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The landscape of tolerated genetic variation in humans and primates. (2023)
Journal Article
Gao, H., Hamp, T., Ede, J., Schraiber, J. G., McRae, J., Singer-Berk, M., …Jolly, C. J. (2023). The landscape of tolerated genetic variation in humans and primates. Science, 380(6648), https://doi.org/10.1126/science.abn8197

Personalized genome sequencing has revealed millions of genetic differences between individuals, but our understanding of their clinical relevance remains largely incomplete. To systematically decipher the effects of human genetic variants, we obtain... Read More about The landscape of tolerated genetic variation in humans and primates..

Taxonomic review of Saguinus mystax (Spix, 1823) (Primates, Callitrichidae), and description of a new species (2023)
Journal Article
Lopes, G., Rohe, F., Bertuol, F., Polo, E., Lima, I., Valsecchi, J., …Hrbek, T. (2023). Taxonomic review of Saguinus mystax (Spix, 1823) (Primates, Callitrichidae), and description of a new species. PeerJ, 11, e14526. https://doi.org/10.7717/peerj.14526

Although the Amazon has the greatest diversity of primates, there are still taxonomic uncertainties for many taxa, such as the species of the Saguinus mystax group. The most geographically broadly distributed and phenotypically diverse species in thi... Read More about Taxonomic review of Saguinus mystax (Spix, 1823) (Primates, Callitrichidae), and description of a new species.

Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches (2022)
Journal Article
Beck, R., de Vries, D., Janiak, M., Goodhead, I., & Boubli, J. (2022). Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches. Journal of Human Evolution, 174, https://doi.org/10.1016/j.jhevol.2022.103293

There have been multiple published phylogenetic analyses of platyrrhine primates (New World monkeys) using both morphological and molecular data, but relatively few that have integrated both types of data into a total evidence approach. Here, we pr... Read More about Total evidence phylogeny of platyrrhine primates and a comparison of undated and tip-dating approaches.

Phylogenetics and an updated taxonomic status of the Tamarins (Callitrichinae, Cebidae) (2022)
Journal Article
Brcko, I., Carneiro, J., Ruiz-García, M., Boubli, J., Silva-Júnior, J., Farias, I., …Sampaio, I. (2022). Phylogenetics and an updated taxonomic status of the Tamarins (Callitrichinae, Cebidae). Molecular Phylogenetics and Evolution, 173, 107504. https://doi.org/10.1016/j.ympev.2022.107504

Traditionally, Saguinus has been organized into six taxonomic groups: bicolor, inustus, midas, mystax, nigricollis, and oedipus. After recent revisions, taxonomic reclassifications were proposed, including (1) the recognition of Leontocebus as a new... Read More about Phylogenetics and an updated taxonomic status of the Tamarins (Callitrichinae, Cebidae).

Out of the shadows : multilocus systematics and biogeography of night monkeys suggest a Central Amazonian origin and a very recent widespread southeastward expansion in South America (2022)
Journal Article
Martins-Junior, A., Sampaio, I., Silva, A., Boubli, J., Hrbek, T., Farias, I., …Schneider, H. (2022). Out of the shadows : multilocus systematics and biogeography of night monkeys suggest a Central Amazonian origin and a very recent widespread southeastward expansion in South America. Molecular Phylogenetics and Evolution, 107426. https://doi.org/10.1016/j.ympev.2022.107426

Neotropical primates with a poorly understood taxonomy and biogeography. The number of species in the genus varies from one to nine, depending on the author, and there are at least 18 known karyotypes, varying from 2n = 46 to 2n = 58. Historically, n... Read More about Out of the shadows : multilocus systematics and biogeography of night monkeys suggest a Central Amazonian origin and a very recent widespread southeastward expansion in South America.

Uncertainty regarding species delimitation, geographic distribution, and the evolutionary history of south-central Amazonian titi monkey species (Plecturocebus, Pitheciidae) (2021)
Journal Article
Byrne, H., Costa-Araujo, R., Farias, I., Silva, M., Messias, M., Hrbek, T., & Boubli, J. (2021). Uncertainty regarding species delimitation, geographic distribution, and the evolutionary history of south-central Amazonian titi monkey species (Plecturocebus, Pitheciidae). International Journal of Primatology,

Platyrrhine primate taxonomy is a rapidly evolving area of research. The recent description of the Parecis titi monkey, Plecturocebus parecis, has raised substantial questions regarding the taxonomy, distribution, and evolutionary history of titi tax... Read More about Uncertainty regarding species delimitation, geographic distribution, and the evolutionary history of south-central Amazonian titi monkey species (Plecturocebus, Pitheciidae).

Ancient DNA of the pygmy marmoset type specimen Cebuella pygmaea (Spix, 1823) resolves a taxonomic conundrum (2021)
Journal Article
Boubli, J., Janiak, M., Porter, L., de la Torre, S., Cortés-Ortiz, L., da Silva, M., …Roos, C. (2021). Ancient DNA of the pygmy marmoset type specimen Cebuella pygmaea (Spix, 1823) resolves a taxonomic conundrum. Zoological Research, 42(6), 761-771. https://doi.org/10.24272/j.issn.2095-8137.2021.143

The pygmy marmoset, the smallest of the anthropoid primates, has a broad distribution in Western Amazonia. Recent studies using molecular and morphological data have identified two distinct species separated by the Napo and Solimões-Amazonas rivers.... Read More about Ancient DNA of the pygmy marmoset type specimen Cebuella pygmaea (Spix, 1823) resolves a taxonomic conundrum.

Fungal microbiomes are determined by host phylogeny and exhibit widespread associations with the bacterial microbiome (2021)
Journal Article
Harrison, X., McDevitt, A., Dunn, J., Grifftihs, S., Benvenuto, C., Birtles, R., …Antwis, R. (2021). Fungal microbiomes are determined by host phylogeny and exhibit widespread associations with the bacterial microbiome. Proceedings of the Royal Society B: Biological Sciences, 288(1957), 20210552. https://doi.org/10.1098/rspb.2021.0552

Interactions between hosts and their resident microbial communities are a fundamental component of fitness for both agents. Though recent research has highlighted the importance of interactions between animals and their bacterial communities, compara... Read More about Fungal microbiomes are determined by host phylogeny and exhibit widespread associations with the bacterial microbiome.

eDNA in a bottleneck : obstacles to fish metabarcoding studies in megadiverse freshwater systems (2021)
Journal Article
Jackman, J., Benvenuto, C., Coscia, I., Carvalho, C., Ready, J., Boubli, J., …Sales, N. (2021). eDNA in a bottleneck : obstacles to fish metabarcoding studies in megadiverse freshwater systems. Environmental DNA, 3(4), 837-849. https://doi.org/10.1002/edn3.191

The current capacity of environmental DNA (eDNA) to provide accurate insights into the biodiversity of megadiverse regions (e.g., the Neotropics) requires further evaluation to ensure its reliability for long‐term monitoring. In this study, we first... Read More about eDNA in a bottleneck : obstacles to fish metabarcoding studies in megadiverse freshwater systems.

Abundance, distribution, and threats of mammals and trees within the Lingadzi Namilomba Forest Reserve within Lilongwe, Malawi, and a conservation action plan for the protection of the Reserve (2020)
Thesis
Long, C. Abundance, distribution, and threats of mammals and trees within the Lingadzi Namilomba Forest Reserve within Lilongwe, Malawi, and a conservation action plan for the protection of the Reserve. (Dissertation). University of Salford

Lingadzi Namilomba Forest Reserve is one of the last remaining wildlife reserves situated within Malawi’s capital city Lilongwe. The purpose of this study was to conduct the first systematic assessment of mammal and forest cover within the reserve. A... Read More about Abundance, distribution, and threats of mammals and trees within the Lingadzi Namilomba Forest Reserve within Lilongwe, Malawi, and a conservation action plan for the protection of the Reserve.

Assessing the potential of environmental DNA metabarcoding for monitoring Neotropical mammals : a case study in the Amazon and Atlantic Forest, Brazil (2020)
Journal Article
Sales, N., Da Cruz Kaizer, M., Coscia, I., Perkins, J., Highlands, A., Boubli, J., …McDevitt, A. (2020). Assessing the potential of environmental DNA metabarcoding for monitoring Neotropical mammals : a case study in the Amazon and Atlantic Forest, Brazil. Mammal Review, 50(3), 221-225. https://doi.org/10.1111/mam.12183

The application of environmental DNA (eDNA) metabarcoding as a biomonitoring tool has greatly increased in the last decade. However, most studies have focused on aquatic macro-organisms in temperate areas (e.g., fishes). We apply eDNA metabarcoding t... Read More about Assessing the potential of environmental DNA metabarcoding for monitoring Neotropical mammals : a case study in the Amazon and Atlantic Forest, Brazil.

Non-invasive monitoring for population assessments of a critically endangered Neotropical primate (2019)
Thesis
Da Cruz Kaizer, M. Non-invasive monitoring for population assessments of a critically endangered Neotropical primate. (Thesis). University of Salford

The northern muriqui (Brachyteles hypoxanthus), is a Critically Endangered primate endemic to the Atlantic Forest of Brazil. Remnant populations of muriquis suffer from a wide range of anthropogenic pressures and face a high risk of extinction due... Read More about Non-invasive monitoring for population assessments of a critically endangered Neotropical primate.

Predicted distribution and habitat loss for the endangered black-faced black spider monkey Ateles chamek in the Amazon (2018)
Journal Article
Rabelo, R., Gonçalves, J., Silva, F., Rocha, D., Canale, G., Bernardo, C., & Boubli, J. (2020). Predicted distribution and habitat loss for the endangered black-faced black spider monkey Ateles chamek in the Amazon. Oryx, 54(5), 699-705. https://doi.org/10.1017/S0030605318000522

The rate of deforestation in the Amazon is increasing. Predictive models estimate that as a result of agricultural expansion 40% of these forests will be lost by 2050. As a consequence the habitat of forest-dwelling species such as the Endangered bla... Read More about Predicted distribution and habitat loss for the endangered black-faced black spider monkey Ateles chamek in the Amazon.

On a new species of titi monkey (Primates: Plecturocebus Byrne et al., 2016), from Alta Floresta, southern Amazon, Brazil (2018)
Journal Article
Boubli, J., Byrne, H., da Silva, M., Silva-Júnior, J., Costa Araújo, R., Bertuol, F., …Hrbek, T. (2018). On a new species of titi monkey (Primates: Plecturocebus Byrne et al., 2016), from Alta Floresta, southern Amazon, Brazil. Molecular Phylogenetics and Evolution, 132(Mar 19), 117-137. https://doi.org/10.1016/j.ympev.2018.11.012

The taxonomy of the titi monkeys (Callicebinae) has recently received considerable attention. It is now recognised that this subfamily is composed of three genera with 33 species, seven of them described since 2002. Here, we describe a new species of... Read More about On a new species of titi monkey (Primates: Plecturocebus Byrne et al., 2016), from Alta Floresta, southern Amazon, Brazil.

The Roosevelt – Rondon expedition marmoset (Mico marcai) : unveiling the conservation status of a data deficient species (2018)
Journal Article
Silva, F., EL Bizri, H., Goncalves, J., Lemos, L., Araujo, R., Lima, I., …Boubli, J. (2020). The Roosevelt – Rondon expedition marmoset (Mico marcai) : unveiling the conservation status of a data deficient species. Oryx, 54(4), 539-545. https://doi.org/10.1017/S0030605318000303

The Roosevelt-Rondon Expedition marmoset, Mico marcai, was collected in 1914 and to date, all information on this species comes from three skins brought back by the Expedition and two additional skins collected in the 1990s. It is no surprise then th... Read More about The Roosevelt – Rondon expedition marmoset (Mico marcai) : unveiling the conservation status of a data deficient species.

Titi monkey biogeography : parallel Pleistocene spread by Plecturocebus and Cheracebus into a post-Pebas Western Amazon (2018)
Journal Article
Byrne, H., Lynch Alfaro, J., Sampaio, I., Farias, I., Schneider, H., Hrbek, T., & Boubli, J. (2018). Titi monkey biogeography : parallel Pleistocene spread by Plecturocebus and Cheracebus into a post-Pebas Western Amazon. Zoologica Scripta, 47(5), 499-517. https://doi.org/10.1111/zsc.12300

Titi monkeys, subfamily Callicebinae, are a diverse, species‐rich group of Neotropical primates with an extensive range across South America. Their distribution in space and time makes them an interesting primate model for addressing questions of Neo... Read More about Titi monkey biogeography : parallel Pleistocene spread by Plecturocebus and Cheracebus into a post-Pebas Western Amazon.

A phylogenomic perspective on the robust capuchin monkey (Sapajus) radiation : first evidence for extensive population admixture across South America (2018)
Journal Article
Lima, M., Silva-Junior, J., Cerny, D., Buckner, J., Aleixo, A., Chang, J., …Lynch Alfaro, J. (2018). A phylogenomic perspective on the robust capuchin monkey (Sapajus) radiation : first evidence for extensive population admixture across South America. Molecular Phylogenetics and Evolution, 124, 137-150. https://doi.org/10.1016/j.ympev.2018.02.023

Phylogenetic relationships amongst the robust capuchin monkeys (genus Sapajus) are poorly understood. Morphology-based taxonomies have recognized anywhere from one to twelve different species. The current IUCN (2017) classification lists eight robust... Read More about A phylogenomic perspective on the robust capuchin monkey (Sapajus) radiation : first evidence for extensive population admixture across South America.

Phylogeny, molecular dating and zoogeographic history of the titi monkeys (Callicebus, Pitheciidae) of eastern Brazil (2018)
Journal Article
Carneiro, J., Sampaio, I., Silva-Junior, J., Farias, I., Hrbek, T., Pissinatti, A., …Schneider, H. (2018). Phylogeny, molecular dating and zoogeographic history of the titi monkeys (Callicebus, Pitheciidae) of eastern Brazil. Molecular Phylogenetics and Evolution, 124, 10-15. https://doi.org/10.1016/j.ympev.2018.03.001

The titi monkeys belong to a genus of New World primates endemic to South America, which were recently reclassified in three genera (Cheracebus, Plecturocebus and Callicebus). The genus Callicebus, which currently includes five species, is endemic to... Read More about Phylogeny, molecular dating and zoogeographic history of the titi monkeys (Callicebus, Pitheciidae) of eastern Brazil.

In search of a meaningful classification for Amazonian marmosets : should dwarf marmosets be considered Mico congenerics? (2018)
Journal Article
Silva, F., Costa-Araújo, R., Boubli, J., Santana, M., Franco, C., Bertuol, F., …Hrbek, T. (2018). In search of a meaningful classification for Amazonian marmosets : should dwarf marmosets be considered Mico congenerics?. Zoologica Scripta, 47(2), 133-143. https://doi.org/10.1111/zsc.12278

The criteria to classify the diversity of Neotropical Primates have recently taken the discussion boards due to the reappraisal on the phylogenetic relationship of some groups. Such controversial and arbitrary decisions, however, can hamper conservat... Read More about In search of a meaningful classification for Amazonian marmosets : should dwarf marmosets be considered Mico congenerics?.