Occupancy modelling reveals a highly restricted and fragmented distribution in a threatened montane frog (Philoria kundagungan) in subtropical Australian rainforests

2021 ◽  
Author(s):  
Liam J. Bolitho ◽  
Jodi J. L. Rowley ◽  
Harry B. Hines ◽  
David Newell
Keyword(s):  
Occupancy Modelling ◽  
Fragmented Distribution

Using environmental DNA and occupancy modelling to identify drivers of eastern hellbender (Cryptobranchus alleganiensis alleganiensis) extirpation

2018 ◽  
Vol 64 (1) ◽  
pp. 208-221 ◽  
Author(s):  
Sean M. Wineland ◽  
Shane M. Welch ◽  
Thomas K. Pauley ◽  
Joseph J. Apodaca ◽  
Max Olszack ◽  
...  
Keyword(s):  
Environmental Dna ◽  
Occupancy Modelling ◽  
Cryptobranchus Alleganiensis ◽  
Eastern Hellbender

scholarly journals Recommended survey designs for occupancy modelling using motion-activated cameras: insights from empirical wildlife data

PeerJ ◽  
2014 ◽  
Vol 2 ◽  
pp. e532 ◽  
Author(s):  
Graeme Shannon ◽  
Jesse S. Lewis ◽  
Brian D. Gerber
Keyword(s):  
Occupancy Modelling ◽  
Survey Designs

scholarly journals Prior specification in Bayesian occupancy modelling improves analysis of species occurrence data

2018 ◽  
Vol 93 ◽  
pp. 333-343 ◽  
Author(s):  
Charlotte L. Outhwaite ◽  
Richard E. Chandler ◽  
Gary D. Powney ◽  
Ben Collen ◽  
Richard D. Gregory ◽  
...  
Keyword(s):  
Species Occurrence ◽  
Occupancy Modelling ◽  
Prior Specification ◽  
Occurrence Data

Two‐species occupancy modelling accounting for species misidentification and non‐detection

2018 ◽  
Vol 9 (6) ◽  
pp. 1468-1477 ◽  
Author(s):  
Thierry Chambert ◽  
Evan H. Campbell Grant ◽  
David A. W. Miller ◽  
James D. Nichols ◽  
Kevin P. Mulder ◽  
...  
Keyword(s):  
Occupancy Modelling ◽  
Species Occupancy

scholarly journals Genomic and mitochondrial evidence of ancient isolations and extreme introgression in the four-lined snake

2019 ◽  
Vol 66 (1) ◽  
pp. 99-111 ◽  
Author(s):  
Evanthia Thanou ◽  
Panagiotis Kornilios ◽  
Petros Lymberakis ◽  
Adam D Leaché
Keyword(s):  
Gene Tree ◽  
Nucleotide Polymorphisms ◽  
Single Nucleotide ◽  
Genome Wide ◽  
Ancient Lineage ◽  
Population Structuring ◽  
Fragmented Distribution ◽  
And Migration ◽  
Distinct Morphology ◽  
Insular Populations

Abstract Comparing mitochondrial and genomic phylogenies is an essential tool for investigating speciation processes, because each genome carries different inheritance properties and evolutionary characteristics. Furthermore, mitonuclear discordance may arise from ecological adaptation, historic isolation, population size changes, and sex-biased dispersal. Closely related taxa are expected to experience gene flow; however, this may not be true for insular populations or populations isolated in refugia. The four-lined snake Elaphe quatuorlineata has a fragmented distribution, separating populations of the Italian and Balkan Peninsulas, whereas several insular Aegean populations of significantly smaller body size (Cyclades island group and Skyros Island, Greece) are currently considered distinct subspecies. We constructed the species-tree phylogeny of this species utilizing genome-wide single nucleotide polymorphisms and a gene-tree based on complete cytochrome b sequences, aiming to detect convergence and discrepancies between biparentally and maternally inherited genomes. Population structuring, phylogenetic patterns and migration events among geographically defined lineages supported our hypothesis of isolation in multiple sub-refugia. Where biogeographical barriers did not restrict subsequent dispersal, extensive genetic exchange occurred between mainland Balkan populations. This process has led to the mitochondrial sweep of an ancestral mitolineage that survived only in peripheral (East Greece) and insular populations (North Cyclades and Skyros). The Central Cyclades represent an ancient lineage for both molecular markers that emerged almost 3.3 Mya. Considering their distinct morphology, insular E. quatuorlineata populations should be the future focus of an extensive sampling, especially since the mitonuclear discordance observed in this species could be related to ecological adaptations, such as the island-dwarfism phenomenon.

scholarly journals Using occupancy models to assess the direct and indirect impacts of agricultural expansion on species’ populations

2020 ◽  
Vol 29 (13) ◽  
pp. 3669-3688
Author(s):  
Asunción Semper-Pascual ◽  
Julieta Decarre ◽  
Matthias Baumann ◽  
Micaela Camino ◽  
Yamil Di Blanco ◽  
...  
Keyword(s):  
Land Use ◽  
Land Use Change ◽  
Direct Effect ◽  
Indirect Effects ◽  
Agricultural Land ◽  
Conservation Strategies ◽  
Agricultural Expansion ◽  
Direct And Indirect Effects ◽  
Occupancy Models ◽  
Occupancy Modelling

Abstract Land-use change is a global threat to biodiversity, but how land-use change affects species beyond the direct effect of habitat loss remains poorly understood. We developed an approach to isolate and map the direct and indirect effects of agricultural expansion on species of conservation concern, using the threatened giant anteater (Myrmecophaga tridactyla) in the Gran Chaco as an example. We reconstructed anteater occupancy change between 1985 and 2015 by fitting single-season occupancy models with contemporary camera-trap data and backcasting the models to 1985 and 2000 land-cover/use maps. Based on this, we compared the area of forest loss (direct effect of agricultural expansion) with the area where forests remained but occupancy still declined (indirect effect of agricultural expansion). Anteater occupancy decreased substantially since 1985, particularly after 2000 when agriculture expanded rapidly. Between 1985 and 2015, ~ 64,000 km2 of forest disappeared, yet occupancy declined across a larger area (~ 102,000 km2), extending far into seemingly untransformed habitat. This suggests that widespread sink habitat has emerged due to agricultural land-use change, and that species may lose their habitat through direct and indirect effects of agricultural expansion, highlighting the urgent need for broad-scale conservation planning in the Chaco. Appropriate management responses could proactively protect more habitat where populations are stable, and restore habitat or address causes of mortality in areas where declines occur. Our work also highlights how occupancy modelling combined with remote sensing can help to detect the direct and indirect effects of agricultural expansion, providing guidance for spatially targeting conservation strategies to halt extinctions.

scholarly journals New insights on bioindicator value of Chironomids by using occupancy modelling

2020 ◽  
Vol 117 ◽  
pp. 106619
Author(s):  
Agustina Cortelezzi ◽  
María V. Simoy ◽  
Augusto Siri ◽  
Mariano Donato ◽  
Rosana E. Cepeda ◽  
...  
Keyword(s):  
Occupancy Modelling
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