is tropical rainy with an annual mean precipitation of 3.207 mm (EMBRAPA 2012). January to March (austral summer) is the highest rainfall period and July to August (winter) the least, not experiencing a real dry season. The average temperature is 24.8°C, the warmest month (February) 28.3°C and coldest month (July) 20.7°C (EMBRAPA, 2012). The Cubatão River is located in the "Baixada Santista" region, being approximately 35 km long. It occupies an area of 175.55 km 2 and has a stream flow long-term average of 8.09 m 3 /s (CETEC 2000); it is inserted in the Serra do Mar State Park (Parque Estadual da Serra do Mar-PESM), Itutinga-Pilões center. For this study we selected eight sampling sites, five in tributaries, three from the left bank (1, 2 and 3), two from the right bank (4 and 8) and three in the Cubatão River main stem (5, 6 and 7) (Figure 1). The geographical coordinates are shown in Table 1. The sites 1, 2 and 3 have waterfalls and present rocky bottom, with dense vegetation cover. The site 4 has sandy bottom, with a predominance of low vegetation on the shore and lentic waters. The site 5 and 6 had substrate composed primarily of gravel and boulders, moderately fast water and riparian low vegetation. Site 7, is formed by a rapid, with rocky bottom and dense vegetation around preserved. Finally, section 8 is located inside a pineapple plantation, with few marginal vegetation, moderately fast water and bottom composed of sand and gravel. Data collection Two samplings were done, one in the rainy season (January 2011) and another in the dry season (July 2011). Authorization for the collections were issued by the Instituto Florestal-Secretaria do Meio Ambiente do Estado de São Paulo (license #260108-010.534/260108-010.525/260108-010.517). Fishes were captured by electrofishing using a SAMUS 725M electric shock device