Abstract: By analyzing the published papers on JORUNAL OF FISHERIES OF CHINA and JOURNAL OF FISHERY SCIENCES OF CHINA, which are two important academic journals in fishery science in China with high influence, we classified the papers according to different subjects and compared them in terms of paper numbers, and discussed the hot-topic subjects based on the results. The results showed that there were total 1186 papers published on the two journals from 2002 to 2006, among which the papers in the subject of genetic breeding in aquaculture organisms had the highest number, which was 290, making up 24.5% of the total paper numbers. In fact, this subject has been being the hot topic during recent years, and the research papers have been published not only in China but also in some international journals. But for the subject of fishery environment and ecology, the authors had more journals to contribute, so the situation reflected from the two journals may not be general. Anyway, the results of this study can reflect the comparative advantage and disadvantage among the different subjects in fishery science, and the purpose of this study is to provide a reference for the academic journal editors to select their candidate papers and for the researchers to project their researches.