tu, J.; Chen, L.; Gao, S.; Zhang, J.; Bi, C.; Tao, Y.; Lu, N.; Lu, Z. Obtaining Genome Sequences of Mutualistic Bacteria in Single Microcystis Colonies. Int. J. Mol. Sci. 2019, 20, 5047.

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