Anthropogenic disturbance driving population decline of a dominant tree in East Asia evergreen broadleaved forests over the last 11,000 years

Current biodiversity loss is generally considered to have been caused by anthropogenic disturbance, but it is unclear when anthropogenic activities began to affect biodiversity loss. One hypothesis suggests it began with the Industrial Revolution, whereas others propose that anthropogenic disturbance has been associated with biodiversity decline since the early Holocene. To test these hypotheses, we examined the unique vegetation of evergreen broadleaved forests (EBLFs) in East Asia, where humans have affected landscapes since the early Holocene. We adopted a genomic approach to infer the demographic history of a dominant tree (Litsea elongata) of EBLFs. We used Holocene temperature and anthropogenic disturbance factors to calculate the correlation between these variables and the historical effective population size of L. elongata with Spearman statistics and integrated the maximum-entropy niche model to determine the impact of climate change and anthropogenic disturbance on fluctuation in its effective population size. We identified 9 well-defined geographic clades for the populations of L. elongata. Based on the estimated historical population sizes of these clades, all the populations contracted, indicating persistent population decline over the last 11,000 years. Demographic history of L. elongata and human population change, change in cropland use, and change in irrigated rice area were significantly negatively correlated, whereas climate change in the Holocene was not correlated with demographic history. Our results support the early human impact hypothesis and provide comprehensive evidence that early anthropogenic disturbance may contribute to the current biodiversity crisis in East Asia.

Phylogenomic insights into the origin and evolutionary history of evergreen broadleaved forests in East Asia under Cenozoic climate change

The evergreen versus deciduous leaf habit is an important functional trait for adaptation of forest trees and has been hypothesized to be related to the evolutionary processes of the component species under paleoclimatic change, and potentially reflected in the dynamic history of evergreen broadleaved forests (EBLFs) in East Asia. However, knowledge about the shift of evergreen versus deciduous leaf with the impact of paleoclimatic change using genomic data remains rare. Here, we focus on the Litsea complex (Lauraceae), a key lineage with dominant species of EBLFs, to gain insights into how evergreen versus deciduous trait shifted, providing insights into the origin and historical dynamics of EBLFs in East Asia under Cenozoic climate change. We reconstructed a robust phylogeny of the Litsea complex using genome-wide single-nucleotide variants (SNVs) with eight clades resolved. Fossil-calibrated analyses, diversification rate shifts, ancestral habit, ecological niche modelling and climate niche reconstruction were employed to estimate its origin and diversification pattern. Taking into account studies on other plant lineages dominating EBLFs of East Asia, it was revealed that the prototype of EBLFs in East Asia probably emerged in the Early Eocene (55-50 million years ago [Ma]), facilitated by the greenhouse warming. As a response to the cooling and drying climate in the Middle to Late Eocene (48-38 Ma), deciduous habits were evolved in the dominant lineages of the EBLFs in East Asia. Up to the Early Miocene (23 Ma), the prevailing of East Asian monsoon increased the extreme seasonal precipitation and accelerated the emergence of evergreen habits of the dominant lineages, and ultimately shaped the vegetation resembling that of today.

Development and characterization of 25 microsatellite primers for Ilex chinensis (Aquifoliaceae)

PREMISE OF THE STUDY

To evaluate genetic variation and structure of Ilex chinensis (Aquifoliaceae), a dioecious evergreen tree, we developed 25 microsatellite markers from its nuclear genome.

METHODS AND RESULTS

Based on the biotin-streptavidin capture method, 10 polymorphic and 15 monomorphic microsatellite markers were developed. Ten polymorphic loci were characterized by 87 individuals sampled from three populations located in Zhejiang Province and Shanghai, China. The number of alleles per locus varied from two to 12. The observed and expected heterozygosities were 0.0435-0.9032 and 0.3121-0.8343, respectively.

CONCLUSIONS

These microsatellite markers can be useful for further genetic studies of I. chinensis populations, and so contribute to forest restoration and management.

Substantial reorganization of China's tropical and subtropical forests: based on the permanent plots

There is evidence that climate change induced tree mortalities in boreal and temperate forests and increased forest turnover rates (both mortality and recruitment rates) in Amazon forests. However, no study has examined China's tropical and subtropical evergreen broadleaved forests (TEBF) that cover >26% of China's terrestrial land. The sustainability of this biome is vital to the maintenance of local ecosystem services (e.g., carbon sequestration, biodiversity conservation, climatic regulation), many of which may influence patterns of atmospheric circulation and composition at regional to global scales. Here, we analyze time-series data collected from thirteen permanent plots within China's unmanaged TEBF to study whether and how this biome has changed over recent decades. We find that the numbers of individuals and species for shrub and small tree have increased since 1978, whereas the numbers of individuals and species for tree have decreased over this same time period. The shift in species composition is accompanied by a decrease in the mean diameter at breast height (DBH) for all individuals combined. China's TEBF may thereby be transitioning from cohorts of fewer and larger individuals to ones of more and smaller individuals, which shows a unique change pattern differing from the documented. Regional-scale drying is likely responsible for the biome's reorganization. This biome-wide reconstitution would deeply impact the regimes of carbon sequestration and biodiversity conservation and have implications for the sustainability of economic development in the area.