scholarly journals Retrotransposon-based genetic variation ofPoa annuapopulations from contrasting climate conditions

PeerJ ◽  
2019 ◽  
Vol 7 ◽  
pp. e6888 ◽  
Author(s):  
Piotr Androsiuk ◽  
Justyna Koc ◽  
Katarzyna Joanna Chwedorzewska ◽  
Ryszard Górecki ◽  
Irena Giełwanowska
Keyword(s):  
Genetic Variation ◽  
Genetic Variability ◽  
Kola Peninsula ◽  
Founder Effect ◽  
Environmental Changes ◽  
High Plasticity ◽  
Demographic Expansion ◽  
The Balkans ◽  
Wide Range ◽  
The Antarctic

BackgroundPoa annuaL. is an example of a plant characterized by abundant, worldwide distribution from polar to equatorial regions. Due to its high plasticity and extraordinary expansiveness,P. annuais considered an invasive species capable of occupying and surviving in a wide range of habitats including pioneer zones, areas intensively transformed by human activities, remote subarctic meadows and even the Antarctic Peninsula region.MethodsIn the present study, we evaluated the utility of inter-primer binding site (iPBS) markers for assessing the genetic variation ofP. annuapopulations representing contrasting environments from the worldwide range of this species. The electrophoretic patterns of polymerase chain reaction products obtained for each individual were used to estimate the genetic diversity and differentiation between populations.ResultsiPBS genotyping revealed a pattern of genetic variation differentiating the six studiedP. annuapopulations characterized by their different climatic conditions. According to the analysis of molecular variance, the greatest genetic variation was recorded among populations, whereas 41.75% was observed between individuals within populations. The results of principal coordinates analysis (PCoA) and model-based clustering analysis showed a clear subdivision of analyzed populations. According to PCoA, populations from Siberia and the Kola Peninsula were the most different from each other and showed the lowest genetic variability. The application of STRUCTURE software confirmed the unique character of the population from the Kola Peninsula.DiscussionThe lowest variability of the Siberia population suggested that it was subjected to genetic drift. However, although demographic expansion was indicated by negative values of Fu’sFSstatistic and analysis of mismatch distribution, it was not followed by significant traces of a bottleneck or a founder effect. For the Antarctic population, the observed level of genetic variation was surprisingly high, despite the observed significant traces of bottleneck/founder effect following demographic expansion, and was similar to that observed in populations from Poland and the Balkans. For the Antarctic population, the multiple introduction events from different sources are considered to be responsible for such an observation. Moreover, the results of STRUCTURE and PCoA showed that theP. annuafrom Antarctica has the highest genetic similarity to populations from Europe.ConclusionsThe observed polymorphism should be considered as a consequence of the joint influence of external abiotic stress and the selection process. Environmental changes, due to their ability to induce transposon activation, lead to the acceleration of evolutionary processes through the production of genetic variability.

scholarly journals A heuristic model on the role of plasticity in adaptive evolution: plasticity increases adaptation, population viability and genetic variation

2013 ◽  
Vol 280 (1771) ◽  
pp. 20131869 ◽  
Author(s):  
Ivan Gomez-Mestre ◽  
Roger Jovani
Keyword(s):  
Genetic Variation ◽  
Adaptive Evolution ◽  
Environmental Changes ◽  
Adaptive Dynamics ◽  
Adaptive Plasticity ◽  
High Plasticity ◽  
Heuristic Model ◽  
Heritable Variation ◽  
Ample Evidence ◽  
Wide Range

An ongoing new synthesis in evolutionary theory is expanding our view of the sources of heritable variation beyond point mutations of fixed phenotypic effects to include environmentally sensitive changes in gene regulation. This expansion of the paradigm is necessary given ample evidence for a heritable ability to alter gene expression in response to environmental cues. In consequence, single genotypes are often capable of adaptively expressing different phenotypes in different environments, i.e. are adaptively plastic. We present an individual-based heuristic model to compare the adaptive dynamics of populations composed of plastic or non-plastic genotypes under a wide range of scenarios where we modify environmental variation, mutation rate and costs of plasticity. The model shows that adaptive plasticity contributes to the maintenance of genetic variation within populations, reduces bottlenecks when facing rapid environmental changes and confers an overall faster rate of adaptation. In fluctuating environments, plasticity is favoured by selection and maintained in the population. However, if the environment stabilizes and costs of plasticity are high, plasticity is reduced by selection, leading to genetic assimilation, which could result in species diversification. More broadly, our model shows that adaptive plasticity is a common consequence of selection under environmental heterogeneity, and hence a potentially common phenomenon in nature. Thus, taking adaptive plasticity into account substantially extends our view of adaptive evolution.

scholarly journals Genetic variation and phylogenetic relationships of Thelymitra javanica (Orchidaceae: Orchidoideae) in East and Central Java, Indonesia

2020 ◽  
Vol 21 (3) ◽  
Author(s):  
I Made Saka Wijaya ◽  
Budi Setiadi Daryono ◽  
Purnomo
Keyword(s):  
Genetic Variation ◽  
New Zealand ◽  
Genetic Variability ◽  
Phylogenetic Relationships ◽  
High Light Intensity ◽  
Likelihood Method ◽  
Phylogenetic Study ◽  
Central Java ◽  
Wide Range ◽  
Its Nrdna

Abstract. Wijaya IMS, Daryono BS, Purnomo. 2020. Genetic variation and phylogenetic relationships of Thelymitra javanica Blume (Orchidaceae: Orchidoideae) in East and Central Java, Indonesia. Biodiversitas 21: 1174-1181. Thelymitra J.R. Forst & G. Forst is a terrestrial orchid genera and mainly distributed in Australia as a center of its diversification. Moreover, Thelymitra javanica Blume is the only species of Thelymitra found in Asia, especially in Indonesia. In Australia and New Zealand, most of Thelymitra species easily found in lowland, whereas, T. javanica in Indonesia preferred to grows near the peaks of mountains around 2,000-3,000 m asl. The high altitude correlated with high light intensity and lower soil nutrients which require specific adaptation of plant to survive. The wide range of adaptation could be due to the presence of genetic variability among populations of Thelymitra. Therefore, this study was carried out to assess the genetic variability and phylogenetic relationships of T. javanica in East and Central Java. The genetic variability of Thelymitra was evaluated by molecular approaches, which is preferably utilized to determine the plant taxonomy to establish the taxonomic uncertainties. ITS-nrDNA is a popular DNA marker that widely used in phylogenetic study among various taxa. Sequences were analyses using Maximum Likelihood method with 11 in-group, 6 interspecies out-group of Thelymitra, and 2 intergeneric out-group of Thelymitrinae subtribe. The result showed that ITS-nrDNA sequences of T. javanica have no variation in nucleotide compositions and showing polytomy branch in cladogram. Thelymitra javanica also has a close relationship with Thelymitra longifolia J.R. Forst & G. Forst that are endemic to New Zealand.

scholarly journals Genetic variability assessment in ‘Muscat’ grapevines including ‘Muscat of Alexandria’ clones from selection programs

2018 ◽  
Vol 16 (2) ◽  
pp. e0702 ◽  
Author(s):  
Rosa Peiró ◽  
Jaume X. Soler ◽  
Andrés Crespo ◽  
Carles Jiménez ◽  
Félix Cabello ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Genetic Variability ◽  
Fragment Length ◽  
Environmental Changes ◽  
Genetic Erosion ◽  
Germplasm Collections ◽  
Length Polymorphisms ◽  
Amplified Fragment Length Polymorphisms ◽  
Cleaved Amplified Polymorphic Sequences ◽  
Ssr Fingerprinting

Genetic variability is needed to face environmental changes and pathogen constrains. In addition, the search for intravarietal variability contributes to the avoidance of genetic erosion, preserving clones that are adapted to particular conditions. Variability is also important to diversify grapevine-derived products. In this work, we have analyzed the genetic variability of ‘Muscat germplasm’ including samples from neglected vineyards from Alicante and Valencia provinces, accessions of the germplasm collections of ‘Colección de Vides de El Encín’ (Alcalá de Henares, Madrid) and ‘La Casa de las Vides’ (Agullent, Valencia), accessions supplied by nurseries of Valencia province, and ‘Muscat of Alexandria’ clones selected using differential ampelographic characteristics in selection programs (La Marina, Alicante). Fifteen microsatellites (SSRs) were used to study intervarietal variability. The SSR fingerprinting allowed the identification of some accessions, variants, and synonymies. Amplified Fragment Length Polymorphisms (AFLPs) markers and Microsatellite-AFLPs were used to determine the variability attended in ‘Muscat of Alexandria’ accessions. A CAPs (Cleaved Amplified Polymorphic Sequences) marker, recently developed for the discrimination of ‘Muscat’ flavor genotypes using the SNP1822 G>T, was assessed and showed that all the analyzed accessions were ‘Muscat’ flavored. The variation found among the analyzed germplasm is very interesting because variants within ‘Muscat of Alexandria’, ‘Muscat Italia’, and ‘Muscat d’Istambul’ have been identified. In addition, intravarietal genetic variation was found among the analyzed accessions in ‘Muscat of Alexandria’ from selection programs.

Maintenance of Quantitative Genetic Variation

2018 ◽  
Author(s):  
Bruce Walsh ◽  
Michael Lynch
Keyword(s):  
Genetic Variation ◽  
Quantitative Genetics ◽  
Stabilizing Selection ◽  
Quantitative Genetic ◽  
Wide Range

One of the major unresolved issues in quantitative genetics is what accounts for the amount of standing genetic variation in traits. A wide range of models, all reviewed in this chapter, have been proposed, but none fit the data, either giving too much variation or too little apparent stabilizing selection.

scholarly journals Early Balkan Metallurgy: Origins, Evolution and Society, 6200–3700 BC

2021 ◽  
Author(s):  
Miljana Radivojević ◽  
Benjamin W. Roberts
Keyword(s):  
Metal Production ◽  
The Balkans ◽  
Archaeological Data ◽  
Tin Bronze ◽  
Wide Range ◽  
Production Distribution ◽  
Societal Context ◽  
Copper Gold ◽  
Production Techniques ◽  
Early Metallurgy

AbstractThis paper analyses and re-evaluates current explanations and interpretations of the origins, development and societal context of metallurgy in the Balkans (c. 6200–3700 BC). The early metallurgy in this region encompasses the production, distribution and consumption of copper, gold, tin bronze, lead and silver. The paper draws upon a wide range of existing archaeometallurgical and archaeological data, the diversity and depth of which make the Balkans one of the most intensively investigated of all early metallurgical heartlands across the world. We focus specifically on the ongoing debates relating to (1) the independent invention and innovation of different metals and metal production techniques; (2) the analysis and interpretation of early metallurgical production cores and peripheries, and their collapses; and (3) the relationships between metals, metallurgy and society. We argue that metal production in the Balkans throughout this period reflects changes in the organisation of communities and their patterns of cooperation, rather than being the fundamental basis for the emergence of elites in an increasingly hierarchical society.

scholarly journals Identification of Putative Virulence Genes by DNA Methylation Studies in the Cereal Pathogen Fusarium graminearum

Cells ◽  
2021 ◽  
Vol 10 (5) ◽  
pp. 1192
Author(s):  
Francesco Tini ◽  
Giovanni Beccari ◽  
Gianpiero Marconi ◽  
Andrea Porceddu ◽  
Micheal Sulyok ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Fusarium Graminearum ◽  
Environmental Changes ◽  
Virulent Strain ◽  
Fungal Virulence ◽  
Wheat Seedlings ◽  
Wide Range ◽  
Conidia Production ◽  
Natural Hosts

DNA methylation mediates organisms’ adaptations to environmental changes in a wide range of species. We investigated if a such a strategy is also adopted by Fusarium graminearum in regulating virulence toward its natural hosts. A virulent strain of this fungus was consecutively sub-cultured for 50 times (once a week) on potato dextrose agar. To assess the effect of subculturing on virulence, wheat seedlings and heads (cv. A416) were inoculated with subcultures (SC) 1, 23, and 50. SC50 was also used to re-infect (three times) wheat heads (SC50×3) to restore virulence. In vitro conidia production, colonies growth and secondary metabolites production were also determined for SC1, SC23, SC50, and SC50×3. Seedling stem base and head assays revealed a virulence decline of all subcultures, whereas virulence was restored in SC50×3. The same trend was observed in conidia production. The DNA isolated from SC50 and SC50×3 was subject to a methylation content-sensitive enzyme and double-digest, restriction-site-associated DNA technique (ddRAD-MCSeEd). DNA methylation analysis indicated 1024 genes, whose methylation levels changed in response to the inoculation on a healthy host after subculturing. Several of these genes are already known to be involved in virulence by functional analysis. These results demonstrate that the physiological shifts following sub-culturing have an impact on genomic DNA methylation levels and suggest that the ddRAD-MCSeEd approach can be an important tool for detecting genes potentially related to fungal virulence.

scholarly journals Microglial Pruning: Relevance for Synaptic Dysfunction in Multiple Sclerosis and Related Experimental Models

Cells ◽  
2021 ◽  
Vol 10 (3) ◽  
pp. 686
Author(s):  
Maria Concetta Geloso ◽  
Nadia D’Ambrosi
Keyword(s):  
Multiple Sclerosis ◽  
Neuronal Death ◽  
Environmental Changes ◽  
Experimental Models ◽  
Synaptic Dysfunction ◽  
Synapse Elimination ◽  
Neurodegenerative Process ◽  
Immune Mediated ◽  
Wide Range ◽  
Demyelinating Lesions

Microglia, besides being able to react rapidly to a wide range of environmental changes, are also involved in shaping neuronal wiring. Indeed, they actively participate in the modulation of neuronal function by regulating the elimination (or “pruning”) of weaker synapses in both physiologic and pathologic processes. Mounting evidence supports their crucial role in early synaptic loss, which is emerging as a hallmark of several neurodegenerative diseases, including multiple sclerosis (MS) and its preclinical models. MS is an inflammatory, immune-mediated pathology of the white matter in which demyelinating lesions may cause secondary neuronal death. Nevertheless, primitive grey matter (GM) damage is emerging as an important contributor to patients’ long-term disability, since it has been associated with early and progressive cognitive decline (CD), which seriously worsens the quality of life of MS patients. Widespread synapse loss even in the absence of demyelination, axon degeneration and neuronal death has been demonstrated in different GM structures, thus raising the possibility that synaptic dysfunction could be an early and possibly independent event in the neurodegenerative process associated with MS. This review provides an overview of microglial-dependent synapse elimination in the neuroinflammatory process that underlies MS and its experimental models.

scholarly journals Enhancing the resilience of coupled human and natural systems of alpine rangelands on the Qinghai-Tibetan Plateau

2015 ◽  
Vol 37 (1) ◽  
pp. i ◽  
Author(s):  
Shikui Dong ◽  
Ruth Sherman
Keyword(s):  
Tibetan Plateau ◽  
Science Policy ◽  
Sustainable Management ◽  
Environmental Changes ◽  
Policy Design ◽  
Rangeland Management ◽  
Special Issue ◽  
Natural Systems ◽  
Wide Range ◽  
Science Policy Interface

This special issue covers a wide range of topics on the protection and sustainable management of alpine rangelands on the Qinghai-Tibetan Plateau (QTP), including Indigenous knowledge of sustainable rangeland management, science-policy interface for alpine rangeland biodiversity conservation, adaptations of local people to social and environmental changes and policy design for managing coupled human-natural systems of alpine rangelands.

Genetic variability and demographic history of Heliothis virescens (Lepidoptera: Noctuidae) populations from Brazil inferred by mtDNA sequences

2011 ◽  
Vol 102 (3) ◽  
pp. 333-343 ◽  
Author(s):  
K.C. Albernaz ◽  
K.L. Silva-Brandão ◽  
P. Fresia ◽  
F.L. Cônsoli ◽  
C. Omoto
Keyword(s):  
Genetic Structure ◽  
Genetic Variability ◽  
Heliothis Virescens ◽  
Demographic History ◽  
Haplotype Diversity ◽  
Low Frequency ◽  
Haplotype Network ◽  
Demographic Expansion ◽  
Significant Genetic Structure ◽  
History Of

AbstractIntra- and inter-population genetic variability and the demographic history of Heliothis virescens (F.) populations were evaluated by using mtDNA markers (coxI, coxII and nad6) with samples from the major cotton- and soybean-producing regions in Brazil in the growing seasons 2007/08, 2008/09 and 2009/10. AMOVA indicated low and non-significant genetic structure, regardless of geographical scale, growing season or crop, with most of genetic variation occurring within populations. Clustering analyzes also indicated low genetic differentiation. The haplotype network obtained with combined datasets resulted in 35 haplotypes, with 28 exclusive occurrences, four of them sampled only from soybean fields. The minimum spanning network showed star-shaped structures typical of populations that underwent a recent demographic expansion. The recent expansion was supported by other demographic analyzes, such as the Bayesian skyline plot, the unimodal distribution of paired differences among mitochondrial sequences, and negative and significant values of neutrality tests for the Tajima's D and Fu's FS parameters. In addition, high values of haplotype diversity (Ĥ) and low values of nucleotide diversity (π), combined with a high number of low frequency haplotypes and values of θπ<θW, suggested a recent demographic expansion of H. virescens populations in Brazil. This demographic event could be responsible for the low genetic structure currently found; however, haplotypes present uniquely at the same geographic regions and from one specific host plant suggest an initial differentiation among H. virescens populations within Brazil.

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