Search for differentially methylated regions in ancient and modern genomes by D. D. Borodko, S. V. Zhenilo, F. S. Sharko

“…Currently, active research is focused on investigating the mechanisms that regulate the development of various pathologies and their evolutionary dynamics. Epigenetic mechanisms, such as DNA methylation, play a significant role in evolutionary processes, as their changes have a faster impact on the phenotype compared to mutagenesis. …”
Get full text

Using RAD-seq to identify and differentiate the medicinal herb Scrophularia ningpoensis and its adulterants by Lei Guo, Xia Wang, Hong Li, Mengli Zhou, Liqin Liu, Ruihong Wang, Pan Li

“…Conclusions This study successfully identified S. ningpoensis and the three adulterants, enriched the genomic information of Scrophularia species, and contributed to a more profound understanding of the evolutionary dynamics within this genus. Furthermore, it offers novel insights and methodologies for the identification of medicinal plants.…”
Get full text

Adaptive modification of antiviral defense systems in microbial community under Cr-induced stress by Dan Huang, Jingqiu Liao, Jose Luis Balcazar, Mao Ye, Ruonan Wu, Dongsheng Wang, Pedro J. J. Alvarez, Pingfeng Yu

“…Abstract Background The prokaryotic antiviral defense systems are crucial for mediating prokaryote-virus interactions that influence microbiome functioning and evolutionary dynamics. Despite the prevalence and significance of prokaryotic antiviral defense systems, their responses to abiotic stress and ecological consequences remain poorly understood in soil ecosystems. …”
Get full text

Sex-biased gene expression across tissues reveals unexpected differentiation in the gills of the threespine stickleback by Sylvestre, Florent, Aubin-Horth, Nadia, Bernatchez, Louis

“…Moreover, studying gene expression in species with recently established sex chromosomes can help understand the evolutionary dynamics of gene loss and dosage compensation. …”
Get full text

RNA Virus Discovery Sheds Light on the Virome of a Major Vineyard Pest, the European Grapevine Moth (<i>Lobesia botrana</i>) by Humberto Debat, Sebastian Gomez-Talquenca, Nicolas Bejerman

“…These results underscore the existence of a complex virome within <i>L. botrana</i> and lay the foundation for future studies investigating the ecological roles, evolutionary dynamics, and potential biocontrol applications of these viruses in the <i>L. botrana</i>–vineyard ecosystem.…”
Get full text

Can Cryptogonimids of the Same Genus Influence Each Other’s Level of Genetic Variation? by Ekaterina S. Tokarskaya, Yulia V. Tatonova, Haneef Ahmed Amissah, Polina G. Shumenko, Mikhail Yu. Shchelkanov

“…To uncover the dynamics driving these observations, we propose the approach of expanding sampling, broader genetic marker analyses, and investigations of varied host populations that could elucidate the complexities of the <i>Exorchis</i> species genetic variability and evolutionary dynamics.…”
Get full text

Life-history traits, pace of life and dispersal among and within five species of Trichogramma wasps: a comparative analysis by Guicharnaud, Chloé, Groussier, Géraldine, Beranger, Erwan, Lamy, Laurent, Vercken, Elodie, Dahirel, Maxime

“…Knowing about such life-history strategies may be especially important for understanding eco-evolutionary dynamics, as these trait syndromes may constrain trait variation or be correlated with other traits. …”
Get full text

Insight into the codon usage patterns and adaptation of Tembusu Virus by Fucheng Guo, Huiming Tan, Jinjin Yang, Rumin Jia, Ruichen Wang, Lie Wu, Fengzhi Pan, Kai Kang, Weitian Xie, Youquan Li, Kewei Fan

“…Here, we investigate the codon usage patterns (CUPs) underlying TMUV's adaptation and evolutionary dynamics within host environments. Phylogenetic and compositional analyses consistently classify TMUV into four evolutionary lineages—Clusters 1, 2, 3, and ancestral TMUV—with Cluster 2 emerging as the dominant lineage. …”
Get full text

Chromosome-level genome sequencing and assembly of the parasitoid wasp Leptopilina myrica by Zhi Dong, Zixuan Xu, Junwei Zhang, Yulong Guo, Qichao Zhang, Lan Pang, Ting Feng, Wenqi Shi, Yifeng Sheng, Jianhua Huang, Jiani Chen

“…This high-quality genome will provide a foundation for future research on the genetic and functional traits of parasitoid wasps, shedding light on the evolutionary dynamics of host-parasite interactions. The genome of L. myrica provides a valuable resource for future studies on host-parasite interactions and the genetic basis of parasitoid wasp biology.…”
Get full text

Fingerprints of surface flows on solid substrates ablated by phase change: from laboratory experiments to planetary landscapes by Carpy, Sabrina, Berhanu, Michael, Chaigne, Martin, Courrech du Pont, Sylvain

“…The scale of these landscapes contrasts with the scale of the physical mechanisms that govern their evolutionary dynamics. Indeed, it is the typical size of atmospheric boundary layers or meltwater/vapor/solute films that constrain the heat/concentration transfer at the phase change/dissolution interface, and hence the rate of solid ablation. …”
Get full text

Genomic and Pathogenic Characteristics of Virulent Newcastle Disease Virus Isolated from Chicken in Live Bird Markets and Backyard Flocks in Kenya by Irene N. Ogali, Paul O. Okumu, Erick O. Mungube, Jacqueline K. Lichoti, Stephen Ogada, Grace K. Moraa, Bernard R. Agwanda, Sheila C. Ommeh

“…Our study provides the first description of the genomic and pathological characteristics of NDV of subgenotype Vd and lays a baseline in understanding the evolutionary dynamics of NDV and, in particular, Genotype V. …”
Get full text

Template switching during DNA replication is a prevalent source of adaptive gene amplification by Julie N Chuong, Nadav Ben Nun, Ina Suresh, Julia Cano Matthews, Titir De, Grace Avecilla, Farah Abdul-Rahman, Nathan Brandt, Yoav Ram, David Gresham

“…Whereas point mutation rates vary with genomic location and local DNA features, the role of genome architecture in the formation and evolutionary dynamics of CNVs is poorly understood. Previously, we found the GAP1 gene in Saccharomyces cerevisiae undergoes frequent amplification and selection in glutamine-limitation. …”
Get full text

Novel H16N3 avian influenza viruses isolated from migratory gulls in China in 2023 by Peng Peng, Peng Peng, Peng Peng, Jinyan Shen, Wenjun Shi, Jing Guo, Mengjing Wang, Wenxi Li, Zhiqin Yue, Xiaohong Sun, Mengdi Guan, Lili Liu, Hongke Xu, Yujiao Xie, Anran Ren, Mingfeng Liu, Wenqiang Liu, Zhibin Zhang, Zhibin Zhang, Zhishu Xiao, Zhishu Xiao, Xuyong Li

“…The low prevalence of H16 viruses has limited our understanding of their epidemiology and evolutionary dynamics. In this study, we isolated three novel H16N3 viruses from migratory gulls in East Asian–Australasian Flyway in eastern China in 2023, which are significantly different from previously identified isolates. …”
Get full text

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. …”
Get full text

The origin and transmission of HIV-1 CRF80_0107 among two major first-tier cities in China by Xiaorui Wang, Bo Zhu, Hanping Li, Jingwan Han, Xiaolin Wang, Lei Jia, Bohan Zhang, Jingyun Li, Linding Wang, Yongjian Liu, Hongling Wen, Lin Li

“…In addition, spatiotemporal evolutionary dynamics analysis of the candidate CRF80_0107 sequences was performed via a Bayesian approach. …”
Get full text

Cryptic species and hybridisation in corals: challenges and opportunities for conservation and restoration by Riginos, Cynthia, Popovic, Iva, Meziere, Zoe, Garcia, Vhon, Byrne, Ilha, Howitt, Samantha M., Ishida, Hisatake, Bairos-Novak, Kevin, Humanes, Adriana, Scharfenstein, Hugo, Richards, Thomas, Briggs, Ethan, Clark, Vanessa, Lei, Chuan, Khan, Mariam, Prata, Katharine E.

“…This hidden biodiversity creates challenges for coral conservation and restoration planning that are not well appreciated, including hiding true population declines, biasing estimates for species’ phenotypic breadth, overestimating the resilience of species to stressors, yielding uncertainty in evolutionary dynamics inferred from past studies, and implying that reproductive barriers may limit mating between local and translocated corals. …”
Get full text

Evolutionary Stability Analysis of the Coal Mine Safety Management System Governed by Delay and Impulsive Differential Equations by Li Bai, Xinhua Wang, Rongwu Lu, Hao Yu, Dan Li

“…To study the regular pattern of behavior propagations in CMSM, a series of evolutionary dynamical system models are established by the delay and impulsive differential equations (DIDEs). …”
Get full text

Using Genetic Algorithms for Navigation Planning in Dynamic Environments by Ferhat Uçan, D. Turgay Altılar

“…In this paper, the genetic algorithm solution of the dynamic flight planning problem is explained. The evolutionary dynamic navigation planning algorithm is developed for compensating the existing deficiencies of the other approaches. …”
Get full text