Simultaneous Inference of Past Demography and Selection from the Ancestral Recombination Graph under the Beta Coalescent by Korfmann, Kevin, Sellinger, Thibaut Paul Patrick, Freund, Fabian, Fumagalli, Matteo, Tellier, Aurélien

“…We tackle these limitations by developing two novel and different approaches to infer multiple merger events from sequence data or the ancestral recombination graph (ARG): a sequentially Markovian coalescent (SMβC) and a graph neural network (GNNcoal). …”
Get full text

Reclassification of Pterulaceae Corner (Basidiomycota: Agaricales) introducing the ant-associated genus Myrmecopterula gen. nov., Phaeopterula Henn. and the corticioid Radulomyceta... by Caio A. Leal-Dutra, Gareth W. Griffith, Maria Alice Neves, David J. McLaughlin, Esther G. McLaughlin, Lina A. Clasen, Bryn T. M. Dentinger

“…In this study, we generated 278 sequences from both newly collected and fungarium samples. …”
Get full text

In Vivo Magic Angle Magnetic Resonance Imaging for Cell Tracking in Equine Low-Field MRI by Carolin Horstmeier, Annette B. Ahrberg, Dagmar Berner, Janina Burk, Claudia Gittel, Aline Hillmann, Julia Offhaus, Walter Brehm

“…MRI included standard and magic angle image series in T1- and T2∗-weighted sequences performed at regular intervals. Image analysis comprised blinded evaluation and quantitative assessment of signal-to-noise ratio. …”
Get full text

Reduction of monoclonal antibody viscosity using interpretable machine learning by Emily K. Makowski, Hsin-Ting Chen, Tiexin Wang, Lina Wu, Jie Huang, Marissa Mock, Patrick Underhill, Emma Pelegri-O’Day, Erick Maglalang, Dwight Winters, Peter M. Tessier

“…Here, we report an interpretable machine learning model for predicting antibody (IgG1) variants with low viscosity using only the sequences of their variable (Fv) regions. Our model was trained on antibody viscosity data (>100 mg/mL mAb concentration) obtained at a common formulation pH (pH 5.2), and it identifies three key Fv features of antibodies linked to viscosity, namely their isoelectric points, hydrophobic patch sizes, and numbers of negatively charged patches. …”
Get full text

Hierarchical graph-based integration network for propaganda detection in textual news articles on social media by Pir Noman Ahmad, Jiequn Guo, Nagwa M. AboElenein, Qazi Mazhar ul Haq, Sadique Ahmad, Abeer D. Algarni, Abdelhamied A. Ateya

“…Second, by employing these guidelines, ADMF standardizes the Tri-Channels 3-S (sequence, semantic, and syntactic) layer, enabling effective propaganda detection through related and unrelated information propagation of news representations into a classifier from the existing ProText, Qprop, and PTC datasets, thereby ensuring its availability to the public. …”
Get full text

Molecular characterization of feline caliciviruses isolated from several adult cats with atypical infection showing severe flu-like symptoms on a remote island in Ehime, Japan by Yuki Nishisaka, Hikaru Fujii, Fumiko Ono, Sho Kadekaru, Hiroyuki Kogiku, Yumi Une, Shione Takeguchi, Naomi Ohta, Masumi Eto, Chiharu Takeuchi, Seigou Takeuchi, Tetsuko Miki, Akihiko Tokuda, Keiko Ookawa, Yukinobu Tohya, Keita Ishijima, Akiko Okutani, Ken Maeda, Shumpei Watanabe, Shigeru Morikawa

“…The Aoshima strains isolated in the initial outbreak before December 5, 2020, and those isolated after the end of the outbreak, which are suspected pathogenic and typical non-pathogenic strains, respectively, were located in the same cluster and shown to be very similar in sequence. The virulent Aoshima strain, which causes atypical FCV infections in cats, may have been derived by acquiring several mutations from a typical strain that chronically infects cats on a remote island.…”
Get full text

Naked-Eye Molecular Testing for the Detection of <i>Xylella fastidiosa</i> in Mallorca (Balearic Island) Almond Orchards by Colorimetric LAMP by Amoia Serafina Serena, Ana Falcón-Piñeiro, Milica Pastar, José Manuel Garcìa-Madero, Nicoletta Contaldo, Mikael Muegge, Stéphane Compant, Pasquale Saldarelli, Angelantonio Minafra

“…<i>Xylella fastidiosa</i> (<i>Xf</i>) is a quarantine pathogen heavily affecting economically important crops worldwide. Different sequence types (STs) belonging to <i>Xf</i> subspecies are present in various areas of Spain, including the Balearic Islands, and cause the almond leaf scorch disease (ALSD) in <i>Prunus</i> spp. …”
Get full text

What Time Is It&#x003F; Finding Which Temporal Features is More Useful for Next Activity Prediction by Lerina Aversano, Martina Iammarino, Antonella Madau, Giuseppe Pirlo, Gianfranco Semeraro

“…A popular approach in this subarea is to use sub-sequences of events, called prefixes and extracted with a sliding window, to predict the next activity. …”
Get full text

Development of <i>Aspergillus oryzae</i> BCC7051 as a Robust Cell Factory Towards the Transcriptional Regulation of Protease-Encoding Genes for Industrial Applications by Sarocha Panchanawaporn, Chanikul Chutrakul, Sukanya Jeennor, Jutamas Anantayanon, Kobkul Laoteng

“…Genome mining of the transcription factor <i>AoprtR</i> and computational analysis confirmed its deduced amino acid sequence sharing evolutionary conservation across <i>Aspergillus</i> and <i>Penicillium</i> spp. …”
Get full text

Effects of straw amendment on the bioavailability of selenite in soil and its mechanisms by Mingxing Qi, Dan Wang, Hui Zhai, Fei Zhou, Hao Wu, Wanchen Zhao, Rongxin Ren, Jingyi Shi, Dongli Liang

“…Therefore, the composition and functional group reaction sequences of DOM in different soils manipulated selenite bioavailability in soil. …”
Get full text

Modulation of Caecal Microbiome in Obese Mice Associated with Administration of Amaranth or Soybean Protein Isolates by Diana Olguín-Calderón, Jorge L. González-Escobar, Rosalva Ríos-Villa, Elena Dibildox-Alvarado, Antonio De León-Rodríguez, Ana P. Barba de la Rosa

“…Microbiota was isolated from the caecum and 16S rRNA gene was sequenced. Caecal Short Chain Fatty Acids (SCFAs) were quantified by gas chromatography. …”
Get full text

Fine-mapping of PmHHM, a broad-spectrum allele from a wheat landrace conferring both seedling and adult resistance to powdery mildew by Bisheng Fu, Bisheng Fu, Bisheng Fu, Zhixin Lin, Lijuan Yan, Qiaofeng Zhang, Caiyun Liu, Caiyun Liu, Jin Cai, Jin Cai, Wei Guo, Wei Guo, Ying Liu, Wenling Zhai, Shuangjun Gong, Feng Xu, Jizhong Wu, Jizhong Wu, Jizhong Wu

“…It was then fine-mapped to an interval with a genetic distance of 0.0031 cM and a physical distance of 187.4 kb on chromosome 4AL of the Chinese Spring reference sequence v.2.1. Four genes were identified in the target region, three of which encode nucleotide-binding leucine-rich repeat (NLR) proteins. …”
Get full text

Ophiostomatoid fungi associated with mites phoretic on bark beetles in Qinghai, China by Runlei Chang, Tuan A. Duong, Stephen J. Taerum, Michael J. Wingfield, XuDong Zhou, Z. Wilhelm de Beer

“…Mites were identified based on morphological characteristics, and fungi based on DNA sequences of four gene regions. In total, 173 mite individuals were collected belonging to 18 species in 11 genera. …”
Get full text

Multiscale modeling of reservoir systems using geostatistical methods by Chihi, Hayet, Hammami, Mohamed Amin, Mezni, Imen, Belayouni, Habib, Ben Mammou, Abdallah

“…This provides a detailed input for the geostatistical modeling procedures that enabled to precisely capture the varying extent and shape of the hydrogeological units at regional scale.Geophysical data, available along the Jeffara plain, were added as a complement to the Jeffara geodatabase and used to establish the fault network and to build a local architectural model of the coastal aquifer system, based on time-to-depth conversion using kriging with external drift.The results have allowed (i) a major update of the geological configuration of the Jeffara basin, (ii) more precision on the geometries and extent of the stratigraphic sequences and (iii) an accurate prediction of the main characteristics of water reservoirs, i.e. their occurrence, thickness, facies and dynamic properties variation at the basin and reservoir scale. …”
Get full text

Genome-wide characterization of the MADS-box gene family in Paeonia ostii and expression analysis of genes related to floral organ development by Xueting Yang, Qi Guo, Shaodan Liu, Duoduo Wang, Dingding Zuo, Tongfei Niu, Dongfeng Wei, Lili Guo, Xiaogai Hou

“…A total of 857 SSRs were identified by analysing the genome sequences of identified genes. We additionally created protein‒protein interaction networks for PoMADS proteins and analysed proteins that could interact among PoMADSs in Arabidopsis thaliana and grape. …”
Get full text

Genome-Wide Identification of Superoxide Dismutase (<i>SOD</i>) Gene Family in <i>Cymbidium</i> Species and Functional Analysis of <i>CsSOD</i>s Under Salt Stress in <i>Cymbidium s... by Ruyi Li, Songkun Lin, Yin Yan, Yuming Chen, Linying Wang, Yuzhen Zhou, Shuling Tang, Ning Liu

“…Transcriptomic data revealed that seven <i>CsSOD</i>s exhibited a border expression in all sequenced tissues, while two exhibited undetectable expression levels. …”
Get full text

Decoration of carbon nanotubes in the substrate or selective layer of polyvinyl alcohol/polysulfone thin-film composite membrane for nanofiltration applications by Mahdie Safarpour, Niloofar Fathi Majd, Samira Jabbarvand Behrouz, Samira Arefi-Oskoui, Alireza Khataee

“…The salt rejection of all prepared membranes followed the sequence of Na2SO4 > NaCl, indicating the characteristics of negatively charged membranes. …”
Get full text

Whole transcriptome analysis of unmutated sporadic ALS patients' peripheral blood reveals phenotype-specific gene expression signature by Francesca Dragoni, Maria Garofalo, Rosalinda Di Gerlando, Bartolo Rizzo, Matteo Bordoni, Eveljn Scarian, Camilla Viola, Veronica Bettoni, Giuseppe Fiamingo, Danilo Tornabene, Lucia Scanu, Orietta Pansarasa, Luca Diamanti, Stella Gagliardi

“…RNAs extracted from patients' PBMCs and 19 controls were sequenced. Our analysis allowed the visualization of gene expression differential clusters between patients and controls. …”
Get full text

Investigation of natural infection of BALB C mice by Bartonella henselae by Luciene Silva dos Santos, Sayros Akyro Soares Martins, Francine Ramos Scheffer, Alexandre Seiji Maekawa, Rafaela de Paula Silva, Gabriel Rabelo de Araújo, Paulo Eduardo Neves Ferreira Velho, Marina Rovani Drummond

“…All animals showed detection of B. henselae DNA in at least two different reactions in different tissues. The sequenced amplicons showed 100 % similarity to B. henselae. …”
Get full text

Negative heterosis for meiotic recombination rate in spermatocytes of the domestic chicken Gallus gallus by L. P. Malinovskaya, K. V. Tishakova, T. I. Bikchurina, A. Yu. Slobodchikova, N. Yu. Torgunakov, A. A. Torgasheva, Y. A. Tsepilov, N. A. Volkova, P. M. Borodin

“…The decrease in recombination rate in F1 is probably determined by difficulties in homology matching between the DNA sequences of genetically divergent breeds. The suppression of recombination in the hybrids may impede gene flow between parapatric populations and therefore accelerate their genetic divergence.…”
Get full text