This paper focus a very representatively marine protected area (MPA), named Nanji Islands National Natural Reserve.
The MPA is built for protecting shellfish, algae and their inhabit environment. The MPA is located at East China Sea
with 7.6 square kilometers land area, composed of about 50 islands greater than 500 square meters. The waters support
particularly high levels of diversity among shellfish, seaweeds, or macro benthic algae and micro-algae. The purpose of
the paper is to develop a GIS to manage the biodiversity and to assess the threat. Base geographic data are collected.
More than four times survey data are collected since 1992, including shellfish and macro benthic algae. A spatial
database is created to store spatial data including base map, survey site and threat factor distribution. Other biodiversity
attribute information is stored in database. Aquiculture, tourism, and human over collection are synthesized as threat
factors. The condition of biodiversity and threats to biodiversity at Aquaculture, tourism, environment pollution are
analyzed and assessed.