scholarly journals The Ecological Niche of SARS-CoV-2-like Viruses in Bats, as Inferred from Phylogeographic Analyses of Rhinolophus Species

2021 ◽  
Author(s):  
Alexandre Hassanin ◽  
Vuong Tan Tu ◽  
Manon Curaudeau ◽  
and Gabor Csorba
Keyword(s):  
Southeast Asia ◽  
Ecological Niche ◽  
Transitional Zone ◽  
Ecological Niches ◽  
Human Populations ◽  
Dispersal Capacity ◽  
Recombinant Viruses ◽  
Haplotype Networks ◽  
High Dispersal ◽  
Genomic Recombination

To date, viruses closely related to SARS-CoV-2 have been reported in four bat species: Rhinolophus acuminatus, Rhinolophus affinis, Rhinolophus malayanus, and Rhinolophus shameli. Here, we analysed 343 sequences of the mitochondrial cytochrome c oxidase subunit 1 gene (CO1) from georeferenced bats of the four Rhinolophus species identified as reservoirs of SARS-CoV-2-like viruses. Haplotype networks were constructed in order to investigate patterns of genetic diversity among bat populations of Southeast Asia. No strong geographic structure was found for the four Rhinolophus species, suggesting high dispersal capacity. The ecological niche of SARS-CoV-2 like viruses was predicted using the four localities of bat SARS-CoV-2-like viruses and the localities where bats showed identical or very similar CO1 haplotypes than virus-positive bats. The ecological niche of SARS-CoV-like viruses was deduced from the localities where bat SARS-CoV-like viruses were previously detected. The results show that the ecological niche of SARS-CoV2-like viruses includes several regions of mainland Southeast Asia whereas that of SARS-CoV-like viruses is mainly restricted to China. In agreement with these results, human populations in Laos, Vietnam, Cambodia, and Thailand appear to be much less affected by the Covid-19 pandemic than other countries of Southeast Asia. In the climatic transitional zone between the two ecological niches (southern Yunnan, northern Laos, northern Vietnam, and possibly Hainan and Taiwan), genomic recombination between highly divergent viruses is more likely to occur. Since recombinant viruses can threaten the benefit of vaccination campaigns, these regions should be under surveillance.

scholarly journals The Ecological Niche of bat Viruses Closely Related to SARS-CoV-2, as Inferred from Phylogeographic Analyses of Rhinolophus Species

2021 ◽  
Author(s):  
Alexandre HASSANIN ◽  
Vuong Tan Tu ◽  
Manon Curaudeau ◽  
Gabor Csorba
Keyword(s):  
Southeast Asia ◽  
Ecological Niche ◽  
Transitional Zone ◽  
Ecological Niches ◽  
Human Populations ◽  
Dispersal Capacity ◽  
Recombinant Viruses ◽  
Haplotype Networks ◽  
High Dispersal ◽  
Genomic Recombination

Abstract To date, viruses closely related to SARS-CoV-2 have been reported in four bat species: Rhinolophus acuminatus, Rhinolophus affinis, Rhinolophus malayanus, and Rhinolophus shameli. Here, we analysed 343 sequences of the mitochondrial cytochrome c oxidase subunit 1 gene (CO1) from georeferenced bats of the four Rhinolophus species identified as reservoirs of viruses closely related to SARS-CoV-2. Haplotype networks were constructed in order to investigate patterns of genetic diversity among bat populations of Southeast Asia and China. No strong geographic structure was found for the four Rhinolophus species, suggesting high dispersal capacity. The ecological niche of bat viruses closely related to SARS-CoV-2 was predicted using the four localities in which bat viruses were recently discovered and the localities where bats showed the same CO1 haplotypes than virus-positive bats. The ecological niche of bat viruses related to SARS-CoV was deduced from the localities where bat viruses were previously detected. The results show that the ecological niche of bat viruses related to SARS-CoV2 includes several regions of mainland Southeast Asia whereas that of bat viruses related to SARS-CoV is mainly restricted to China. In agreement with these results, human populations in Laos, Vietnam, Cambodia, and Thailand appear to be much less affected by the Covid-19 pandemic than other countries of Southeast Asia. In the climatic transitional zone between the two ecological niches (southern Yunnan, northern Laos, northern Vietnam), genomic recombination between highly divergent viruses is more likely to occur. Since recombinant viruses can threaten the benefit of vaccination campaigns, these regions should be under surveillance.

scholarly journals Inferring the ecological niche of bat viruses closely related to SARS-CoV-2 using phylogeographic analyses of Rhinolophus species

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
Alexandre Hassanin ◽  
Vuong Tan Tu ◽  
Manon Curaudeau ◽  
Gabor Csorba
Keyword(s):  
Southeast Asia ◽  
Ecological Niche ◽  
Transitional Zone ◽  
Ecological Niches ◽  
Human Populations ◽  
Dispersal Capacity ◽  
Geographic Structure ◽  
Haplotype Networks ◽  
High Dispersal ◽  
Genomic Recombination

AbstractThe Severe Acute Respiratory Syndrome coronavirus 2 (SARS-CoV-2) is the causal agent of the coronavirus disease 2019 (COVID-19) pandemic. To date, viruses closely related to SARS-CoV-2 have been reported in four bat species: Rhinolophus acuminatus, Rhinolophus affinis, Rhinolophus malayanus, and Rhinolophus shameli. Here, we analysed 343 sequences of the mitochondrial cytochrome c oxidase subunit 1 gene (CO1) from georeferenced bats of the four Rhinolophus species identified as reservoirs of viruses closely related to SARS-CoV-2. Haplotype networks were constructed in order to investigate patterns of genetic diversity among bat populations of Southeast Asia and China. No strong geographic structure was found for the four Rhinolophus species, suggesting high dispersal capacity. The ecological niche of bat viruses closely related to SARS-CoV-2 was predicted using the four localities in which bat viruses were recently discovered and the localities where bats showed the same CO1 haplotypes than virus-positive bats. The ecological niche of bat viruses related to SARS-CoV was deduced from the localities where bat viruses were previously detected. The results show that the ecological niche of bat viruses related to SARS-CoV2 includes several regions of mainland Southeast Asia whereas the ecological niche of bat viruses related to SARS-CoV is mainly restricted to China. In agreement with these results, human populations in Laos, Vietnam, Cambodia, and Thailand appear to be much less affected by the COVID-19 pandemic than other countries of Southeast Asia. In the climatic transitional zone between the two ecological niches (southern Yunnan, northern Laos, northern Vietnam), genomic recombination between highly divergent viruses is more likely to occur. Considering the limited data and the risk of recombinant bat-CoVs emergence as the source of new pandemics in humans, the bat populations in these regions should be under surveillance.

scholarly journals Identifying early modern human ecological niche expansions and associated cultural dynamics in the South African Middle Stone Age

2017 ◽  
Vol 114 (30) ◽  
pp. 7869-7876 ◽  
Author(s):  
Francesco d’Errico ◽  
William E. Banks ◽  
Dan L. Warren ◽  
Giovanni Sgubin ◽  
Karen van Niekerk ◽  
...  
Keyword(s):  
Cultural Transmission ◽  
Ecological Niche ◽  
Modern Human ◽  
Middle Stone Age ◽  
Niche Shift ◽  
Ecological Niches ◽  
Human Populations ◽  
Evolutionary Trajectories ◽  
The One ◽  
Archaeological Cultures

The archaeological record shows that typically human cultural traits emerged at different times, in different parts of the world, and among different hominin taxa. This pattern suggests that their emergence is the outcome of complex and nonlinear evolutionary trajectories, influenced by environmental, demographic, and social factors, that need to be understood and traced at regional scales. The application of predictive algorithms using archaeological and paleoenvironmental data allows one to estimate the ecological niches occupied by past human populations and identify niche changes through time, thus providing the possibility of investigating relationships between cultural innovations and possible niche shifts. By using such methods to examine two key southern Africa archaeological cultures, the Still Bay [76–71 thousand years before present (ka)] and the Howiesons Poort (HP; 66–59 ka), we identify a niche shift characterized by a significant expansion in the breadth of the HP ecological niche. This expansion is coincident with aridification occurring across Marine Isotope Stage 4 (ca.72–60 ka) and especially pronounced at 60 ka. We argue that this niche shift was made possible by the development of a flexible technological system, reliant on composite tools and cultural transmission strategies based more on “product copying” rather than “process copying.” These results counter the one niche/one human taxon equation. They indicate that what makes our cultures, and probably the cultures of other members of our lineage, unique is their flexibility and ability to produce innovations that allow a population to shift its ecological niche.

scholarly journals Defining the niche for niche construction: evolutionary and ecological niches

2021 ◽  
Vol 36 (3) ◽  
Author(s):  
Rose Trappes
Keyword(s):  
Evolutionary Biology ◽  
Ecological Niche ◽  
Niche Construction ◽  
Habitat Degradation ◽  
Ecological Niches ◽  
Niche Concept ◽  
Definition Of ◽  
Compare And Contrast ◽  
Extreme Habitat

AbstractNiche construction theory (NCT) aims to transform and unite evolutionary biology and ecology. Much of the debate about NCT has focused on construction. Less attention has been accorded to the niche: what is it, exactly, that organisms are constructing? In this paper I compare and contrast the definition of the niche used in NCT with ecological niche definitions. NCT’s concept of the evolutionary niche is defined as the sum of selection pressures affecting a population. So defined, the evolutionary niche is narrower than the ecological niche. Moreover, when contrasted with a more restricted ecological niche concept, it has a slightly different extension. I point out three kinds of cases in which the evolutionary niche does not coincide with realized ecological niches: extreme habitat degradation, commensalism, and non-limiting or super-abundant resources. These conceptual differences affect the role of NCT in unifying ecology and evolutionary biology.

scholarly journals An ecological niche shift for Neanderthal populations in Western Europe 70,000 years ago

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
William E. Banks ◽  
Marie-Hélène Moncel ◽  
Jean-Paul Raynal ◽  
Marlon E. Cobos ◽  
Daniel Romero-Alvarez ◽  
...  
Keyword(s):  
Material Culture ◽  
Ecological Niche ◽  
Western Europe ◽  
Ecological Niche Modeling ◽  
Climatic Variability ◽  
Niche Shift ◽  
Ecological Niches ◽  
Middle Paleolithic ◽  
Niche Dynamics ◽  
Anatomically Modern Humans

AbstractMiddle Paleolithic Neanderthal populations occupied Eurasia for at least 250,000 years prior to the arrival of anatomically modern humans. While a considerable body of archaeological research has focused on Neanderthal material culture and subsistence strategies, little attention has been paid to the relationship between regionally specific cultural trajectories and their associated existing fundamental ecological niches, nor to how the latter varied across periods of climatic variability. We examine the Middle Paleolithic archaeological record of a naturally constrained region of Western Europe between 82,000 and 60,000 years ago using ecological niche modeling methods. Evaluations of ecological niche estimations, in both geographic and environmental dimensions, indicate that 70,000 years ago the range of suitable habitats exploited by these Neanderthal populations contracted and shifted. These ecological niche dynamics are the result of groups continuing to occupy habitual territories that were characterized by new environmental conditions during Marine Isotope Stage 4. The development of original cultural adaptations permitted this territorial stability.

Distribution Patterns and Ecological Niches of the Red-tongued Pit Viper (Gloydius ussuriensis) and the Central Asian Pit Viper (Gloydius intermedius) in Cheonmasan Mountain, South Korea

2021 ◽  
Vol 28 (6) ◽  
pp. 348-354
Author(s):  
Min Seock Do ◽  
Ki-Baek Nam
Keyword(s):  
South Korea ◽  
Ecological Niche ◽  
Distribution Patterns ◽  
Niche Differentiation ◽  
Habitat Characteristics ◽  
Ecological Niches ◽  
Mountainous Area ◽  
Dry Land ◽  
Central Asian ◽  
Geographical Environment

Studies on the distribution of species are important to understanding the interspecific ecological niche and habitat selection through geographic environmental information. Particularly, vipers in the same genus have been an important topic because they show differences in the preferred geographical environment, depending on the distance of the phylogenetic relationship. This study investigated the geographical environment of red-tongued pit vipers (Gloydius ussuriensis) and Central Asian pit vipers (Gloydius intermedius) in the mountainous area, Cheonmasan Mountain County Park, South Korea, from April 2012 to October 2014, to understand the relationships among their habitat characteristics and ecological niche. Red-tongued pit vipers mainly lived in low altitude, wet valley areas with a low solar reflectance, while Central Asian pit vipers inhabited high altitude, dry land with large amounts of sunshine. As a result, our study supports that the ecological niche of red-tongued pit vipers and Central Asian pit vipers, inhibiting in Cheonmasan Mountain was overlapped low according to the majority of geographical environmental variables. The differentiated diet preference might be took into consideration as one of the potential key factors to the ecological niche differentiation among two species.

Desmodium cajanifolium (tropical tick trefoil).

2020 ◽  
Author(s):  
Jeanine Vélez-Gavilán
Keyword(s):  
At Risk ◽  
Invasive Species ◽  
Pacific Islands ◽  
Dispersal Capacity ◽  
Secondary Vegetation ◽  
High Dispersal ◽  
Perennial Shrub ◽  
Weedy Species ◽  
Open Forests

Abstract Desmodium cajanifolium is a perennial shrub considered as invasive in Hawaii, USA, by Frohlich and Lau (2012), who reported it as a weedy species naturalised along roadsides, open forests and secondary vegetation on the Big Island and Kaua'i. At the same time, Benitez et al. (2012) report D. cajanifolium as a species that is rarely found along roadsides and in forests in Hawaii. D. cajanifolium is not listed as an invasive species on Pacific Islands Ecosystems at Risk (PIER, 2020). No details about its effects over other species or habitats are given.Desmodium cajanifolium is listed as potentially invasive in Cuba, being classified as a species with a tendency to proliferate in some areas and producing vast amounts of diaspores with a high dispersal capacity (Oviedo Prieto et al., 2012). It is considered as uncommon in parts of its native distribution (Flora of Nicaragua, 2020) and as scattered throughout its range (Flora of Panama, 2020).

Introduction

2011 ◽  
Author(s):  
A. Townsend Peterson ◽  
Jorge Soberón ◽  
Richard G. Pearson ◽  
Robert P. Anderson ◽  
Enrique Martínez-Meyer ◽  
...  
Keyword(s):  
Conceptual Framework ◽  
Species Distribution ◽  
Ecological Niche ◽  
Ecological Niche Modeling ◽  
Species Distribution Modeling ◽  
Niche Modeling ◽  
Ecological Niches ◽  
Distribution Modeling ◽  
Geographic Distributions ◽  
Complex Relationships

This book deals with ecological niche modeling and species distribution modeling, two emerging fields that address the ecological, geographic, and evolutionary dimensions of geographic distributions of species. It provides a conceptual overview of the complex relationships between ecological niches and geographic distributions of species, both across space and (perhaps to a lesser degree) through time. The emphasis is on how that conceptual framework relates to ecological niche modeling and species distribution modeling, which the book argues are complementary and are most broadly applicable to diverse questions regarding the ecology and geography of biodiversity phenomena. Part I of the book introduces the conceptual framework for thinking about and discussing the distributional ecology of species, Part II is concerned with the data and tools that have been used in the early development of the field, and Part III focuses on real-world situations to which these tools have been applied.

The Biography of the Earth

2021 ◽  
pp. 200-213
Author(s):  
Elisabeth Ervin-Blankenheim
Keyword(s):  
Small Mammals ◽  
Ecological Niche ◽  
Late Jurassic ◽  
Big Bang ◽  
Ecological Niches ◽  
Asteroid Impact ◽  
The Earth ◽  
The One ◽  
Extinction Events ◽  
The Universe

The story of the Phanerozoic Eon continues in this chapter with the Mesozoic Era. The first period in the Mesozoic, the Triassic, was bookended by two extinction events, the one at the beginning, discussed in the prior chapter at the end of the Permian Period, the Great Dying, and then another at the end of the period, related to the further breakup of Pangea. Dinosaurs evolved and diversified during the Mesozoic to occupy nearly each and every ecological niche on the planet, with large dinosaurs and small dinosaurs, ones that flew, those that ate vegetation, and those that preyed upon the herbivores—making this time a dino-dominated age. In the late Jurassic Period, small mammals, many of them insectivores, were starting to become prevalent. The era ended with a “big bang” of a different type than is theorized as the start of the universe—with the Chicxulub asteroid impact 66 million years ago that ended the lives of most of the dinosaurs, the non-avian lines, and opened up new ecological niches for the next “masters of the universe,” the mammals.

Biology of pathogenic microorganisms

2020 ◽  
pp. 651-656
Author(s):  
Duncan J. Maskell ◽  
James L.N. Wood
Keyword(s):  
Gene Expression ◽  
Ecological Niche ◽  
Rich Source ◽  
Ecological Niches ◽  
Pathogenic Microorganisms ◽  
Evolutionary Processes ◽  
Host Animal ◽  
Host Environment ◽  
The Rich

Microorganisms are present at most imaginable sites on the planet, and have evolved to occupy these ecological niches successfully. A host animal is simply another ecological niche to be occupied. This chapter describes how the ability to cause disease may in some cases be an accidental bystander event, or it may be the result of evolutionary processes that have led to specific mechanisms allowing the pathogen to exploit the rich source of nutrients present in the host, and then be transmitted to another fresh host. Pathogenicity often relies on a series of steps, with specific and often distinct mechanisms operating at each of them. Some types of pathogen must adapt to the host environment by altering gene expression, and most must retain the ability to be transmitted readily between hosts.

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