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1. J/ψ elliptic and triangular flow in Pb-Pb collisions at $$ \sqrt{s_{\mathrm{NN}}} $$ = 5.02 TeV

   https://doi.org/10.1007/JHEP10(2020)141  

   Acharya, S.; Adamová, D.; Adler, A.; Adolfsson, J.; Aggarwal, M. M.; Aglieri Rinella, G.; Agnello, M.; Agrawal, N.; Ahammed, Z.; Ahmad, S.; et al (October 2020, Journal of High Energy Physics)

   null (Ed.)

   A bstract The inclusive J/ ψ elliptic ( v 2 ) and triangular ( v 3 ) flow coefficients measured at forward rapidity (2 . 5 < y < 4) and the v 2 measured at midrapidity (| y | < 0 . 9) in Pb-Pb collisions at $$ \sqrt{s_{\mathrm{NN}}} $$ s NN = 5 . 02 TeV using the ALICE detector at the LHC are reported. The entire Pb-Pb data sample collected during Run 2 is employed, amounting to an integrated luminosity of 750 μ b − 1 at forward rapidity and 93 μ b − 1 at midrapidity. The results are obtained using the scalar product method and are reported as a function of transverse momentum p T and collision centrality. At midrapidity, the J/ ψ v 2 is in agreement with the forward rapidity measurement. The centrality averaged results indicate a positive J/ ψ v 3 with a significance of more than 5 σ at forward rapidity in the p T range 2 < p T < 5 GeV/ c . The forward rapidity v 2 , v 3 , and v 3 /v 2 results at low and intermediate p T ( p T ≲ 8 GeV/ c ) exhibit a mass hierarchy when compared to pions and D mesons, while converging into a species-independent curve at higher p T . At low and intermediate p T , the results could be interpreted in terms of a later thermalization of charm quarks compared to light quarks, while at high p T , path-length dependent effects seem to dominate. The J/ ψ v 2 measurements are further compared to a microscopic transport model calculation. Using a simplified extension of the quark scaling approach involving both light and charm quark flow components, it is shown that the D-meson v n measurements can be described based on those for charged pions and J/ ψ flow. 

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2. Multiplicity and rapidity dependence of $$\textrm{K}^{*}(\mathrm {{\textbf {892}}})^{0}$$ and $$\mathrm {\phi ({\textbf {1020}})}$$ production in p–Pb collisions at $$\sqrt{s_{\textrm{NN}}} =$$ 5.02 TeV

   https://doi.org/10.1140/epjc/s10052-023-11449-3  

   Acharya, S.; Adamová, D.; Adler, A.; Aglieri Rinella, G.; Agnello, M.; Agrawal, N.; Ahammed, Z.; Ahmad, S.; Ahn, S. U.; Ahuja, I.; et al (June 2023, The European Physical Journal C)

   Abstract The transverse-momentum $$(p_{\textrm{T}})$$ ( p T ) spectra of K $$^{*}(892)^{0}~$$ ∗ ( 892 ) 0 and $$\mathrm {\phi (1020)}~$$ ϕ ( 1020 ) measured with the ALICE detector up to $$p_{\textrm{T}} $$ p T  = 16 GeV/ c in the rapidity range $$-1.2< y < 0.3,$$ - 1.2 < y < 0.3 , in p–Pb collisions at the center-of-mass energy per nucleon–nucleon collision $$\sqrt{s_{\textrm{NN}}} = 5.02$$ s NN = 5.02  TeV are presented as a function of charged particle multiplicity and rapidity. The measured $$p_{\textrm{T}} $$ p T distributions show a dependence on both multiplicity and rapidity at low $$p_{\textrm{T}} $$ p T whereas no significant dependence is observed at high $$p_{\textrm{T}} $$ p T . A rapidity dependence is observed in the $$p_{\textrm{T}} $$ p T -integrated yield (d N /d y ), whereas the mean transverse momentum $$\left( \langle p_{\textrm{T}} \rangle \right) $$ ⟨ p T ⟩ shows a flat behavior as a function of rapidity. The rapidity asymmetry ( $$Y_{\textrm{asym}}$$ Y asym ) at low $$p_{\textrm{T}} $$ p T (< 5 GeV/ c ) is more significant for higher multiplicity classes. At high $$p_{\textrm{T}} $$ p T , no significant rapidity asymmetry is observed in any of the multiplicity classes. Both K $$^{*}(892)^{0}~$$ ∗ ( 892 ) 0 and $$\mathrm {\phi (1020)}~$$ ϕ ( 1020 ) show similar $$Y_{\textrm{asym}}$$ Y asym . The nuclear modification factor $$(Q_{\textrm{CP}})$$ ( Q CP ) as a function of $$p_{\textrm{T}} $$ p T shows a Cronin-like enhancement at intermediate $$p_{\textrm{T}} $$ p T , which is more prominent at higher rapidities (Pb-going direction) and in higher multiplicity classes. At high $$p_{\textrm{T}}$$ p T (> 5 GeV/ $$c$$ c ), the $$Q_{\textrm{CP}}$$ Q CP values are greater than unity and no significant rapidity dependence is observed. 

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3. Updated site concordance factors minimize effects of homoplasy and taxon sampling

   https://doi.org/10.1093/bioinformatics/btac741  

   Mo, Yu K.; Lanfear, Robert; Hahn, Matthew W.; Minh, Bui Quang; Schwartz, ed., Russell (November 2022, Bioinformatics)

   Abstract MotivationSite concordance factors (sCFs) have become a widely used way to summarize discordance in phylogenomic datasets. However, the original version of sCFs was calculated by sampling a quartet of tip taxa and then applying parsimony-based criteria for discordance. This approach has the potential to be strongly affected by multiple hits at a site (homoplasy), especially when substitution rates are high or taxa are not closely related. ResultsHere, we introduce a new method for calculating sCFs. The updated version uses likelihood to generate probability distributions of ancestral states at internal nodes of the phylogeny. By sampling from the states at internal nodes adjacent to a given branch, this approach substantially reduces—but does not abolish—the effects of homoplasy and taxon sampling. Availability and implementationUpdated sCFs are implemented in IQ-TREE 2.2.2. The software is freely available at https://github.com/iqtree/iqtree2/releases. Supplementary informationSupplementary information is available at Bioinformatics online. 

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4. Production of light-flavor hadrons in pp collisions at $$\sqrt{s}~=~7\text { and }\sqrt{s} = 13 \, \text { TeV} $$

   https://doi.org/10.1140/epjc/s10052-020-08690-5  

   Acharya, S.; Adamová, D.; Adler, A.; Adolfsson, J.; Aggarwal, M. M.; Rinella, G. Aglieri; Agnello, M.; Agrawal, N.; Ahammed, Z.; Ahmad, S.; et al (March 2021, The European Physical Journal C)

   null (Ed.)

   Abstract The production of $$\pi ^{\pm }$$ π ± , $$\mathrm{K}^{\pm }$$ K ± , $$\mathrm{K}^{0}_{S}$$ K S 0 , $$\mathrm{K}^{*}(892)^{0}$$ K ∗ ( 892 ) 0 , $$\mathrm{p}$$ p , $$\phi (1020)$$ ϕ ( 1020 ) , $$\Lambda $$ Λ , $$\Xi ^{-}$$ Ξ - , $$\Omega ^{-}$$ Ω - , and their antiparticles was measured in inelastic proton–proton (pp) collisions at a center-of-mass energy of $$\sqrt{s}$$ s = 13 TeV at midrapidity ( $$|y|<0.5$$ | y | < 0.5 ) as a function of transverse momentum ( $$p_{\mathrm{T}}$$ p T ) using the ALICE detector at the CERN LHC. Furthermore, the single-particle $$p_{\mathrm{T}}$$ p T distributions of $$\mathrm{K}^{0}_{S}$$ K S 0 , $$\Lambda $$ Λ , and $$\overline{\Lambda }$$ Λ ¯ in inelastic pp collisions at $$\sqrt{s} = 7$$ s = 7  TeV are reported here for the first time. The $$p_{\mathrm{T}}$$ p T distributions are studied at midrapidity within the transverse momentum range $$0\le p_{\mathrm{T}}\le 20$$ 0 ≤ p T ≤ 20 GeV/ c , depending on the particle species. The $$p_{\mathrm{T}}$$ p T spectra, integrated yields, and particle yield ratios are discussed as a function of collision energy and compared with measurements at lower $$\sqrt{s}$$ s and with results from various general-purpose QCD-inspired Monte Carlo models. A hardening of the spectra at high $$p_{\mathrm{T}}$$ p T with increasing collision energy is observed, which is similar for all particle species under study. The transverse mass and $$x_{\mathrm{T}}\equiv 2p_{\mathrm{T}}/\sqrt{s}$$ x T ≡ 2 p T / s scaling properties of hadron production are also studied. As the collision energy increases from $$\sqrt{s}$$ s = 7–13 TeV, the yields of non- and single-strange hadrons normalized to the pion yields remain approximately constant as a function of $$\sqrt{s}$$ s , while ratios for multi-strange hadrons indicate enhancements. The $$p_\mathrm{{T}}$$ p T -differential cross sections of $$\pi ^{\pm }$$ π ± , $$\mathrm {K}^{\pm }$$ K ± and $$\mathrm {p}$$ p ( $$\overline{\mathrm{p}}$$ p ¯ ) are compared with next-to-leading order perturbative QCD calculations, which are found to overestimate the cross sections for $$\pi ^{\pm }$$ π ± and $$\mathrm{p}$$ p ( $$\overline{\mathrm{p}}$$ p ¯ ) at high $$p_\mathrm{{T}}$$ p T . 

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5. Adsorption and precipitation of myo ‐inositol hexakisphosphate onto kaolinite

   https://doi.org/10.1111/ejss.12849  

   Hu, Zhen; Jaisi, Deb_P; Yan, Yupeng; Chen, Hongfeng; Wang, Xiaoming; Wan, Biao; Liu, Fan; Tan, Wenfeng; Huang, Qiaoyun; Feng, Xionghan (July 2019, European Journal of Soil Science)

   Abstract Sorption ofmyo‐inositol hexakisphosphate (IHP), a common type of organic phosphorus in soils, largely controls its mobility and bioavailability. Research on the interaction between IHP and phyllosilicate minerals such as kaolinite, which is commonly present in highly weathered soils, has often been neglected, probably due to the common assumption that negatively charged phyllosilicate minerals have low sorption capacity and binding affinity to IHP and thus do not play any significant role in its fate. Here, the interaction between IHP and poorly crystallized kaolinite (KGa‐2) was investigated in batch experiments using Zeta (ζ) potential measurement and³¹P nuclear magnetic resonance (NMR) spectroscopy. The results showed that dissolved Al(III) concentration at the adsorption initiation stage increased with increasing IHP concentration at pH 4.0. From pH 2.5 to 9.0, IHP presented a maximum sorption capacity (50 μmol g⁻¹) at pH 4.0 at 24 hr. With IHP sorption, theζpotential of kaolinite first decreased sharply to a negative value, then gradually increased with resorption of Al(III) released from kaolinite dissolution at acidic pH, and finally approached the original value of the pure kaolinite.³¹P NMR spectroscopy andζpotential analyses revealed that IHP formed inner‐sphere surface complexes and aluminium phytate precipitated on kaolinite at low pH (2.5 and 4.0), whereas the formation of inner‐sphere surface complexes was the dominant sorption mechanism at pH ≥ 5.5. This study implies that various mechanisms, depending on ambient pH condition, can dominate the IHP sorption onto kaolinite, which impacts the mobility and bioavailability of phosphorus in highly weathered soils. HighlightsIHP promotes the dissolution of kaolinite mainly through the formation of aluminium phytate complex.IHP sorption presents a sharp maximum at pH 4.0.IHP forms inner‐sphere complexes at the surface of kaolinite.Formation of aluminium phytate surface precipitates is favourable at relatively low pH. 

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