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Evolutionary biology

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https://www.readbyqxmd.com/read/29679784/a-swinging-seesaw-as-a-novel-model-mechanism-for-time-dependent-hormesis-under-dose-dependent-stimulatory-and-inhibitory-effects-a-case-study-on-the-toxicity-of-antibacterial-chemicals-to-aliivibrio-fischeri
#1
Haoyu Sun, Edward J Calabrese, Min Zheng, Dali Wang, Yongzheng Pan, Zhifen Lin, Ying Liu
Hormesis occurs frequently in broadly ranging biological areas (e.g. plant biology, microbiology, biogerontology), toxicology, pharmacology and medicine. While numerous mechanisms (e.g. receptor and pathway mediated pathway responses) account for stimulatory and inhibitory features of hormetic dose responses, the vast majority emphasizes the inclusion of many doses but only one timepoint or use of a single optimized dose that is assessed over a broad range of timepoints. In this paper, a toxicity study was designed using a large number of properly spaced doses with responses determined over a large number of timepoints, which could help us reveal the underlying mechanism of hormesis...
April 10, 2018: Chemosphere
https://www.readbyqxmd.com/read/29679661/evolutionary-compromises-to-metabolic-toxins-ammonia-and-urea-tolerance-in-drosophila-suzukii-and-drosophila-melanogaster
#2
Virginia Belloni, Alessia Galeazzi, Giulia Bernini, Mauro Mandrioli, Elisabetta Versace, Albrecht Haase
The invasive pest Drosophila suzukii has evolved morphological and behavioural adaptations to lay eggs under the skin of fresh fruits. This results in severe damage to a wide range of small fruits. Drosophila suzukii females typically lay few eggs per fruit, preferring healthy fruits. Hence, larvae are exposed to a reduced amount of nitrogenous waste. Differently, the innocuous Drosophila melanogaster lays eggs on fermented fruits already infested by conspecifics, with larvae developing in a crowded environment with the accumulation of nitrogenous waste such as ammonia and urea...
April 18, 2018: Physiology & Behavior
https://www.readbyqxmd.com/read/29679096/protein-evolution-is-potentially-governed-by-protein-stability-directed-evolution-of-an-esterase-from-the-hyperthermophilic-archaeon-sulfolobus-tokodaii
#3
Ryo Kurahashi, Satoshi Sano, Kazufumi Takano
The study of evolution is important to understand biological phenomena. During evolutionary processes, genetic changes confer amino acid substitutions in proteins, resulting in new or improved functions. Unfortunately, most mutations destabilize proteins. Thus, protein stability is a significant factor in evolution; however, its role remains unclear. Here, we simply and directly explored the association between protein activity and stability in random mutant libraries to elucidate the role of protein stability in evolutionary processes...
April 20, 2018: Journal of Molecular Evolution
https://www.readbyqxmd.com/read/29678658/essentiality-conservation-evolutionary-pressure-and-codon-bias-in-bacterial-genomes
#4
Maddalena Dilucca, Giulio Cimini, Andrea Giansanti
Essential genes constitute the core of genes which cannot be mutated too much nor lost along the evolutionary history of a species. Natural selection is expected to be stricter on essential genes and on conserved (highly shared) genes, than on genes that are either nonessential or peculiar to a single or a few species. In order to further assess this expectation, we study here how essentiality of a gene is connected with its degree of conservation among several unrelated bacterial species, each one characterised by its own codon usage bias...
April 17, 2018: Gene
https://www.readbyqxmd.com/read/29676927/woodpeckers-and-diamonds-some-aspects-of-evolutionary-convergence-in-astrobiology
#5
Milan M Ćirković
Jared Diamond's argument against extraterrestrial intelligence from evolutionary contingency is subjected to critical scrutiny. As with the earlier arguments of George Gaylord Simpson, it contains critical loopholes that lead to its unraveling. From the point of view of the contemporary debates about biological evolution, perhaps the most contentious aspect of such arguments is their atemporal and gradualist usage of the space of all possible biological forms (morphospace). Such usage enables the translation of the adaptive value of a trait into the probability of its evolving...
April 20, 2018: Astrobiology
https://www.readbyqxmd.com/read/29675836/complex-multicellularity-in-fungi-evolutionary-convergence-single-origin-or-both
#6
László G Nagy, Gábor M Kovács, Krisztina Krizsán
Complex multicellularity represents the most advanced level of biological organization and it has evolved only a few times: in metazoans, green plants, brown and red algae and fungi. Compared to other lineages, the evolution of multicellularity in fungi follows different principles; both simple and complex multicellularity evolved via unique mechanisms not found in other lineages. Herein we review ecological, palaeontological, developmental and genomic aspects of complex multicellularity in fungi and discuss general principles of the evolution of complex multicellularity in light of its fungal manifestations...
April 19, 2018: Biological Reviews of the Cambridge Philosophical Society
https://www.readbyqxmd.com/read/29675652/an-alternative-formulation-for-a-distributed-delayed-logistic-equation
#7
Chiu-Ju Lin, Lin Wang, Gail S K Wolkowicz
We study an alternative single species logistic distributed delay differential equation (DDE) with decay-consistent delay in growth. Population oscillation is rarely observed in nature, in contrast to the outcomes of the classical logistic DDE. In the alternative discrete delay model proposed by Arino et al. (J Theor Biol 241(1):109-119, 2006), oscillatory behavior is excluded. This study adapts their idea of the decay-consistent delay and generalizes their model. We establish a threshold for survival and extinction: In the former case, it is confirmed using Lyapunov functionals that the population approaches the delay modified carrying capacity; in the later case the extinction is proved by the fluctuation lemma...
April 19, 2018: Bulletin of Mathematical Biology
https://www.readbyqxmd.com/read/29675137/variation-in-chromosome-number-and-breeding-systems-implications-for-diversification-in-pachycereus-pringlei-cactaceae
#8
Carina Gutiérrez-Flores, José L León-de la Luz, Francisco J García-De León, J Hugo Cota-Sánchez
Polyploidy, the possession of more than two sets of chromosomes, is a major biological process affecting plant evolution and diversification. In the Cactaceae, genome doubling has also been associated with reproductive isolation, changes in breeding systems, colonization ability, and speciation. Pachycereus pringlei (S. Watson, 1885) Britton & Rose, 1909, is a columnar cactus that has long drawn the attention of ecologists, geneticists, and systematists due to its wide distribution range and remarkable assortment of breeding systems in the Mexican Sonoran Desert and the Baja California Peninsula (BCP)...
2018: Comparative Cytogenetics
https://www.readbyqxmd.com/read/29674686/evolutionary-plasticity-of-the-nhl-domain-underlies-distinct-solutions-to-rna-recognition
#9
Pooja Kumari, Florian Aeschimann, Dimos Gaidatzis, Jeremy J Keusch, Pritha Ghosh, Anca Neagu, Katarzyna Pachulska-Wieczorek, Janusz M Bujnicki, Heinz Gut, Helge Großhans, Rafal Ciosk
RNA-binding proteins regulate all aspects of RNA metabolism. Their association with RNA is mediated by RNA-binding domains, of which many remain uncharacterized. A recently reported example is the NHL domain, found in prominent regulators of cellular plasticity like the C. elegans LIN-41. Here we employ an integrative approach to dissect the RNA specificity of LIN-41. Using computational analysis, structural biology, and in vivo studies in worms and human cells, we find that a positively charged pocket, specific to the NHL domain of LIN-41 and its homologs (collectively LIN41), recognizes a stem-loop RNA element, whose shape determines the binding specificity...
April 19, 2018: Nature Communications
https://www.readbyqxmd.com/read/29672100/childhood-trauma-pubertal-timing-and-cardiovascular-risk-in-adulthood
#10
Man-Kit Lei, Steven R H Beach, Ronald L Simons
OBJECTIVE: An association between childhood trauma and adult health outcomes has been widely reported, but little is known about the developmental pathways through which childhood trauma influences adult cardiovascular disease (CVD). METHOD: Hypotheses were tested with a sample of 405 African Americans from the Family and Community Health Study (FACHS). Path modeling was used to test our theoretical model. RESULTS: Replicating prior research, exposure to childhood trauma was associated positively with increases in symptoms of CVD risk across young adulthood even after controlling for a variety of health-related and health behavior covariates...
April 19, 2018: Health Psychology: Official Journal of the Division of Health Psychology, American Psychological Association
https://www.readbyqxmd.com/read/29671759/full-mitogenomes-in-the-critically-endangered-k%C3%A4-k%C3%A4-p%C3%A5-reveal-major-post-glacial-and-anthropogenic-effects-on-neutral-genetic-diversity
#11
Nicolas Dussex, Johanna von Seth, Bruce C Robertson, Love Dalén
Understanding how species respond to population declines is a central question in conservation and evolutionary biology. Population declines are often associated with loss of genetic diversity, inbreeding and accumulation of deleterious mutations, which can lead to a reduction in fitness and subsequently contribute to extinction. Using temporal approaches can help us understand the effects of population declines on genetic diversity in real time. Sequencing pre-decline as well as post-decline mitogenomes representing all the remaining mitochondrial diversity, we estimated the loss of genetic diversity in the critically endangered kākāpō ( Strigops habroptilus )...
April 19, 2018: Genes
https://www.readbyqxmd.com/read/29670240/of-mice-men-and-immunity-a-case-for-evolutionary-systems-biology
#12
Peter B Ernst, Anne-Ruxandra Carvunis
No abstract text is available yet for this article.
May 2018: Nature Immunology
https://www.readbyqxmd.com/read/29669830/evolution-guided-structural-and-functional-analyses-of-the-herc-family-reveals-an-ancient-marine-origin-and-determinants-of-antiviral-activity
#13
Ermela Paparisto, Matthew W Woods, Macon D Coleman, Seyed A Moghadasi, Divjyot S Kochar, Sean K Tom, Hinissan P Kohio, Richard M Gibson, Taryn J Rohringer, Nina R Hunt, Eric J Di Gravio, Jonathan Y Zhang, Meijuan Tian, Yong Gao, Eric J Arts, Stephen D Barr
In humans, 'homologous to the E6-AP carboxyl terminus (HECT) and regulator of chromosome condensation 1 (RCC1)-like domain-containing protein 5' (HERC5) is an interferon-induced protein that inhibits replication of evolutionarily diverse viruses including human immunodeficiency virus type 1 (HIV-1). To better understand the origin, evolution and function of HERC5, we performed phylogenetic, structural and functional analyses of the entire human small HERC family, which includes HERC3, HERC4, HERC5 and HERC6...
April 18, 2018: Journal of Virology
https://www.readbyqxmd.com/read/29668993/accounting-for-age-structure-and-spatial-structure-in-eco-evolutionary-analyses-of-a-large-mobile-vertebrate
#14
Robin S Waples, Kim Scribner, Jennifer Moore, Hope Draheim, Dwayne Etter, Mark Boersen
The idealized concept of a population is integral to ecology, evolutionary biology, and natural resource management. To make analyses tractable, most models adopt simplifying assumptions, which almost inevitably are violated by real species in nature. Here we focus on both demographic and genetic estimates of effective population size per generation (Ne), the effective number of breeders per year (Nb), and Wright's neighborhood size (NS) for black bears (Ursus americanus) that are continuously distributed in the northern lower peninsula of Michigan, USA...
April 14, 2018: Journal of Heredity
https://www.readbyqxmd.com/read/29666616/stem-cell-transcription-factor-foxo-controls-microbiome-resilience-in-hydra
#15
Benedikt M Mortzfeld, Jan Taubenheim, Sebastian Fraune, Alexander V Klimovich, Thomas C G Bosch
The aging process is considered to be the result of accumulating cellular deterioration in an individual organism over time. It can be affected by the combined influence of genetic, epigenetic, and environmental factors including life-style-associated events. In the non-senescent freshwater polyp Hydra , one of the classical model systems for evolutionary developmental biology and regeneration, transcription factor FoxO modulates both stem cell proliferation and innate immunity. This provides strong support for the role of FoxO as a critical rate-of-aging regulator...
2018: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29665035/challenges-of-comprehensive-taxon-sampling-in-comparative-biology-wrestling-with-rosids
#16
Ryan A Folk, Miao Sun, Pamela S Soltis, Stephen A Smith, Douglas E Soltis, Robert P Guralnick
Using phylogenetic approaches to test hypotheses on a large scale, in terms of both species sampling and associated species traits and occurrence data-and doing this with rigor despite all the attendant challenges-is critical for addressing many broad questions in evolution and ecology. However, application of such approaches to empirical systems is hampered by a lingering series of theoretical and practical bottlenecks. The community is still wrestling with the challenges of how to develop species-level, comprehensively sampled phylogenies and associated geographic and phenotypic resources that enable global-scale analyses...
April 17, 2018: American Journal of Botany
https://www.readbyqxmd.com/read/29663622/the-role-of-defensive-symbionts-in-host-parasite-coevolution
#17
Christoph Vorburger, Steve J Perlman
Understanding the coevolution of hosts and parasites is a long-standing goal of evolutionary biology. There is a well-developed theoretical framework to describe the evolution of host-parasite interactions under the assumption of direct, two-species interactions, which can result in arms race dynamics or sustained genotype fluctuations driven by negative frequency dependence (Red Queen dynamics). However, many hosts rely on symbionts for defence against parasites. Whilst the ubiquity of defensive symbionts and their potential importance for disease control are increasingly recognized, there is still a gap in our understanding of how symbionts mediate or possibly take part in host-parasite coevolution...
April 16, 2018: Biological Reviews of the Cambridge Philosophical Society
https://www.readbyqxmd.com/read/29663397/what-explains-high-plant-richness-in-east-asia-time-and-diversification-in-the-tribe-lysimachieae-primulaceae
#18
Hai-Fei Yan, Cai-Yun Zhang, Arne A Anderberg, Gang Hao, Xue-Jun Ge, John J Wiens
What causes the disparity in biodiversity among regions is a fundamental question in biogeography, ecology, and evolutionary biology. Evolutionary and biogeographic processes (speciation, extinction, dispersal) directly determine species richness patterns, and can be studied using integrative phylogenetic approaches. However, the strikingly high richness of East Asia relative to other Northern Hemisphere regions remains poorly understood from this perspective. Here, for the first time, we test two general hypotheses (older colonization time, faster diversification rate) to explain this pattern, using the plant tribe Lysimachieae (Primulaceae) as a model system...
April 17, 2018: New Phytologist
https://www.readbyqxmd.com/read/29662146/why-do-microbes-exhibit-weak-biogeographic-patterns
#19
Kyle M Meyer, Hervé Memiaghe, Lisa Korte, David Kenfack, Alfonso Alonso, Brendan J M Bohannan
Analysis of patterns in the distribution of taxa can provide important insights into ecological and evolutionary processes. Microbial biogeographic patterns almost always appear to be weaker than those reported for plant and animal taxa. It is as yet unclear why this is the case. Some argue that microbial diversity scales differently over space because microbial taxa are fundamentally different in their abundance, longevity and dispersal abilities. Others have argued that differences in scaling are an artifact of how we assess microbial biogeography, driven, for example, by differences in taxonomic resolution, spatial scale, sampling effort or community activity/dormancy...
April 16, 2018: ISME Journal
https://www.readbyqxmd.com/read/29661185/madagascar-ground-gecko-genome-analysis-characterizes-asymmetric-fates-of-duplicated-genes
#20
Yuichiro Hara, Miki Takeuchi, Yuka Kageyama, Kaori Tatsumi, Masahiko Hibi, Hiroshi Kiyonari, Shigehiro Kuraku
BACKGROUND: Conventionally, comparison among amniotes - birds, mammals, and reptiles - has often been approached through analyses of mammals and, for comparison, birds. However, birds are morphologically and physiologically derived and, moreover, some parts of their genomes are recognized as difficult to sequence and/or assemble and are thus missing in genome assemblies. Therefore, sequencing the genomes of reptiles would aid comparative studies on amniotes by providing more comprehensive coverage to help understand the molecular mechanisms underpinning evolutionary changes...
April 16, 2018: BMC Biology
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