Two centuries of distribution data: detection of areas of endemism for the Brazilian angiosperms

Cladistics ◽  
2020 ◽  
Author(s):  
Janaína Gomes‐da‐Silva ◽  
Rafaela Campostrini Forzza
Keyword(s):  
Distribution Data ◽  
Data Detection ◽  
Areas Of Endemism

scholarly journals Areas of endemism of Cactaceae and the effectiveness of the protected area network in the Chihuahuan Desert

Oryx ◽  
2011 ◽  
Vol 45 (2) ◽  
pp. 191-200 ◽  
Author(s):  
Héctor M. Hernández ◽  
Carlos Gómez-Hinostrosa
Keyword(s):  
Protected Areas ◽  
Protected Area ◽  
Chihuahuan Desert ◽  
Distribution Data ◽  
Area Network ◽  
Protected Area Network ◽  
Complementarity Analysis ◽  
Areas Of Endemism ◽  
The Rich ◽  
Narrow Endemism

AbstractWe used distribution data of 121 cactus species endemic to the Chihuahuan Desert to test the effectiveness of the region’s protected area network. The analysis of species distribution using a 30′ latitude × 30′ longitude grid facilitated the identification and categorization of areas of endemism. We found a low degree of coincidence between protected areas and the areas of cactus endemism, and only 63.6% of the 121 species occur in protected areas. A complementarity analysis showed that 10 of the protected areas contain the 77 species that occur in protected areas. The four top priority areas protect 65 (84.4%) of these 77 species The 44 unprotected species are mainly micro-endemic and taxonomically distinctive taxa widely scattered in the region. The complementarity analysis applied to these species showed that all of them can be contained in a minimum of 24 grid squares, representing 32.9% of the total area occupied. Their strong spatial dispersion, along with their narrow endemism, is a major conservation challenge. We conclude that the current protected area network is insufficient to protect the rich assemblage of cacti endemic to the Chihuahuan Desert. Conservation efforts in this region should be enhanced by increasing the effectiveness of the already existing protected areas and by the creation of additional protected areas, specifically micro-reserves, to provide refuge for the unprotected species.

Catalogue of distribution of lizards (Reptilia: Squamata) from the Brazilian Amazonia. III. Anguidae, Scincidae, Teiidae

Zootaxa ◽  
2016 ◽  
Vol 4205 (5) ◽  
pp. 401 ◽  
Author(s):  
MARCO A. RIBEIRO-JÚNIOR ◽  
SILVANA AMARAL
Keyword(s):  
Species Level ◽  
Distribution Data ◽  
Semideciduous Forest ◽  
Brazilian Amazonia ◽  
Disjunct Populations ◽  
Areas Of Endemism ◽  
Gallery Forests ◽  
Present Distribution ◽  
Southwestern Amazonia ◽  
Area Data

We present distribution data of all Anguidae, Scincidae, and Teiidae lizards known from the Brazilian Amazonia, totaling 29 species-level taxa, belonging to 14 genera. This represents 11 more species-level taxa than previously reported for these families in this area. Data were based on literature and 46,806 specimens deposited in three North American and eight Brazilian museums, including the main collections harboring Amazonian material. Most species (~55%) are endemic to Amazonia. Except for Ameiva ameiva, that is present in several environments and domains, non-endemic species are either associated with open dry (semideciduous) forest or open vegetation (savanna) enclaves in Amazonia, occupying similar environments outside Amazonia, gallery forests within the Cerrado, or present disjunct populations in the Atlantic Forest. As a whole, six taxa are widespread in Amazonia, four are restricted to eastern Amazonia, four to western Amazonia, three to southwestern Amazonia, one to northern Amazonia, and seven to the southern peripheral portion of Amazonia. Besides, two species present apparently more restricted, unique distributions. Only three species have a distribution that is congruent with one of the areas of endemism (AE) recognized for other organisms (birds and primates), of which two occur in AE Guiana and one in AE Inambari. 

scholarly journals Self-Attention based model forde-novoantibiotic resistant gene classification with enhanced reliability for Out of Distribution data detection

2019 ◽  
Author(s):  
Md-Nafiz Hamid ◽  
Iddo Friedberg
Keyword(s):  
Deep Learning ◽  
Optimization Method ◽  
Distribution Data ◽  
Data Detection ◽  
Antibiotic Resistant ◽  
Global Epidemic ◽  
Resistant Genes ◽  
Uncertainty Estimates ◽  
The Face ◽  
Deep Learning Model

AbstractAntibiotic resistance monitoring is of paramount importance in the face of this ongoing global epidemic. Using traditional alignment based methods to detect antibiotic resistant genes results in huge number of false negatives. In this paper, we introduce a deep learning model based on a self-attention architecture that can classify antibiotic resistant genes into correct classes with high precision and recall by just using protein sequences as input. Additionally, deep learning models trained with traditional optimization algorithms (e.g. Adam, SGD) provide poor posterior estimates when tested against Out-of-Distribution (OoD) antibiotic resistant/non-resistant genes. We train our model with an optimization method called Preconditioned Stochastic Gradient Langevin Dynamics (pSGLD) which provides reliable uncertainty estimates when tested against OoD data.

scholarly journals Endemism analysis of Neotropical Pentatomidae (Hemiptera, Heteroptera)

2010 ◽  
Vol 100 (4) ◽  
pp. 449-462 ◽  
Author(s):  
Augusto Ferrari ◽  
Andressa Paladini ◽  
Cristiano Feldens Schwertner ◽  
Jocelia Grazia
Keyword(s):  
Grid Cell ◽  
Distribution Patterns ◽  
Neotropical Region ◽  
Historical Biogeography ◽  
Distribution Data ◽  
Grid Cells ◽  
Units Of Analysis ◽  
Areas Of Endemism ◽  
Definition Of ◽  
Amazonian Region

The definition of areas of endemism is central to studies of historical biogeography, and their interrelationships are fundamental questions. Consistent hypotheses for the evolution of Pentatomidae in the Neotropical region depend on the accuracy of the units employed in the analyses, which in the case of studies of historical biogeography, may be areas of endemism. In this study, the distribution patterns of 222 species, belonging to 14 Pentatomidae (Hemiptera) genera, predominantly neotropical, were studied with the Analysis of Endemicity (NDM) to identify possible areas of endemism and to correlate them to previously delimited areas. The search by areas of endemism was carried out using grid-cell units of 2.5° and 5° latitude-longitude. The analysis based on groupings of grid-cells of 2.5° of latitude-longitude allowed the identification of 51 areas of endemism, the consensus of these areas resulted in four clusters of grid-cells. The second analysis, with grid-cells units of 5° latitude-longitude, resulted in 109 areas of endemism. The flexible consensus employed resulted in 17 areas of endemism. The analyses were sensitive to the identification of areas of endemism in different scales in the Atlantic Forest. The Amazonian region was identified as a single area in the area of consensus, and its southeastern portion shares elements with the Chacoan and Paraná subregions. The distribution data of the taxa studied, with different units of analysis, did not allow the identification of individual areas of endemism for the Cerrado and Caatinga. The areas of endemism identified here should be seen as primary biogeographic hypotheses.

scholarly journals Small mammal distributional patterns in Northwestern Argentina

2015 ◽  
Vol 105 (4) ◽  
pp. 505-522 ◽  
Author(s):  
María L. Sandoval ◽  
Tania Escalante ◽  
Rubén Barquez
Keyword(s):  
Spatial Scale ◽  
Species Distribution ◽  
Small Mammal ◽  
Distribution Data ◽  
Mammal Species ◽  
Study Region ◽  
Northwestern Argentina ◽  
Biogeographic Regionalization ◽  
Distributional Patterns ◽  
Areas Of Endemism

ABSTRACT Quantitative evaluations of species distributional congruence allow evaluating previously proposed biogeographic regionalization and even identify undetected areas of endemism. The geographic scenery of Northwestern Argentina offers ideal conditions for the study of distributional patterns of species since the boundaries of a diverse group of biomes converge in a relatively small region, which also includes a diverse fauna of mammals. In this paper we applied a grid-based explicit method in order to recognize Patterns of Distributional Congruence (PDCs) and Areas of Endemism (AEs), and the species (native but non-endemic and endemic, respectively) that determine them. Also, we relate these distributional patterns to traditional biogeographic divisions of the study region and with a very recent phytogeographic study and we reconsider what previously rejected as 'spurious' areas. Finally, we assessed the generality of the patterns found. The analysis resulted in 165 consensus areas, characterized by seven species of marsupials, 28 species of bats, and 63 species of rodents, which represents a large percentage of the total species (10, 41, and 73, respectively). Twenty-five percent of the species that characterize consensus areas are endemic to the study region and define six AEs in strict sense while 12 PDCs are mainly defined by widely distributed species. While detailed quantitative analyses of plant species distribution data made by other authors does not result in units that correspond to Cabrera's phytogeographic divisions at this spatial scale, analyses of animal species distribution data does. We were able to identify previously unknown meaningful faunal patterns and more accurately define those already identified. We identify PDCs and AEs that conform Eastern Andean Slopes Patterns, Western High Andes Patterns, and Merged Eastern and Western Andean Slopes Patterns, some of which are re-interpreted at the light of known patterns of the endemic vascular flora. Endemism do not declines towards the south, but do declines towards the west of the study region. Peaks of endemism are found in the eastern Andean slopes in Jujuy and Tucumán/Catamarca, and in the western Andean biomes in Tucumán/Catamarca. The principal habitat types for endemic small mammal species are the eastern humid Andean slopes. Notwithstanding, arid/semi-arid biomes and humid landscapes are represented by the same number of AEs. Rodent species define 15 of the 18 General Patterns, and only in one they have no participation at all. Clearly, at this spatial scale, non-flying mammals, particularly rodents, are biogeographically more valuable species than flying mammals (bat species).

Biogeographical structure and endemism pattern in reptiles of the Western Palearctic

2018 ◽  
Vol 42 (2) ◽  
pp. 220-236 ◽  
Author(s):  
Gentile Francesco Ficetola ◽  
Mattia Falaschi ◽  
Anna Bonardi ◽  
Emilio Padoa-Schioppa ◽  
Roberto Sindaco
Keyword(s):  
Climate Change ◽  
Late Quaternary ◽  
Distribution Data ◽  
Genus Level ◽  
Quaternary Climate ◽  
Western Palearctic ◽  
Areas Of Endemism ◽  
Biogeographical Regions ◽  
Dry Climates ◽  
Level Analysis

The analysis of biogeographical structure and patterns of endemism are central topics of biogeography, but require exhaustive distribution data. A lack of accurate broad-scale information on the distribution of reptiles has so far limited the analyses of biogeographical structure. Here we analysed the distribution of reptiles within the broad-sense Western Palearctic to assess biogeographical regionalization using phylogenetic and non-phylogenetic approaches, identified areas of endemism and evaluated the environmental factors promoting community uniqueness and endemism. We gathered distributional records from the literature and from the field, mapping the distribution of all the Western Palearctic reptiles on a 1-degree resolution grid. βsim dissimilarity and hierarchical clustering was used to identify bioregions, analysing data both at the species and at the genus level, and considering phylogenetic dissimilarity. Consensus areas of endemism were identified on the basis of the optimality criterion. We then assessed whether biogeographical structure is related to present-day climate, insularity, orography and velocity of climate change during the Late Quaternary. The genus-level analysis identified five main biogeographical regions within the Western Palearctic, in partial agreement with previous proposals, while the species-level analysis identified more bioregions, largely by dividing the ones identified by genera. Phylogenetic bioregions were generally consistent with the non-phylogenetic ones. The strongest community uniqueness was observed in subtropical warm climates with seasonal precipitation and low productivity. We found nine consensus areas of endemism, mostly in regions with limited velocity of Quaternary climate change and warm subtropical climates. The biogeographical structure of Western Palearctic reptiles is comparable to what has been observed in other vertebrates, with a clear distinction between the Saharo-Arabian-Sindian and Euro-Mediterranean herpetofaunas. Unlike other vertebrates, in reptiles the highest uniqueness and endemism is observed in dry climates, but the velocity of climate change during the Quaternary remains a major driver of endemism across all the vertebrates.

scholarly journals SpeciesGeoCoder: Fast categorisation of species occurrences for analyses of biodiversity, biogeography, ecology and evolution

2014 ◽  
Author(s):  
Mats Töpel ◽  
Maria Fernanda Calió ◽  
Alexander Zizka ◽  
Ruud Scharn ◽  
Daniele Silvestro ◽  
...  
Keyword(s):  
Evolutionary Biology ◽  
Distribution Data ◽  
Ancestral State ◽  
Conservation Areas ◽  
Desktop Computer ◽  
Distribution Maps ◽  
Areas Of Endemism ◽  
Political Units ◽  
Scientific Challenge ◽  
Patterns And Processes

Understanding the patterns and processes underlying the uneven distribution of biodiversity across space and time constitutes a major scientific challenge in evolutionary biology. With rapidly accumulating species occurrence data, there is an increasing ne ed for making the process of coding species into operational units for biogeographic and evolutionary analyses faster, automated, transparent and reproducible. Here we present SpeciesGeoCoder, a free software package written in Python and R, that allows fo r easy coding of species into user-defined areas. These areas may be of any size and be purely geographical (i.e., polygons) such as political units, conservation areas, biomes, islands, biodiversity hotspots, and areas of endemism, but may also include al titudinal ranges. This flexibility allows scoring species into complex categories, such as those encountered in topographically and ecologically heterogeneous landscapes. In addition, SpeciesGeoCoder can be used to facilitate sorting and cleaning of occurr ence data. The various outputs of SpeciesGeoCoder include quantitative biodiversity statistics, global and local distribution maps, and NEXUS files that can be directly used in many phylogeny-based applications for ancestral state reconstruction, investiga tions on biome evolution, and diversification rate analyses. Our simulations indicate that even datasets containing hundreds of millions of records can be analysed in relatively short time using a regular desktop computer. We exemplify the use of our progr am through two contrasting examples: i) inferring historical dispersal of birds across the Isthmus of Panama, separating lowland vs. montane species and optimising the results onto a species-level, dated phylogeny; and ii) exploring seasonal variations in the occurrence of 10 GPS-tracked individuals of moose (Alces alces) over one year in northern Sweden. These analyses show that SpeciesGeoCoder allows an easy, flexible and fast categorisation of species distribution data for various analyses in ecology and evolution, with potential use at different spatial, taxonomic and temporal scales.

The importance of the Brazilian Subtropical Highland Grasslands evidenced by a taxonomically verified endemic species list

Phytotaxa ◽  
2020 ◽  
Vol 452 (4) ◽  
pp. 250-267
Author(s):  
CÁSSIA PLÁ ◽  
JOSIMAR KÜLKAMP ◽  
GUSTAVO HEIDEN ◽  
EIMEAR NIC LUGHADHA ◽  
JOÃO R. V. IGANCI
Keyword(s):  
Endemic Species ◽  
Floristic Composition ◽  
Complete Information ◽  
Distribution Data ◽  
Species List ◽  
Biogeographic History ◽  
Collection Record ◽  
Botanical Collection ◽  
Areas Of Endemism ◽  
Endemic Taxon

The Brazilian Subtropical Highland Grasslands (Campos de Cima da Serra) is one of the main areas of endemism in southern Brazil. The complex biogeographic history that resulted in the floristic composition of the region is directly linked to the high degree of plant endemism found there. Here we present a current checklist for the endemic plants – the first taxonomically verified endemic species list for the region. The list comprises 273 endemic taxa (23.5% of its flora) representing 40 families and 117 genera, highlighting fifty-seven taxa reported as endemic from the region for the first time in recent years. Voucher specimens, original publication, locality information and distribution data are provided for each endemic taxon. Botanical collections in the Brazilian Subtropical Highland Grasslands have increased exponentially during the last four decades. However, 41 taxa are known only from the original collection record reported in their protologue. Our results emphasize the importance of the Brazilian Subtropical Highland Grasslands in terms of conservation of its flora and the importance of providing complete information on botanical collection labels as source for a robust knowledge of the flora.

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