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Items tagged with: evolution
Happy to see the first experimental project I led finally out in the world! With Jeremy Moore, Sydney Olsen, and Mike Travisano
We combined experimental evolution and mathematical modeling to ask: do bacteria evolve to swim away from phages?
1/n
doi.org/10.1101/2023.04.29.538…
#microbiology #evolution #ecology #phages #phage #bacteria #MicrobialEvolution #MicrobialEcology
Fight not flight: parasites drive the bacterial evolution of resistance, not avoidance
In the face of ubiquitous threats from parasites, hosts often evolve strategies to resist infection or to altogether avoid contact with parasites. At the microbial scale, bacteria frequently encounter viral parasites, bacteriophages.bioRxiv
'Our findings demonstrate that developmental bias in fly wings predicts evolvability and macroevolutionary trajectories on a much greater scale than previously appreciated but also suggest that causal explanations for such alignments may go beyond simple constraint hypotheses.'
#Evolution #EvoDevo
pnas.org/doi/10.1073/pnas.2211…
Cheating leads to the evolution of multipartite viruses
In multipartite viruses, the genome is split into multiple segments, each of which is transmitted via a separate capsid.plos.io
Looks pretty cool
Mycorrhizas drive the evolution of plant adaptation to drought
nature.com/articles/s42003-023…
#evolution #coevolution #plants #fungi
Mycorrhizas drive the evolution of plant adaptation to drought - Communications Biology
Phylogenetic comparative analysis using data of 1,638 species of angiosperms and gymnosperms suggests that the evolution of plant adaptation to critical environmental change in water availability across global climates is dependent on mycorrhizas.Nature
Non-structural genes of novel lemur adenoviruses reveal codivergence of virus and host
academic.oup.com/ve/advance-ar…
Non-structural genes of novel lemur adenoviruses reveal codivergence of virus and host
Abstract. Adenoviruses are important human and animal pathogens, and are frequently used as vectors for gene therapy and vaccine delivery. Surprisingly, there aVeith, Talitha (Oxford University Press)
#eukaryotes #protists #evolution #anaerobes #mitochondria
Fascinating study on #genome #evolution :
Scaling of Protein Function Across the Tree of Life
"The abundance of functional categories in a given genome scales with genome size, suggesting that universal constraints shape category abundance. Here we look across the tree of life to understand how genome evolution may be related to functional scaling. "
biorxiv.org/content/10.1101/20…
Scaling of Protein Function Across the Tree of Life
Scaling laws are a powerful way to compare genomes because they put all organisms onto a single curve and reveal non-trivial generalities as genomes change in size.bioRxiv
Influenza A virus coinfection dynamics are shaped by distinct virus-virus interactions within and between cells
journals.plos.org/plospathogen…
Influenza A virus coinfection dynamics are shaped by distinct virus-virus interactions within and between cells
Author summary The co-occurrence of distinct virus populations within a single host occurs commonly, when an individual acquires a second infection before a prior one has been cleared.journals.plos.org
#evolution #science #microbiology #experiments #time #TimeTravel
#sciart #science #evolution #evolutionarybiology #phylogenetics #illustration #viz #art #visualization #biology
PhyloPic
PhyloPic is an open database of free silhouette images of animals, plants, and other life forms, available for reuse under Creative Commons licenses.Mike Keesey (PhyloPic)
#childrensbooks #kidlit #reading #science #ecology #Evolution
Homology of DNA import systems in #archaea to the #conjugation transport systems in #bacteria.
New research in Nature Communications on: nature.com/articles/s41467-023…
#microbiology #HorizontalGeneTransfer #evolution
Archaeal DNA-import apparatus is homologous to bacterial conjugation machinery - Nature Communications
Bacteria can exchange DNA through extracellular appendages (‘mating pili’) in a process known as conjugation. Here, Beltran et al.Nature
Decades-old #crustaceans coaxed from lake mud give up genetic secrets revealing #evolution in action
phys.org/news/2023-02-decades-…
Resurrection #genomics provides molecular and phenotypic evidence of rapid adaptation to #salinization in a keystone aquatic species pnas.org/doi/10.1073/pnas.2217…
They revived decades-old #Daphnia resting eggs from lake sediments. Tanners Lake has suffered significant salt #pollution, stemming from the widespread use of road deicing salts in its watershed.
Decades-old crustaceans coaxed from lake mud give up genetic secrets revealing evolution in action
Human actions are changing the environment at an unprecedented rate. Plant and animal populations must try to keep up with these human-accelerated changes, often by trying to rapidly evolve tolerance to changing conditions.Science X (Phys.org)
In another Perspective, @RokasLab & @jlsteenwyk look at the effect that relaxed phylogenetics (first published in #PLOSBiology in 2006 by @alexeidrummond &co) has had on the field of #evolution plos.io/3XW1AEu
4/4
The dawn of relaxed phylogenetics
In 2006, a landmark study on relaxed phylogenetics was published in PLOS Biology. This Perspective discusses how relaxed phylogenetics has influenced the field of evolutionary biology by enabling researchers to investigate evolution’s tempo.plos.io
Re-reading a excellent paper by @ariskatzourakis on Maverick/Polinton mobile elements:
Phylogenomics of the Maverick Virus-Like Mobile Genetic Elements of Vertebrates
Nicely underscores the emerging importance of large DNA transposons/EVEs in eukaryotic evolution
"We conclude that vertebrate Mavericks form an ancient lineage of aquatic dsDNA viruses which are probably still functional in some vertebrate lineages."
academic.oup.com/mbe/article/3…
#transposons #genetics #evolution
Phylogenomics of the Maverick Virus-Like Mobile Genetic Elements of Vertebrates
Abstract. Mavericks are virus-like mobile genetic elements found in the genomes of eukaryotes. Although Mavericks encode capsid morphogenesis homologs, their viBarreat, Jose Gabriel Nino (Oxford University Press)
#Microbiology #Evolution #ExperimentalEvolution #EcoEvo #popgen #PopulationDynamics #Genomics
Quantifying the local adaptive landscape of a nascent bacterial community - Nature Communications
Fitness landscapes largely shape the dynamics of evolution, but it is unclear how they shift upon ecological diversification. By engineering genome-wide knockout libraries of a nascent bacterial community, Ascensao et al.Nature
#Bostrichidae #beetles have two #symbionts with important functions. One encodes the pathways to produce tyrosine precursors and is presumably involved in #cuticle and #exoskeleton formation. The second recycles urea, synthesizes lysine, and is strictly #evolving with its host. These types of "dual symbioses" have only been described in sap-feeding #Hemiptera.
#Biology #Entomology #Evolution #Bacteria #Coevolution #Genome
biorxiv.org/content/10.1101/20…
Cuticle supplementation and nitrogen recycling by a dual bacterial symbiosis in a family of xylophagous beetles (Coleoptera: Bostrichidae)
Many insects engage in stable nutritional symbioses with bacteria that supplement limiting essential nutrients to their host.bioRxiv
RT @BockLab@twitter.com
Our “epigenetic zoo” is finally published! DNA methylation profiles for 580 animal species and 2443 tissue samples provide an evolutionary perspective on the epigenome.
Full paper: nature.com/articles/s41467-022… (open access) #epigenome #evolution #crossspecies #epigenetics [1/9]
🐦🔗: twitter.com/BockLab/status/161…
Comparative analysis of genome-scale, base-resolution DNA methylation profiles across 580 animal species - Nature Communications
DNA methylation is involved in regulatory processes throughout the animal kingdom. Here, the authors map DNA methylation in 535 vertebrates and 45 invertebrates, establishing a reference dataset for cross-species analysis and exploring epigenetic var…Nature
Current advances in primate genomics: novel approaches for understanding evolution and disease
nature.com/articles/s41576-022…
#genomics #genetics #evolution
Current advances in primate genomics: novel approaches for understanding evolution and disease - Nature Reviews Genetics
In this Review, the authors describe how advances in comparative primate genomics — complemented by multi-layered omic resources and primate cell systems — are providing insights into the evolution of primates and the genetic underpinnings of key tra…Nature
Reading up on the role of transposons in genome evolution, and finding this classic review from a few years ago very helpful:
Ten things you should know about transposable elements
genomebiology.biomedcentral.co…
#genomics #transposons #evolution #genetics
Ten things you should know about transposable elements - Genome Biology
Transposable elements (TEs) are major components of eukaryotic genomes. However, the extent of their impact on genome evolution, function, and disease remain a matter of intense interrogation.BioMed Central
"In light of this development, there has clearly been a paradigm shift away from the sexual stereotypes dominating the early era of sexual selection research towards a more nuanced viewpoint acknowledging that females can be subject to sexual selection too. This progress was substantially fostered by the rise of molecular paternity analyses in the early 1990s revealing that females of many putatively monogamous species are actually polyandrous [25]—also called the “polyandry revolution” [26], which spurred the quest for understanding the adaptive significance of multiple mating from a female perspective."
#Evolution #EvolutionaryBiology #SexualSelection
journals.plos.org/plosbiology/…
Sexual selection in females and the evolution of polyandry
Over the last decades, the field of sexual selection underwent a paradigm shift from sexual-stereotype thinking of “eager” males and “coy” females towards a more nuanced perspective acknowledging that not only males but also females can benefit from …journals.plos.org
Did you miss our round-up of #ecology & #evolution content published in our journals this year? Browse the collection and consider submitting your work today!
embopress.org/page/collections…
@embojournal @emboreports @MolSystBiol @EmboMolMed Illustration © SciStories LLC
Happy to announce this #preprint , the culmination of last 10 years. 🥳
We find that #antimicrobialpeptides are evolved to control specific #microbiome #bacteria. This example is a textbook case of host #immune #evolution being shaped by the microbiome 🦠 which depends on host #ecology.
Thanks for comments! Bit of an experiment: we are posting pre-submit to get feedback 🙂.
biorxiv.org/content/10.1101/20…
#immunity #Drosophila #EvolutionaryBiology #inflammation #NFkB
Single innate immune effectors control ecological microbiome bacteria across evolutionary timescales
Antimicrobial peptides are host-encoded antibiotics that combat invading microbes and help shape the microbiome in plants and animals.bioRxiv
When I started my lab a few years ago I started building up an in-house library for students. Two of the first books I bought are The Logic of Chance (Eugene Koonin) and The Origins of Genome Architecture (Michael Lynch). Both are remarkable books that discuss genomics in the context of microbial diversity and the tree of life.
What other genomics/evolution classics do people always keep around?
#genomics #bioinformatics #evolution #microbiology
Still one of my favorite science music videos of all time. That and "The Molecular Shape of You" is some of the best sci-comms I have ever seen. Zero infantalization and rewarding on all levels.
Evo-Devo (Despacito Biology Parody) | A Capella Science
This is how we go from single cells to people.Support A Capella Science: http://patreon.com/acapellascienceSubscribe! https://www.youtube.com/subscription_ce...YouTube
This article is a good overview of some of the problems with neo-darwinism: panspermia.org/neodarw.htm
Darwin, as mentioned before, might himself have accepted the results that Dr. Hahn discovered and personally presented to him.
Yet, we continue to ignore the most logical interpretation of the evidence to the detriment of scientific progress.