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"Farrera, P"
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Challenging local realism with human choices
2018
A Bell test is a randomized trial that compares experimental observations against the philosophical worldview of local realism
1
, in which the properties of the physical world are independent of our observation of them and no signal travels faster than light. A Bell test requires spatially distributed entanglement, fast and high-efficiency detection and unpredictable measurement settings
2
,
3
. Although technology can satisfy the first two of these requirements
4
–
7
, the use of physical devices to choose settings in a Bell test involves making assumptions about the physics that one aims to test. Bell himself noted this weakness in using physical setting choices and argued that human ‘free will’ could be used rigorously to ensure unpredictability in Bell tests
8
. Here we report a set of local-realism tests using human choices, which avoids assumptions about predictability in physics. We recruited about 100,000 human participants to play an online video game that incentivizes fast, sustained input of unpredictable selections and illustrates Bell-test methodology
9
. The participants generated 97,347,490 binary choices, which were directed via a scalable web platform to 12 laboratories on five continents, where 13 experiments tested local realism using photons
5
,
6
, single atoms
7
, atomic ensembles
10
and superconducting devices
11
. Over a 12-hour period on 30 November 2016, participants worldwide provided a sustained data flow of over 1,000 bits per second to the experiments, which used different human-generated data to choose each measurement setting. The observed correlations strongly contradict local realism and other realistic positions in bipartite and tripartite
12
scenarios. Project outcomes include closing the ‘freedom-of-choice loophole’ (the possibility that the setting choices are influenced by ‘hidden variables’ to correlate with the particle properties
13
), the utilization of video-game methods
14
for rapid collection of human-generated randomness, and the use of networking techniques for global participation in experimental science.
The BIG Bell Test, which used an online video game with 100,000 participants worldwide to provide random bits to 13 quantum physics experiments, contradicts the Einstein–Podolsky–Rosen worldview of local realism.
Journal Article
Cycad classification: concepts and recommendations
2004
Cycads resemble palms, but are taxonomically quite different. They are a significant and irreplaceable component of the planet's biological diversity, having evolved various and often unique morphological, anatomical and biochemical features during their 250-million-year evolutionary history. Many cycad species exist today only as small, poorly-known or isolated populations or as ornamental species in botanic gardens. In order to understand fully, as well as to conserve, this internationally endangered tropical plant group, it is paramount that cycad systematics is studied, documented and refined.This volume presents the current state of our knowledge of the systematics of the approximately 300 species of cycads. It includes contributions from leading researchers from Australia, China, Italy, Mexico, South Africa, Thailand and the USA. It has been developed from papers presented at a workshop held in 2002 at the Montgomery Botanical Center.
Challenging local realism with human choices
by
González, P
,
Magnard, P
,
Ursin, R
in
Computer & video games
,
Correlation analysis
,
Entanglement
2018
A Bell test is a randomized trial that compares experimental observations against the philosophical worldview of local realism. A Bell test requires spatially distributed entanglement, fast and high-efficiency detection and unpredictable measurement settings. Although technology can satisfy the first two of these requirements, the use of physical devices to choose settings in a Bell test involves making assumptions about the physics that one aims to test. Bell himself noted this weakness in using physical setting choices and argued that human `free will' could be used rigorously to ensure unpredictability in Bell tests. Here we report a set of local-realism tests using human choices, which avoids assumptions about predictability in physics. We recruited about 100,000 human participants to play an online video game that incentivizes fast, sustained input of unpredictable selections and illustrates Bell-test methodology. The participants generated 97,347,490 binary choices, which were directed via a scalable web platform to 12 laboratories on five continents, where 13 experiments tested local realism using photons, single atoms, atomic ensembles, and superconducting devices. Over a 12-hour period on 30 November 2016, participants worldwide provided a sustained data flow of over 1,000 bits per second to the experiments, which used different human-generated data to choose each measurement setting. The observed correlations strongly contradict local realism and other realistic positions in bipartite and tripartite scenarios. Project outcomes include closing the `freedom-of-choice loophole' (the possibility that the setting choices are influenced by `hidden variables' to correlate with the particle properties), the utilization of video-game methods for rapid collection of human generated randomness, and the use of networking techniques for global participation in experimental science.
Niche conservatism promotes speciation in cycads
2020
• Niche conservatism is the tendency of lineages to retain the same niche as their ancestors. It constrains biological groups and prevents ecological divergence. However, theory predicts that niche conservatism can hinder gene flow, strengthen drift and increase local adaptation: does it mean that it also can facilitate speciation? Why does this happen? We aim to answer these questions.
• We examined the variation of chloroplast DNA, genome-wide single nucleotide polymorphisms, morphological traits and environmental variables across the Dioon merolae cycad populations. We tested geographical structure, scenarios of demographic history, and niche conservatism between population groups.
• Lineage divergence is associated with the presence of a geographical barrier consisting of unsuitable habitats for cycads. There is a clear genetic and morphological distinction between the geographical groups, suggesting allopatric divergence. However, even in contrasting available environmental conditions, groups retain their ancestral niche, supporting niche conservatism.
• Niche conservatism is a process that can promote speciation. In D. merolae, lineage divergence occurred because unsuitable habitats represented a barrier against gene flow, incurring populations to experience isolated demographic histories and disparate environmental conditions. This study explains why cycads, despite their ancient lineage origin and biological stasis, have been able to diversify into modern ecosystems worldwide.
Journal Article
Aridification as a driver of biodiversity: a case study for the cycad genus Dioon (Zamiaceae)
by
Watano, Yasuyuki
,
Said Gutiérrez-Ortega, José
,
Angel Pérez-Farrera, Miguel
in
arid zones
,
Biodiversity
,
Biological Evolution
2018
Aridification is considered a selective pressure that might have influenced plant diversification. It is suggested that plants adapted to aridity diversified during the Miocene, an epoch of global aridification (≈15 million years ago). However, evidence supporting diversification being a direct response to aridity is scarce, and multidisciplinary evidence, besides just phylogenetic estimations, is necessary to support the idea that aridification has driven diversification. The cycad genus Dioon (Zamiaceae), a tropical group including species occurring from humid forests to arid zones, was investigated as a promising study system to understand the associations among habitat shifts, diversification times, the evolution of leaf epidermal adaptations, and aridification of Mexico.
A phylogenetic tree was constructed from seven chloroplast DNA sequences and the ITS2 spacer to reveal the relationships among 14 Dioon species from habitats ranging from humid forests to deserts. Divergence times were estimated and the habitat shifts throughout Dioon phylogeny were detected. The epidermal anatomy among Dioon species was compared and correlation tests were performed to associate the epidermal variations with habitat parameters.
Events of habitat shifts towards arid zones happened exclusively in one of the two main clades of Dioon. Such habitat shifts happened during the species diversification of Dioon, mainly during the Miocene. Comparative anatomy showed epidermal differences between species from arid and mesic habitats. The variation of epidermal structures was found to be correlated with habitat parameters. Also, most of the analysed epidermal traits showed significant phylogenetic signals.
The diversification of Dioon has been driven by the aridification of Mexico. The Miocene timing corresponds to the expansion of arid zones that embedded the ancestral Dioon populations. As response, species in arid zones evolved epidermal traits to counteract aridity stress. This case study provides a robust body of evidence supporting the idea that aridification is an important driver of biodiversity.
Journal Article
The phylogeography of the cycad genus Dioon (Zamiaceae) clarifies its Cenozoic expansion and diversification in the Mexican transition zone
by
Salinas-Rodríguez, María Magdalena
,
Matsuki, Yu
,
Watano, Yasuyuki
in
ancestry
,
Central America
,
chloroplast DNA
2018
Biogeographic transition zones are promising areas to study processes of biogeographic evolution and its influence on biological groups. The Mexican transition zone originated due to the overlap of Nearctic and Neotropical biota, which promoted great biological diversification. However, since most previous studies in this area were focused on revealing the phylogeography of Nearctic plants, how historical biogeographic configuration influenced the expansion and diversification of the Neotropical flora remains almost unknown. Using the cycad genus Dioon (Zamiaceae), this study aimed to test whether the biogeographic provinciality of the Mexican transition zone reflects the history of diversification of Neotropical plants.
Two chloroplast DNA (cpDNA) regions were analysed from 101 specimens of 15 Dioon species to reveal the distribution of haplogroups. In addition, genome-wide single nucleotide polymorphisms (SNPs) from 84 specimens were used to test the concordance between phylogenetic clusters and the biogeographic provinces. An ultrametric tree was constructed from the sequences containing SNPs to reconstruct the biogeographic events of vicariance and dispersal of Dioon across the Neotropical biogeographic provinces.
Four Dioon lineages with strong phylogeographic structures were recognized using both cpDNA and SNP data. The lineages correspond to two clades that originated from a common ancestor in Eastern Mexico. One clade expanded and diversified in South-east Mexico and Central America. Another clade diversified into three lineages that dispersed to North-east, South and North-west Mexico. Each lineage was biogeographically delimitated. Biogeographic provinces might have provided disparate ecological conditions that facilitated speciation in Dioon since the Miocene.
The current genetic structure and species diversity of Dioon depict the history of expansion and diversification of the northernmost Neotropical provinces. Past biogeographic connectivities were favoured by elevated topographies, since mountain systems served as corridors for the migration of Dioon and as refugia of tropical communities that diversified during the formation of modern Neotropical forests.
Journal Article
Speciation along a latitudinal gradient: The origin of the Neotropical cycad sister pair Dioon sonorense–D. vovidesii (Zamiaceae)
2021
Latitude is correlated with environmental components that determine the distribution of biodiversity. In combination with geographic factors, latitude‐associated environmental variables are expected to influence speciation, but empirical evidence on how those factors interplay is scarce. We evaluated the genetic and environmental variation among populations in the pair of sister species Dioon sonorense–D. vovidesii, two cycads distributed along a latitudinal environmental gradient in northwestern Mexico, to reveal their demographic histories and the environmental factors involved in their divergence. Using genome‐wide loci data, we determined the species delimitation, estimated the gene flow, and compared multiple demographic scenarios of divergence. Also, we estimated the variation of climatic variables among populations and used ecological niche models to test niche overlap between species. The effect of geographic and environmental variables on the genetic variation among populations was evaluated using linear models. Our results suggest the existence of a widespread ancestral population that split into the two species ~829 ky ago. The geographic delimitation along the environmental gradient occurs in the absence of major geographic barriers, near the 28th parallel north, where a zonation of environmental seasonality exists. The northern species, D. vovidesii, occurs in more seasonal environments but retains the same niche of the southern species, D. sonorense. The genetic variation throughout populations cannot be solely explained by stochastic processes; the latitudinal‐associated seasonality has been an additive factor that strengthened the species divergence. This study represents an example of how speciation can be achieved by the effect of the latitude‐associated factors on the genetic divergence among populations. We reconstructed the history of lineage divergence that gave origin to the sister cycad species Dioon sonorense–D. vovidesii from northwestern Mexico. We found that the two lineages split approximately 1 million years ago, and their current geographic separation is concordant with the environmental seasonality variation associated with the latitudinal environmental gradient that, in turn, determines the margin of the Neotropical forests. The divergence that led to speciation was promoted by (a) a geographic component that separated the two neighboring lineages, and (b) an environmental component that increased the distinction between them.
Journal Article
Molecular and Morphological Phylogenetic Analyses of New World Cycad Beetles: What They Reveal about Cycad Evolution in the New World
2018
Two major lineages of beetles inhabit cycad cones in the New World: weevils (Curculionoidea) in the subtribe Allocorynina, including the genera Notorhopalotria Tang and O’Brien, Parallocorynus Voss, Protocorynus O’Brien and Tang and Rhopalotria Chevrolat, and beetles in the family Erotylidae, including the genus Pharaxonotha Reitter. Analysis of the 16S ribosomal RNA (rRNA) mitochondrial gene as well as cladistic analysis of morphological characters of the weevils indicate four major radiations, with a probable origin on the cycad genus Dioon Lindl. and comparatively recent host shifts onto Zamia L. Analysis of the 16S rRNA gene for erotylid beetles indicates that an undescribed genus restricted to New World Ceratozamia Brongn. is the most early-diverging clade, and this lineage is sister to a large radiation of the genus Pharaxonotha onto Zamia, with apparent host shifts onto Dioon and Ceratozamia. Analysis of beetles are in accord with current models of continental drift in the Caribbean basin, support some proposed species groupings of cycads, but not others, and suggest that pollinator type may impact population genetic structure in their host cycads.
Journal Article
Considering evolutionary processes in cycad conservation: identification of evolutionarily significant units within Dioon sonorense (Zamiaceae) in northwestern Mexico
by
Matsuki, Yu
,
Watano, Yasuyuki
,
Pérez-Farrera, Miguel Angel
in
Biodiversity
,
Conservation
,
Cycas
2018
Cycads are considered to be the most threatened plant group on Earth. Thus, the identification of important biological units for conservation is crucial for their management and protection. Taxonomic studies have enormously contributed to cycad conservation, since species descriptions formally recognize biodiversity components that can be considered in conservation. However, because multidisciplinary studies that evaluate the biodiversity within cycad species are almost non-existent intraspecific evolutionarily significant units (ESUs) have not been considered when making conservation plans. The cycad Dioon sonorense (Zamiaceae) has a relatively wide distribution range along a vegetation gradient in Northwest Mexico: the southern populations of D. sonorense occur in tropical forests, whereas the northern populations occur in more xeric environments in the Sonoran Desert. Although both habitats might have promoted important evolutionary trends within D. sonorense, only the southern populations are being conserved. Here, we evaluated whether intrinsic differentiation among populations of D. sonorense exists, and whether northern populations may merit attention in conservation programs. We analyzed the variation of genome-wide loci to evaluate the genetic structure among six populations. We found two clusters, northern and southern, that can be recognized using 361 neutral loci. Such genetic structure is consistent with the differentiation observed from the variation of 16 macromorphological and 9 epidermal traits. Southern and northern regions are clearly differentiated in genetic, morphological and anatomical analyses. These multidisciplinary results suggest that the northernmost populations of D. sonorense represent an ESU that should be included in conservation programs. This study highlights that the evaluation of intraspecific variation may contribute effective strategies for cycad conservation, and that evolutionary processes should be considered in the delimitation of conservation units.
Journal Article
Ceratozamia aurantiaca (Zamiaceae): A New Cycad Species from the Northern Rainforests of Oaxaca, Mexico
by
Silvia H. Salas-Morales
,
Miguel Angel Pérez-Farrera
,
Jody L. Haynes
in
Biology (General)
,
botanic gardens
,
cycads
2021
Ceratozamia aurantiaca, a new cycad species from Oaxaca, Mexico, is described. The new species is endemic to lowland karst tropical rainforests of the northern mountains (Sierra Norte region). This species is related to C. subroseophylla and C. robusta, together considered part of the C. robusta species complex due to their shared characteristics: robust, upright trunk; large and long leaves with densely armed petioles and linear to subfalcate leaflets; and large megastrobili. Ceratozamia aurantiaca, as the epithet suggests, is easily distinguished from other species by the orange color of its emerging leaves, a trait unique in the genus. Additionally, C. aurantiaca is distinguished from C. subroseophylla and C. robusta by having significantly shorter petioles, wider spacing between leaflets, and wider median leaflets. The taxonomic recognition of this species represents a step toward clarifying species delimitation in the C. robusta complex.
Journal Article