Predicting Hotspots and Prioritizing Protected Areas for Endangered Primate Species in Indonesia under Changing Climate

Indonesia has a large number of primate diversity where a majority of the species are threatened. In addition, climate change is conservation issues that biodiversity may likely face in the future, particularly among primates. Thus, species-distribution modeling was useful for conservation planning. Herein, we present protected areas (PA) recommendations with high nature-conservation importance based on species-richness changes. We performed maximum entropy (Maxent) to retrieve species distribution of 51 primate species across Indonesia. We calculated species-richness change and range shifts to determine the priority of PA for primates under mitigation and worst-case scenarios by 2050. The results suggest that the models have an excellent performance based on seven different metrics. Current primate distributions occupied 65% of terrestrial landscape. However, our results indicate that 30 species of primates in Indonesia are likely to be extinct by 2050. Future primate species richness would be also expected to decline with the alpha diversity ranging from one to four species per 1 km2. Based on our results, we recommend 54 and 27 PA in Indonesia to be considered as the habitat-restoration priority and refugia, respectively. We conclude that species-distribution modeling approach along with the categorical species richness is effectively applicable for assessing primate biodiversity patterns.

The Diversity of Primates: From Biomedicine to Conservation Genomics

Until now, the field of primate genomics has focused on two major themes: understanding human evolution and advancing biomedical research. We propose that it is now time for a third theme to receive attention: conservation genomics. As a result of anthropogenic effects, the majority of primate species have become threatened with extinction. A more robust primate conservation genomics will allow for genetically informed population management. Thanks to a steady decline in the cost of sequencing, it has now become feasible to sequence whole primate genomes at the population level. Furthermore, technological advances in noninvasive genomic methods have made it possible to acquire genome-scale data from noninvasive biomaterials. Here, we review recent advances in the analysis of primate diversity, with a focus on genomic data sets across the radiation. Expected final online publication date for the Annual Review of Animal Biosciences, Volume 9 is February 16, 2021. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

Ancient DNA of the extinct Jamaican monkey Xenothrix reveals extreme insular change within a morphologically conservative radiation

The insular Caribbean until recently contained a diverse mammal fauna including four endemic platyrrhine primate species, all of which died out during the Holocene. Previous morphological studies have attempted to establish how these primates are related to fossil and extant platyrrhines, whether they represent ancient or recent colonists, and whether they constitute a monophyletic group. These efforts have generated multiple conflicting hypotheses, from close sister-taxon relationships with several different extant platyrrhines to derivation from a stem platyrrhine lineage outside the extant Neotropical radiation. This diversity of opinion reflects the fact that Caribbean primates were morphologically extremely unusual, displaying numerous autapomorphies and apparently derived conditions present across different platyrrhine clades. Here we report ancient DNA data for an extinct Caribbean primate: a limited-coverage entire mitochondrial genome and seven regions of nuclear genome for the most morphologically derived taxon, the Jamaican monkey Xenothrix mcgregori. We demonstrate that Xenothrix is part of the existing platyrrhine radiation rather than a late-surviving stem platyrrhine, despite its unusual adaptations, and falls within the species-rich but morphologically conservative titi monkey clade (Callicebinae) as sister to the newly recognized genus Cheracebus. These results are not congruent with previous morphology-based hypotheses and suggest that even morphologically conservative lineages can exhibit phenetic plasticity in novel environments like those found on islands. Xenothrix and Cheracebus diverged ca. 11 Ma, but primates have been present in the Caribbean since 17.5–18.5 Ma, indicating that Caribbean primate diversity was generated by multiple over-water colonizations.

The integration of quantitative genetics, paleontology, and neontology reveals genetic underpinnings of primate dental evolution

Developmental genetics research on mice provides a relatively sound understanding of the genes necessary and sufficient to make mammalian teeth. However, mouse dentitions are highly derived compared with human dentitions, complicating the application of these insights to human biology. We used quantitative genetic analyses of data from living nonhuman primates and extensive osteological and paleontological collections to refine our assessment of dental phenotypes so that they better represent how the underlying genetic mechanisms actually influence anatomical variation. We identify ratios that better characterize the output of two dental genetic patterning mechanisms for primate dentitions. These two newly defined phenotypes are heritable with no measurable pleiotropic effects. When we consider how these two phenotypes vary across neontological and paleontological datasets, we find that the major Middle Miocene taxonomic shift in primate diversity is characterized by a shift in these two genetic outputs. Our results build on the mouse model by combining quantitative genetics and paleontology, and thereby elucidate how genetic mechanisms likely underlie major events in primate evolution.

Logging Activity Adversely Impacts Primate Diversity and Density in the Kwabre Rainforest of Ghana

Knowledge on the impacts of logging activity on inhabitant primate species in Kwabre Rainforest, Ghana, is vital for the development of a comprehensive conservation and management plan. With this background, primate density and diversity were recorded along line transects in logged and unlogged areas (strata) to assess the impact of logging activity on these parameters. Six distinct primate species were confirmed including Roloway monkey (Cercopithecus roloway, listed as endangered in the IUCN List of Threatened Species), white-naped mangabey (Cercocebus lunulatus, vulnerable), and Geoffroy’s black-and-white colobus (Colobus vellerosus, vulnerable). There was a significant difference (Mann-WhitneyUtest:U=36.0,p<0.01) in primate encounter rates between the logged and unlogged strata with higher species diversity in unlogged stratum (H=2.91) compared to the logged stratum (H=1.44). Regression analysis indicated a significant effect (r2=0.945,p<0.01) of logging on primate encounter rates. Our results suggest that logging activity can alter composition of primate communities. One option to forestall further forest degradation and its adverse effects on primates would be to grant the Kwabre Rainforest protected area status under Ghanaian law and manage it under an integrated conservation plan that includes neighbouring Ankasa Conservation Area in Ghana and Tanoé Forest in Cote d’Ivoire.