The atolls of the Chagos Archipelago occupy a key location in the central I
ndian Ocean, in biogeographical terms. They are remote and largely uninhabi
ted, and its reefs have almost completely escaped most forms of direct huma
n impact. Despite this, there has been a marked decline in their coral cove
r over the last 20 years. In particular, live coral cover fell markedly fol
lowing the warm sea-water episode of 1998, such that on seaward reefs of al
l six Chagos atolls, only 12% of the substrate is now living coral compared
with 50-75% before the warming event. On seaward reefs, 40% of the substra
te is now covered by dead coral, and another 40% by unidentifiable dead cor
al and bare substrate. Lagoonal reefs fared better than seaward reefs, but
still lost half of their corals over the last year. All reefs now have larg
e quantities of mobile, dead coral fragments which may inhibit new recruitm
ent and growth. Weather data have been recorded in Chagos since 1973. Stati
stically significant trends include a 1 degrees C rise in mean air temperat
ure over 25 years, and a 2 degrees C rise in the warmest 95 percentile temp
erature. At the same time there has been a fall in mean annual pressure, a
reduction in cloud cover, and winds have become more variable. Fourier anal
ysis of temperature data shows several cycles of 2 years or longer, which w
hen combined indicate a greater climate variability today compared with 25
years ago. Periods of higher temperatures coincide with several previous El
Nino events and other climatic records of warming. Although the latest war
ming of 1998 is responsible for the recent mass coral mortality, it is seen
to be a severe continuation of a longer trend, which if continued leads to
a poor prognosis for rapid recovery.