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W. Ford Doolittle et al.
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Paul B. Rainey et al.
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Sex speeds adaptation by altering the dynamics of molecular evolution
Michael J. McDonald et al.
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Yang Li et al.
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Quantitative evolutionary dynamics using high-resolution lineage tracking
Sasha F. Levy et al.
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Chengwei Luo et al.
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Martial Marbouty et al.
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Matthew S. Fullmer et al.
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Pervasive domestication of defective prophages by bacteria
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Tomas Vetrovsky et al.
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German Bonilla-Rosso et al.
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Nicola Segata et al.
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J. Jeffrey Morris et al.
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Diane Lawrence et al.
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Joshua P. Schimel et al.
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Susse Kirkelund Hansen et al.
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SG Tringe et al.
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W Swenson et al.
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W Swenson et al.
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Lateral gene transfer and the nature of bacterial innovation
H Ochman et al.
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