Navigating the Challenges in Apomixis Population Genetics: Insights from Past, Present, and Future Perspectives DOI
Piyal Karunarathne, Anna Verena Reutemann, Jennifer James

et al.

Critical Reviews in Plant Sciences, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 32

Published: Dec. 24, 2024

Navigating the challenges in apomixis population genetics requires a comprehensive understanding of its unique genetic consequences. This review explores apomixis, comparing sexual and apomictic populations, research challenges, outlining future directions. Apomictic plants form clonal seeds, arise from species through hybridization and/or polyploidy. Sexual generate variation via meiotic recombination, random mating, gradual accumulation beneficial mutations. In contrast, apomicts rely on similar mechanisms to but at much slower rate, primarily ´residual´ sexuality. Clonality also promotes deleterious Additionally, recurrent origins progenitors, especially contribute diversity populations. These processes, with varying rates gene flow, genotype fixation, lead distinct structures between Reevaluating evolutionary like drift, mutation rates, selection pressures is, therefore, crucial for processes driving differentiation genomic structure Research has advanced early documentation 18th century modern cytological approaches. Early theoretical models inheritance, adjusted polyploid nonsexual provided foundational insights, while recent genome-wide studies have shed light basis dynamics across taxa. However, significant gaps remain population-level forces shaping apomixis. Future comparative genomics relatives will help identify genes epigenetic marks adaptive significance. Functional evaluation associated selective advantages, coupled specialized bioinformatic tools, improve our genotype-phenotype interactions. Integrative approaches combining multi-omics, morphology, ecological information are key resolving complexities taxa their adaptation speciation processes. Moreover, machine learning offers promise analyzing large datasets uncovering hidden patterns, interdisciplinary collaborations could translate findings into conservation, agriculture, biotechnology applications.

Language: Английский

Phytochemical and biological studies on rare and endangered plants endemic to China. Part XLIV. Integrated NMR/EI-MS/LC-PDA-ESIMS approach for dereplication and targeted isolation of fortunefuroic acids from Keteleeria fortunei across diverse geographical origins DOI
Ze‐Yu Zhao,

Zhe-Lu Jiang,

Yingpeng Tong

et al.

Phytochemistry, Journal Year: 2025, Volume and Issue: 235, P. 114453 - 114453

Published: Feb. 21, 2025

Language: Английский

Citations

1
Artificial intelligence for life sciences: A comprehensive guide and future trends DOI

Ming Luo,

Wenyu Yang, Long Bai

et al.

The Innovation Life, Journal Year: 2024, Volume and Issue: unknown, P. 100105 - 100105

Published: Jan. 1, 2024

<p>Artificial intelligence has had a profound impact on life sciences. This review discusses the application, challenges, and future development directions of artificial in various branches sciences, including zoology, plant science, microbiology, biochemistry, molecular biology, cell developmental genetics, neuroscience, psychology, pharmacology, clinical medicine, biomaterials, ecology, environmental science. It elaborates important roles aspects such as behavior monitoring, population dynamic prediction, microorganism identification, disease detection. At same time, it points out challenges faced by application data quality, black-box problems, ethical concerns. The are prospected from technological innovation interdisciplinary cooperation. integration Bio-Technologies (BT) Information-Technologies (IT) will transform biomedical research into AI for Science paradigm.</p>

Language: Английский

Citations

8
Apomixis in Systematics, Evolution and Phylogenetics of Angiosperms: Current Developments and Prospects DOI Creative Commons
Elvira Hörandl, Diego Hojsgaard, Ana D. Caperta

et al.

Critical Reviews in Plant Sciences, Journal Year: 2024, Volume and Issue: unknown, P. 1 - 43

Published: Sept. 13, 2024

Language: Английский

Citations

5
Phylogenetic and taxonomic insights into Betula: low-coverage whole genome sequencing and plastome analysis with focus on the rare Ukrainian endemic species Betula klokovii Zaverucha DOI Open Access
Andrii Tarieiev, Kevin Karbstein, Oliver Gailing

et al.

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2025, Volume and Issue: unknown

Published: Jan. 15, 2025

Abstract Betula klokovii Zaverucha is a rare endemic species of Ukraine that still not well taxonomically studied. In the current pilot study, we performed low-coverage whole genome sequencing for B. , related ( pendula Roth and pubescens Ehrh.) assumed hybrid × pendula, assessed genomic structure taxa with different mapping settings using UMAP non-linear dimension reduction algorithm, extracted assembled plastomes. Single Nucleotide Polymorphism (SNP) analysis based on (LC-WGS) followed by visualization reveals separation from other analysed taxa. The best taxonomic resolution was achieved reads filtered contamination. contrast, result in obtaining complete plastome assemblies via NOVOPlasty pipeline raw reads. size eight newly plastid genomes ranges between 160,535 160,625bp, GC content 36,1%. We annotated 130 genes (113 unique) all assemblies. addition, investigated klokovii’s relationships 20 birch two intraspecific reconstructing plastome-based Bayesian inference maximum likelihood phylogenies. Overall, phylogeny provides better comparison to phylogenies few or nuclear molecular markers. However, it could be affected chloroplast capture, some factors like quality assembly, suitable detect hybrids when used alone. particular, found likely separate taxon closely but morphologically genetically distinct. study shows genome-wide SNP data have certain potential addressing issues specific within genus L. fully leverage this approach, suggest collecting much larger number sequences sequenced assembled. For understanding there need reference-grade chromosome scale polyploid species.

Language: Английский

Citations

0
Combining new technology with classic taxonomy to overcome hurdles to discovering dark taxa DOI
Jared Bernard

Systematics and Biodiversity, Journal Year: 2025, Volume and Issue: 23(1)

Published: Jan. 31, 2025

With numerous perils threatening biodiversity, we must remember that most of the basic units biodiversity—species—remain unknown and therefore difficult to assess. Hordes new species continue be discovered described every year. As each requires extensive work, completing description Earth's biota could require millennia, leaving many wanting automate process via genetic barcoding artificial intelligence. Over time, lesser-known groups species, referred as 'dark taxa', will occupy an increasing proportion awaiting description. dark taxa have few barcodes or images for matching algorithms, however, I propose integrating traditional taxonomy into automated workflows by linking data verified specimens using classic taxonomic keys decision trees identifying images. The roles intelligence would thus limited until can build databases specimens. This strategy vital their scientific names so signify undiscovered which is lacking in current methods.

Language: Английский

Citations

0
Commentary on "Preliminary Species Hypotheses" in Entomological Taxonomy: A Global Data and FAIR Infrastructure Perspective DOI Creative Commons
Sharif Islam

Biodiversity Data Journal, Journal Year: 2025, Volume and Issue: 13

Published: Feb. 10, 2025

What if early taxonomic findings were treated like preprints, open to iterative improvement or managed with practices from the open-source community, such as Git branching, merging and patch management? Prompted by Buckley's article Charting a Future for Entomological Taxonomy in New Zealand (2024), this commentary explores these possibilities context of biodiversity informatics. In response need rapid, scalable monitoring, Buckley introduces preliminary species hypotheses (PSH) bridge between quick identification tools rigorous Linnaean system, leveraging DNA barcoding AI-assisted image recognition produce provisional classifications that can later be validated. Expanding on Buckley’s framework, emphasises critical role data linking, versioning integration support evolving data. Borrowing software practices, I explore idea managing PSH an infrastructure treats each update versioned "commit", which tracked, refined integrated over time. Drawing insights FAIR (Findable, Accessible, Interoperable, Reusable) principles Digital Extended Specimens, identify requirements PSH, including robust standards, persistent identifiers interoperability global repositories. Additionally, Taxonomic Data Objects offer model dynamically integrating into adaptable taxonomies evolve new tools. By positioning within open, infrastructure-focused advocates scalable, hypothesis-driven meets modern conservation needs, bridging traditional emerging taxonomy.

Language: Английский

Citations

0
Remote sensing and artificial intelligence: revolutionizing pest management in agriculture DOI Creative Commons

Danishta Aziz,

Summira Rafiq,

Pawan Saini

et al.

Frontiers in Sustainable Food Systems, Journal Year: 2025, Volume and Issue: 9

Published: Feb. 26, 2025

The agriculture sector is currently facing several challenges, including the growing global human population, depletion of natural resources, reduction arable land, rapidly changing climate, and frequent occurrence diseases such as Ebola, Lassa, Zika, Nipah, most recently, COVID-19 pandemic. These challenges pose a threat to food nutritional security place pressure on scientific community achieve Sustainable Development Goal 2 (SDG2), which aims eradicate hunger malnutrition. Technological advancement plays significant role in enhancing our understanding agricultural system its interactions from cellular level green field for benefit humanity. use remote sensing (RS), artificial intelligence (AI), machine learning (ML) approaches highly advantageous producing precise accurate datasets develop management tools models. technologies are beneficial soil types, efficiently managing water, optimizing nutrient application, designing forecasting early warning models, protecting crops plant insect pests, detecting threats locusts. application RS, AI, ML algorithms promising transformative approach improve resilience against biotic abiotic stresses sustainability meet needs ever-growing population. In this article covered leveraging AI RS data, how these enable real time monitoring, detection, pest outbreaks. Furthermore, discussed allows more precise, targeted control interventions, reducing reliance broad spectrum pesticides minimizing environmental impact. Despite data quality technology accessibility, integration holds potential revolutionizing management.

Language: Английский

Citations

0
FGBNet: A Bio-Subspecies Classification Network with Multi-Level Feature Interaction DOI Creative Commons
Yang Yuan, Danping Huang,

Bingbin Cai

et al.

Diversity, Journal Year: 2025, Volume and Issue: 17(4), P. 237 - 237

Published: March 27, 2025

Biodiversity is a foundation for maintaining ecosystem health and stability, while precise species identification crucial to monitoring protecting ecosystems. Subspecies of organisms, as carriers genetic diversity, play key roles in stability adaptive evolution. Accurate subspecies helps deepen our understanding distribution, ecological relationships, change trends, providing scientific basis effective protection strategies. Therefore, this study proposes FineGrained-BioNet (FGBNet), deep learning network model specifically constructed fine-grained bio-subspecies image classification. The combines detail information supplement module, multi-level feature interaction, coordinate attention (CA) mechanism improve the accuracy efficiency Through experimentation optimization, ConvNeXt selected backbone FGBNet extraction, effectiveness interaction method verified. Additionally, optimal placement CA within also explored. experimental results show that, compared with ConvNeXt-Tiny, achieved an increase 6.204% by increasing parameter quantity only 5.702%, reaching 90.748%. This indicates that significantly improves classification computational efficiency. proposed facilitates more accurate classification, promoting development biodiversity strong technical support conservation.

Language: Английский

Citations

0
Disparity among venom components, and morphometrics in Centruroides baergi Hoffmann, 1932, a medically relevant scorpion species from Mexico DOI Creative Commons

Fernando O Bejarano-Mendoza,

Ilse V. Gómez-Ramírez,

Antonio Guzmán

et al.

Toxicon, Journal Year: 2025, Volume and Issue: unknown, P. 108370 - 108370

Published: April 1, 2025

Centruroides baergi is a scorpion species distributed in the biogeographical province of Balsas Basin Mexico. Health officials have reported acute envenomation human populations living on western side this scorpion's range, but none eastern region. This disparity toxicity suggested that there may be two distinct species. We used different approaches, including venom analysis and morphometric specimens from both regions, to test our hypothesis. performed chromatographic, electrophoretic, mass spectrometry identify known β-toxins involved intoxication. The most remarkable finding was absence Cb3 β-toxin population. Consequently, LD50 population lower than analyzed linear ratio body measurements with parametric nonparametric statistics limits. These analyses indicated all putative C. are significantly similar, suggesting they represent single Unexpectedly, scorpions center study area, Suchixtlahuaca, previously identified as baergi, showed significant morphological composition differences. provided empirical evidence an abrupt change highly toxic peptides around 98th meridian limits east

Language: Английский

Citations

0
Integrative Taxonomy for Species Delimitation: A Case Study in Two Widely Accepted Yet Morphologically Confounding Rosa Species Within Sect. Pimpinellifoliae (Rosaceae) DOI
Yu-Mei Yuan, Yu Feng,

Jingbo Wang

et al.

Molecular Ecology, Journal Year: 2025, Volume and Issue: unknown

Published: April 26, 2025

ABSTRACT The use of morphological traits as a practical approach for delimiting taxa at various ranks has long been regarded reliable basis taxonomy. However, its efficacy increasingly called into question in many taxonomic groups due to inherent limitations, such failing account phenotypic plasticity, ecologically driven variation (e.g., ecotypes), and parallel evolution. These factors often introduce ambiguity or misleading similarities, thereby obscuring the true evolutionary relationships among taxa, particularly context species delimitation. In present study, we employ an integrated methodology that combines quantitative analyses, whole‐genome data, ecological measurements resolve boundaries two morphologically similar roses, Rosa sericea hugonis , which have considered distinct but lack clear boundaries. Our findings reveal unbiased analysis data based on large representative sample size was insufficient identify effective diagnostic traits. when complemented with genome‐wide population‐level sequencing geographic niche assessments, delineation significantly improved. Furthermore, provide additional insight abiotic driving interspecific intraspecific divergence. By integrating multiple lines evidence—spanning genomic (intrinsic) (extrinsic) traits—and incorporating interaction between their environments, can be delineated greater confidence. A well‐defined thus established through mutual corroboration diverse datasets, ensuring more rigorous comprehensive framework.

Language: Английский

Citations

0