a b s t r a c tCoffea arabica shrubs are indigenous to the understorey of the moist evergreen montane rainforest of Ethiopia. Semi-forest coffee is harvested from semi-wild plants in forest fragments where farmers thin the upper canopy and annually slash the undergrowth. This traditional method of coffee cultivation is a driver for preservation of indigenous forest cover, differing from other forms of agriculture and land use which tend to reduce forest cover. Because coffee farmers are primarily interested in optimizing coffee productivity, understanding how coffee yield is maximized is necessary to evaluate how, and to what extent, coffee production can be compatible with forest conservation.Abiotic variables and biotic variables of the canopy were recorded in 26 plots within 20 forest fragments managed as semi-forest coffee systems near Jimma, SW Ethiopia. In each plot, coffee shrub characteristics and coffee yield were recorded for four coffee shrubs. Cluster and indicator species analyses were used to differentiate plant communities of shade trees. A multilevel linear mixed model approach was then used to evaluate the effect of abiotic soil variables, shade tree plant community, canopy and stand variables, coffee density and coffee shrub size variables on coffee yield.Climax species of the rainforest were underrepresented in the canopy. There were three impoverished shade tree communities, which differed in tree species composition but did not exhibit significant differences in abiotic soil variables, and did not directly influence coffee yield. Coffee yield was primarily determined by coffee shrub branchiness and basal diameter. At the stand level a reduced crown closure increased coffee yield. Yield was highest for coffee shrubs in stands with crown closure less than median (49 ± 1%). All stands showed a reduced number of stems and a lower canopy compared to values reported for undisturbed moist evergreen montane rainforests.Traditional coffee cultivation is associated to low tree species diversity and simplified forest structure: few stems, low canopy height and low crown closure. Despite intensive human interference some of the climax species are still present and may escape local extinction if they are tolerated and allowed to regenerate. The restoration of healthy populations of climax species is critical to preserve the biodiversity, regeneration capacity, vitality and ecosystem functions of the Ethiopian coffee forests.

The montane rainforests of SW Ethiopia are the primary centre of diversity of Coffea arabica and the origin of all Arabica coffee cultivated worldwide. This wild gene pool is potentially threatened by forest fragmentation and degradation, and by introgressive hybridization with locally improved coffee varieties. We genotyped 703 coffee shrubs from unmanaged and managed coffee populations, using 24 microsatellite loci. Additionally, we genotyped 90 individuals representing 23 Ethiopian cultivars resistant to coffee berry disease (CBD). We determined population genetic diversity, genetic structure, and admixture of cultivar alleles in the in situ gene pool. We found strong genetic differentiation between managed and unmanaged coffee populations, but without significant differences in within-population genetic diversity. The widespread planting of coffee seedlings including CBD-resistant cultivars most likely offsets losses of genetic variation attributable to genetic drift and inbreeding. Mixing cultivars with original coffee genotypes, however, leaves ample opportunity for hybridization and replacement of the original coffee gene pool, which already shows signs of admixture. In situ conservation of the wild gene pool of C. arabica must therefore focus on limiting coffee production in the remaining wild populations, as intensification threatens the genetic integrity of the gene pool by exposing wild genotypes to cultivars.

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