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1. A pangenome analysis reveals the center of origin and evolutionary history of Phytophthora infestans and 1c clade species

   https://doi.org/10.1371/journal.pone.0314509  

   Coomber, Allison L; Saville, Amanda C; Carbone, Ignazio; Martin, Michael; Bieker, Vanessa C; Ristaino, Jean Beagle (January 2025, PLOS ONE)

   Blair, Jaime E (Ed.)

   We examined the evolutionary history ofPhytophthora infestansand its close relatives in the 1c clade. We used whole genome sequence data from 69 isolates ofPhytophthoraspecies in the 1c clade and conducted a range of genomic analyses including nucleotide diversity evaluation, maximum likelihood trees, network assessment, time to most recent common ancestor and migration analysis. We consistently identified distinct and later divergence of the two MexicanPhytophthoraspecies,P.mirabilisandP.ipomoeae, fromP.infestansand other 1c clade species.Phytophthora infestansexhibited more recent divergence from other 1c clade species ofPhytophthorafrom South America,P.andinaandP.betacei. Speciation in the 1c clade and evolution ofP.infestansoccurred in the Andes.P.andina–P.betacei–P.infestansformed a species complex with indistinct species boundaries, hybridizations between the species, and short times to common ancestry. Furthermore, the distinction between modern Mexican and South AmericanP.infestansproved less discrete, suggesting gene flow between populations over time. Admixture analysis indicated a complex relationship among these populations, hinting at potential gene flow across these regions. HistoricP.infestans, collected from 1845–1889, were the first to diverge from all otherP.infestanspopulations. Modern South American populations diverged next followed by Mexican populations which showed later ancestry. Both populations were derived from historicP.infestans. Based on the time of divergence ofP.infestansfrom its closest relatives,P.andinaandP.betaceiin the Andean region, we consider the Andes to be the center of origin ofP.infestans, with modern globalization contributing to admixture betweenP.infestanspopulations today from Mexico, the Andes and Europe. 

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2. Bounding p-Brauer characters in finite groups with two conjugacy classes of p-elements

   https://doi.org/10.1007/s11856-024-2613-1  

   Hung, Nguyen Ngoc; Sambale, Benjamin; Tiep, Pham Huu (September 2024, Israel Journal of Mathematics)

   Abstract Letk(B₀) andl(B₀) respectively denote the number of ordinary andp-Brauer irreducible characters in the principal blockB₀of a finite groupG. We prove that, ifk(B₀)−l(B₀) = 1, thenl(B₀) ≥p− 1 or elsep= 11 andl(B₀) = 9. This follows from a more general result that for every finite groupGin which all non-trivialp-elements are conjugate,l(B₀) ≥p− 1 or elsep= 11 and$$G/{{\bf{O}}_{{p^\prime }}}(G) \cong C_{11}^2\, \rtimes\,{\rm{SL}}(2,5)$$ $G/O_{p^{\prime }}\left(G\right)\cong C_{11}^2⋊\text{SL}(2,5)$. These results are useful in the study of principal blocks with few characters. We propose that, in every finite groupGof order divisible byp, the number of irreducible Brauer characters in the principalp-block ofGis always at least$$2\sqrt {p - 1} + 1 - {k_p}(G)$$ $2\sqrt{p-1}+1-k_p\left(G\right)$, wherek_p(G) is the number of conjugacy classes ofp-elements ofG. This indeed is a consequence of the celebrated Alperin weight conjecture and known results on bounding the number ofp-regular classes in finite groups. 

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3. Statistics of Energy in Isothermal Supersonic Turbulence

   https://doi.org/10.3847/1538-4357/ad5008  

   Rabatin, Branislav; Collins, David_C (July 2024, The Astrophysical Journal)

   Abstract Supersonic isothermal turbulence is a common process in astrophysical systems. In this work, we explore the energy in such systems. We show that the conserved energy is the sum of the kinetic energy (K) and Helmholtz free energy (F). We develop analytic predictions for the probability distributions,P(F) andP(K), as well as their nontrivial joint distribution,P(F,K). We verify these predictions with a suite of driven turbulence simulations, finding excellent agreement. The turbulence simulations were performed at Mach numbers ranging from 1 to 8, and three modes of driving: purely solenoidal, purely compressive, and mixed. We find thatP(F) is discontinuous atF= 0, with the discontinuity increasing with Mach number and compressive driving.P(K) resembles a lognormal with a negative skew. The joint distribution,P(F,K), shows a bimodal distribution, with gas either existing at highFand highKor at lowFand lowK. 

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4. Relationship between local-scale topography and vegetation on the invasive C ₄ perennial bunchgrass buffelgrass ( Pennisetum ciliare ) size and reproduction

   https://doi.org/10.1017/inp.2023.9  

   Hovanes, Katherine A.; Lien, Aaron M.; Baldwin, Elizabeth; Li, Yue M.; Franklin, Kim; Gornish, Elise S. (March 2023, Invasive Plant Science and Management)

   Abstract Buffelgrass [Pennisetum ciliare(L.) Link] is an invasive C₄perennial bunchgrass that is a threat to biodiversity in aridlands in the Americas and Australia. Topography influencesP. ciliareoccurrence at large spatial scales, but further investigation into the relationship between local-scale topography andP. ciliaregrowth and reproduction would be beneficial. Further, density-dependent effects onP. ciliaregrowth and reproduction have been demonstrated in greenhouse experiments, but the extent to which density dependence influencesP. ciliarein natural populations warrants further investigation. Here we present a study on the relationships between local-scale topography (aspect and slope gradient) and vegetation characteristics (shrub cover,P. ciliarecover, andP. ciliaredensity) and their interactions on individualP. ciliareplant size and reproduction. We measured slope gradient, aspect, shrub cover,P. ciliarecover,P. ciliaredensity, and the total number of live culms and reproductive culms of 10P. ciliareplants in 33 4 by 4 m plots located in 11 transects at the Desert Laboratory at Tumamoc Hill, Tucson, AZ, USA. We modeled the relationships at the local scale of (1)P. ciliarecover and density with aspect and slope gradient and (2)P. ciliaresize and reproduction with abiotic (slope gradient and aspect) and biotic (P. ciliarecover and density and native shrub and cacti cover) characteristics. Aspect and slope gradient were poor predictors ofP. ciliarecover and density in already invaded sites at the scale of our plots. However, aspect had a significant relationship withP. ciliareplant size and reproduction.Pennisetum ciliareplants on south-facing aspects were larger and produced more reproductive culms than plants on other aspects. Further, we found no relationship betweenP. ciliaredensity andP. ciliareplant size and reproduction. Shrub cover was positively correlated withP. ciliarereproduction. South-facing aspects are likely most vulnerable to fast spread and infilling by newP. ciliareintroductions. 

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5. Laboratory Maintenance of the Chytrid Fungus Batrachochytrium dendrobatidis

   https://doi.org/10.1002/cpz1.309  

   Prostak, Sarah M.; Fritz‐Laylin, Lillian K. (December 2021, Current Protocols)

   Abstract The chytrid fungusBatrachochytrium dendrobatidis(Bd) is a causative agent of chytridiomycosis, a skin disease associated with amphibian population declines around the world. Despite the major impactBdis having on global ecosystems, much ofBd’s basic biology remains unstudied. In addition to revealing mechanisms driving the spread of chytridiomycosis, studyingBdcan shed light on the evolution of key fungal traits because chytrid fungi, includingBd, diverged before the radiation of the Dikaryotic fungi (multicellular fungi and yeast). StudyingBdin the laboratory is, therefore, of growing interest to a wide range of scientists, ranging from herpetologists and disease ecologists to molecular, cell, and evolutionary biologists. This protocol describes how to maintain developmentally synchronized liquid cultures ofBdfor use in the laboratory, how to growBdon solid media, as well as cryopreservation and revival of frozen stocks. © 2021 The Authors. Current Protocols published by Wiley Periodicals LLC. Basic Protocol 1: Reviving cryopreservedBdcultures Basic Protocol 2: Establishing synchronized liquid cultures ofBd Basic Protocol 3: Regular maintenance of synchronousBdin liquid culture Alternate Protocol 1: Regular maintenance of asynchronousBdin liquid culture Basic Protocol 4: Regular maintenance of synchronousBdon solid medium Alternate Protocol 2: Starting a culture on solid medium from a liquid culture Basic Protocol 5: Cryopreservation ofBd 

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