Bioremediation is regarded as one of the most promising methods for the remediation of the soil and groundwater contaminated with organic compounds, mainly due to its cost-effectiveness and environmental friendliness. Using VOSviewer and CiteSpace, we analyzed all publications in this area in core database of Web of Science from 1990 to 2020. The number of publications in this area showed an increasing trend worldwide. The country with the largest total number of publications was USA, followed by China and India. Since 2012, the number of annual publications of China exceeded USA and ranked the first. The top three journals which published papers in this area were Chemosphere, Environmental Science & Technology, and Science of the Total Environment. The Chinese Academy of Sciences published the largest number of papers among the research institutions globally, but the University of California in USA had the highest total citations and h-index. Bibliometric analysis indicated that it is important to develop biotechnologies of bioremediation coupled with chemical/physical remediation to overcome the challenge of low efficiency and long remediation duration associated with bioremediation. In addition, the bioremediation on the mixed contaminants, such as organic contaminants and heavy metals, or mixtures of different organic contaminants, is an important direction. Finally, the rapid development of microbiome technologies will further promote the exploration of mechanisms involved in bioremediation on the genetic and molecular level.