We report 16 <i>Burkholderia pseudomallei</i> genomes, including 5 new multilocus sequence types, isolated from rivers in Laos. The environmental bacterium <i>B. pseudomallei</i> causes melioidosis, a serious infectious disease in tropical and subtropical regions. The isolates are geographically clustered in one clade from around Vientiane, Laos, and one clade from further south.
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