Fossil pollen records from the high Andes of Ecuador and northern Peru show that Alnus increased in abundance at most sites following warming associated with the onset of the Holocene. The peak of Alnus pollen abundance occurred between ∼9000 and 5000 yr BP. However, between 6500 and 4500 yr BP, the abundance of Alnus pollen declined markedly in all of the available records, including sites both within and above its modern distribution range. Even though the beginning of this decline may have been time-transgressive, the greatest reduction of Alnus abundance is consistent between sites, occurring at ca. 4500 yr BP. This synchrony suggests that one or more factors affected Alnus populations across the whole region. A cooler climate, droughts and anthropogenic activity are discussed as possible causes on such a large spatial scale. A scenario is suggested in which the early–mid Holocene increase in Alnus populations was curtailed by droughts, and then further impacted by major regional cooling from ca. 5000 yr BP onwards. Human agricultural activities in this wetter interval may also have delayed Alnus recovery. A resurgence of Alnus populations at 2000–1000 yr BP may have been a response to regional warming coupled with human land management practices. Copyright © 2004 John Wiley & Sons, Ltd.