dataFishing: An efficient Python tool and user-friendly web-form for mining mitochondrial and chloroplast sequences, taxonomic, and biodiversity data by Luan Rabelo, Davidson Sodré, Oscar David Albito Balcázar, Murilo Furtado do Rosário, Aurycéia Jaquelyne Guimarães-Costa, Grazielle Gomes, Iracilda Sampaio, Marcelo Vallinoto

“…NCBI GenBank and BOLD Systems are important databases for biodiversity research, in which the deposited data can be used for various purposes, such as species identification analysis, evolutionary studies, biodiversity monitoring, as well as assessing the effects of possible climate changes on species distributions. …”
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Convergent origin and accelerated evolution of vesicle-associated RhoGAP proteins in two unrelated parasitoid wasps by Colinet, Dominique, Cavigliasso, Fanny, Leobold, Matthieu, Pichon, Apolline, Urbach, Serge, Cazes, Dominique, Poullet, Marine, Belghazi, Maya, Volkoff, Anne-Nathalie, Drezen, Jean-Michel, Gatti, Jean-Luc, Poirié, Marylène

“…Gene duplication, accompanied by modification of the expression and/or function of one of the duplicates under the action of positive selection, followed by further duplication to produce multigene families of toxins is a well-documented process in venomous animals. This evolutionary model has been less described in parasitoid wasps, which use maternal fluids, including venom, to protect their eggs from encapsulation by the host immune system. …”
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A rare deleterious missense mutation in the AXIN2 gene in Chinese women with polycystic ovary syndrome by Ying Zhang, Yu Chen, Fa-Ying Liu, Jing-Wen Fu, Xian-Xian Liu, Jun Tan, Ou-Ping Huang, Yang Zou

“…Previous genome-wide association study (GWAS) showed that Wing-less-related integration site (Wnt) signaling is the most affected pathway among PCOS-related risk genes, and genetic mutations in the Wnt/β-catenin signaling may lead to abnormal development of PCOS.Objective To explore the possibility of axis inhibitor-2 (AXIN2) variants in Chinese women with PCOS and assess their pathogenicities.Methods A total of 365 Chinese women with PCOS and 905 women without PCOS as control were recruited from Jiangxi Provincial Maternal and Child Health Hospital, All of the 11 exons and flanking regions of the AXIN2 gene were amplified by polymerase chain reaction (PCR), the potential variants were analyzed by Sanger sequencing. The evolutionary conservation analysis of the identified Axin-2 mutant was analyzed among 15 vertebrates from human to zebrafish. …”
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The protein structurome of Orthornavirae and its dark matter by Pascal Mutz, Antonio Pedro Camargo, Harutyun Sahakyan, Uri Neri, Anamarija Butkovic, Yuri I. Wolf, Mart Krupovic, Valerian V. Dolja, Eugene V. Koonin

“…The rest of the viral proteome seems to be dominated by poorly structured domains including intrinsically disordered ones that likely mediate specific virus-host interactions.IMPORTANCEAdvanced methods for protein structure prediction, such as AlphaFold2, greatly expand our capability to identify protein domains and infer their likely functions and evolutionary relationships. This is particularly pertinent for proteins encoded by viruses that are known to evolve rapidly and as a result often cannot be adequately characterized by analysis of the protein sequences. …”
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Evaluating cutinase from Fusarium oxysporum as a biocatalyst for the degradation of nine synthetic polymer by Maycon Vinicius Damasceno de Oliveira, Gabriel Calandrini, Clauber Henrique Souza da Costa, Carlos Gabriel da Silva de Souza, Cláudio Nahum Alves, José Rogério A. Silva, Anderson H. Lima, Jerônimo Lameira

“…Furthermore, the phylogenetic analysis demonstrated that the PETase enzyme has a very high similarity with the bacterial cutinase enzyme than with the fungal cutinase, therefore demonstrating that the PETase enzyme from Ideonella sakaiensis can easily be a modified bacterial cutinase enzyme that created a unique feature in biodegrading only the pet polymer through an evolutionary process due to its environment and its biochemical need for carbon. …”
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Spatiotemporal distribution patterns of cephalopods and their responses to changes in the marine environment in the coastal waters of Zhejiang, China by Jun Liang, Jun Liang, Yongdong Zhou, Yongdong Zhou, Tian Wu, Feng Chen, Feng Chen, Kaida Xu, Kaida Xu, Guangjie Fang, Yazhou Zhang, Yazhou Zhang

“…IntroductionLike pelagic fishes, cephalopods represent fishery resources with high worldwide potential and an important evolutionary node animal group. Thus, exploring the spatial and seasonal variations in cephalopod distribution and their associations with environmental factors is important for elucidating cephalopod diversity and the distribution of cephalopods under changing environmental conditions and for developing reasonable resource management and conservation measures.MethodsOn the basis of trawl survey data from 123 stations in the coastal waters of Zhejiang, China, in the spring and autumn of 2021, the relationships among the cephalopod species composition and diversity characteristics and the spatial and seasonal changes and environmental factors were investigated via the relative importance index (IRI), the alpha diversity index, and the GAM.ResultsThe results revealed that the cephalopods in the coastal waters of Zhejiang belonged to three orders, six families, and 10 genera and that the dominant species were gradually replaced by species of minor economic importance and endemic small-scale fishery species. …”
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Detection and Phylogenetic Analysis of Alphacoronaviruses in Bat Populations of Rostov and Novosibirsk Regions of Russia, 2021–2023 by Olesia V. Ohlopkova, Igor V. Popov, Ilia V. Popov, Kristina A. Stolbunova, Marina A. Stepanyuk, Alexey D. Moshkin, Aleksei A. Maslov, Ivan A. Sobolev, Aleksey V. Malinovkin, Elizaveta V. Tkacheva, Daria A. Bogdanova, Ekaterina A. Lukbanova, Alexey M. Ermakov, Alexander Y. Alekseev, Svetoslav D. Todorov, Alexander M. Shestopalov

“…These sequences shared over 90% identity with alphacoronaviruses previously identified in bats across Northern Europe and Russia, underscoring the viruses’ wide geographic distribution and evolutionary connections. The results highlight the adaptability of alphacoronaviruses and the role of bat migratory behavior in their dispersal. …”
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Understanding phage BX-1 resistance in Vibrio alginolyticus AP-1 and the role of quorum-sensing regulation by Xiaoyu Li, Xin Liu, Tianyi Ma, Haochen Su, Bingrui Sui, Lili Wang, Bilal Murtaza, Yongping Xu, Na Li, Demeng Tan

“…Collectively, these insights illuminate the evolutionary complexities of phage-defense systems and the broader strategies that bacteria employ to coexist with phages.…”
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Ten simple rules for working with high resolution remote sensing data by Mahood, Adam L., Joseph, Maxwell B., Spiers, Anna I., Koontz, Michael J., Ilangakoon, Nayani, Solvik, Kylen K., Quarderer, Nathan, McGlinchy, Joe, Scholl, Victoria M., St. Denis, Lise A., Nagy, Chelsea, Braswell, Anna, Rossi, Matthew W., Herwehe, Lauren, Wasser, Leah, Cattau, Megan E., Iglesias, Virginia, Yao, Fangfang, Leyk, Stefan, Balch, Jennifer K.

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Influenza Immunization in Very-Low-Birth-Weight Infants: Epidemiology and Long-Term Outcomes by Marie-Theres Dammann, Hannah Kraft, Guido Stichtenoth, Kathrin Hanke, Michael Zemlin, Janina Soler Wenglein, Isabell Ricklefs, Alexander Herz, Alexander Humberg, Dorothee Viemann, Geraldine Engels, Matthias Volkmar Kopp, Folke Brinkmann, Carsten Fortmann-Grote, Wolfgang Göpel, Egbert Herting, Christoph Härtel, Ingmar Fortmann, on behalf of the German Neonatal Network

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Ecological niche and phenotypic differences among two alpine Rhododendron species and their natural hybrids in a common landscape by Yanghui Zhao, Ying Zhang, Liang Xu, Yadan Yan, Chuncheng Wang, Yafeng Wen, Donglin Zhang

“…Our study offered novel insights into the mechanisms underlying evolutionary versatility and ecological success among sympatric species.…”
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Genetic Variation Analysis of Hsp101 Gene in Common Wild Rice and Asian Cultivated Rice Germplasm Resources by Yue LIU, Liqun JIANG, Shuwei LYU, Bingrui SUN, Chen LI, Qing LIU, Hang YU

“…【Objective】The Hsp101 gene is a key gene that regulating rice heat tolerance, however, limited knowledge is available about its genetic variation and evolutionary patterns in rice germplasm resources. The study aims to investigate the genetic variation of the Hsp101 gene in common wild rice and Asian cultivated rice, laying a foundation for the exploration of gene resources with excellent heat tolerance.…”
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Cancer phylogenetic tree inference at scale from 1000s of single cell genomes by Salehi, Sohrab, Dorri, Fatemeh, Chern, Kevin, Kabeer, Farhia, Rusk, Nicole, Funnell, Tyler, Williams, Marc J., Lai, Daniel, Andronescu, Mirela, Campbell, Kieran R., McPherson, Andrew, Aparicio, Samuel, Roth, Andrew, Shah, Sohrab P., Bouchard-Côté, Alexandre

“…A new generation of scalable single cell whole genome sequencing (scWGS) methods allows unprecedented high resolution measurement of the evolutionary dynamics of cancer cell populations. Phylogenetic reconstruction is central to identifying sub-populations and distinguishing the mutational processes that gave rise to them. …”
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Global and Local Infall in the ASHES Sample (GLASHES). I. Pilot Study in G337.541 by Kaho Morii, Patricio Sanhueza, Timea Csengeri, Fumitaka Nakamura, Sylvain Bontemps, Guido Garay, Qizhou Zhang

“…To understand the gas dynamics at the core scale in the very early evolutionary stages before being severely affected by feedback, we have conducted Atacama Large Millimeter/submillimeter Array (ALMA) observations toward a 70 μ m dark massive clump, G337.541-00.082 as part of the Global and Local infall in the ASHES sample (GLASHES) program. …”
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Evolution paths of urban forms influenced by landforms: Asynchrony but convergence by Chao Yang, Qiyan Huang, Qiong Xian, Meng Yuan, Xiaoming Cong, Lisha Xun, Jianxiong Cheng, Hongyi Pan

“…It elucidates the characteristics and evolutionary paths of urban forms based on different developmental bases, aiding in the analysis of urban expansion mechanisms. …”
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Ligilactobacillus salivarius LZZAY01 accelerated autophagy and apoptosis in colon cancer cells and improved gut microbiota in CAC mice by Wenhong Yang, Tao Li, Shixiang An, Rong Chen, Yuxin Zhao, Jiaxian Cui, Mingyu Zhang, Jingkun Lu, Yunpeng Tian, Lili Bao, Pengwei Zhao

“…LZZAY01, a new strain of Ligilactobacillus salivarius, was certified by an evolutionary tree and average nucleotide identity. LZZAY01 enhanced autophagy and apoptosis in CT-26, HCT-116, and SW-620 cell lines. …”
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Implementasi Algoritme Evolusioner NSGA-II pada Optimasi Daya Wireless Power Transfer Multi-Penerlima by Sabriansyah Rizqika Akbar, Eko Setiawan, Agung Setiabudi

“…The optimization is conducted by considering engineering constraints on capacitance values on the market and limitations on frequency values that can operate in electrical circuits. The NSGA-II evolutionary algorithm is used to solve multi-objective-function problems and their constraints to obtain optimal parameter values. …”
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Mapping and Analysis of Exit Strategy Research: A Bibliometrics and Systematic Review by Alireza Valipour, Ali Heidari, Mohammad Ali Shahhosseini, Asadollah Kordnaiej

“…Conclusion The research landscape is dominated by studies on exit drivers and exit consequences, often explained through frameworks such as agency theory, transaction cost economics (TCE), resource-based view (RBV), and evolutionary theory. Financial research focuses on the exit's impact on subsidiary performance and parent company financials, while economics explores industry factors influencing exit decisions. …”
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‘It is scary to pause treatment’: perspectives on HIV cure-related research and analytical treatment interruptions from women diagnosed during acute HIV in Durban, South Africa: So... by Deli Mthimkhulu, Krista L. Dong, Mzwakhe Wiseman Ngcobo, Deborah Mindry, Ayanda Zulu, Ntombifuthi Langa, Luyanda Maphalala, Vanessa Pillay, Maud Mthembu, Annie Miall, Whitney Tran, Ana Dillen, Fang Wan, Ali Ahmed, Jamila K. Stockman, Maryam Hussain, Thumbi Ndung’u, Karine Dubé

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Genomic adaptation of Clostridium perfringens to human intestine by Ke Wu, Juan Wang, Zelin Yan, Yanyan Zhu, Shaolin Wang, Bo Fu, Chengtao Sun, Ruichao Li, Edward M. Fox, Séamus Fanning, Li Bai, Yang Wang, Yizhi Tang, Zhe Yin, Rong Zhang, Hongning Wang

“…We further conducted evolutionary and pan‐genomic analyses, incorporating isolates from humans and animals worldwide. …”
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