Genomic Features and Pervasive Negative Selection in <i>Rhodanobacter</i> Strains Isolated from Nitrate and Heavy Metal Contaminated Aquifer
Mugen Peng, Dongyu Wang, Lauren Michelle Lui, Torben Nielsen, Renmao Tian, Megan L. Kempher, Xuanyu Tao, Chongle Pan, Romy Chakraborty, Adam M. Deutschbauer, Michael P. Thorgersen, Michael W. W. Adams, Matthew W. Fields, Terry C. Hazen, Adam P. Arkin, Aifen Zhou, Jizhong Zhou
Abstract
strains. Comparison of the whole genomes demonstrated the genetic diversity, and analysis of the long nanopore reads revealed the heterogeneity of methylation patterns in strains isolated from the same well. Although all strains contained a complete set of denitrifying genes, the predicted tertiary structures of NosZ differed. The sequence comparison results demonstrate the important roles of horizontal gene transfer and negative selection in adaptation. In addition, these strains may be recalcitrant to genetic manipulation due to the complex restriction-modification systems and methylations.