Molecular Horticulture, Год журнала: 2025, Номер 5(1)
Опубликована: Май 11, 2025
Язык: Английский
Nature Genetics, Год журнала: 2025, Номер unknown
Опубликована: Фев. 26, 2025
Язык: Английский
Процитировано
2
Nature Communications, Год журнала: 2025, Номер 16(1)
Опубликована: Март 3, 2025
Diversified reproductive systems can be observed in the plant kingdom and applied crop breeding; however, their impacts on genomic variation breeding remain unclear. Grapevine (Vitis vinifera L.), a widely planted fruit tree, underwent shift from dioecism to monoecism during domestication involves crossing, self-pollination, clonal propagation for its cultivation. In this study, we discover that types, namely, selfing, cloning, dramatically impact landscapes grapevine based comparative population genetics of wild complex pedigree Pinot Noir. The are divergent, which show interesting patterns purging Hill-Robertson interference. Selfing reduces heterozygosity, while cloning increases it, resulting "double U-shaped" site frequency spectrum (SFS). Crossing conceal selfing purges most deleterious structural burdens. Moreover, close leakage large-effect variations repulsion phases maintains heterozygous regions 4.3% genome after successive nine generations. Our study provides new insights into genetic basis crops by variants integrating beneficial through various systems. Effects Here, authors report types analyses
Язык: Английский
Процитировано
2
Horticulture Research, Год журнала: 2025, Номер 12(7)
Опубликована: Март 10, 2025
Abstract Alfalfa (Medicago sativa L.), a perennial legume forage, has been broadly cultivated owing to variety of favorable characteristics, including comprehensive ecological adaptability, superior nutritive value and palatability, nitrogen fixation capacity. The productivity traits alfalfa, specifically its biomass yield forage quality, are significantly influenced by series determinants, internal developmental factors external environmental cues. However, the regulatory mechanisms underlying fundamental biological problems alfalfa remain elusive. Here, we conducted review focusing on genomics advancements in gene-editing technologies, identification genes that control pivotal agronomic formation, nutritional flowering time, resistance various stresses. Moreover, molecular design roadmap for ‘ideal alfalfa’ proposed potential pangenomes, self-incompatibility mechanisms, de novo domestication, intelligent breeding strategies enhance alfalfa's yield, resilience were further discussed. This will provide information basic biology offer new insights cultivation ideal alfalfa.
Язык: Английский
Процитировано
2
International Journal of Molecular Sciences, Год журнала: 2025, Номер 26(5), С. 2030 - 2030
Опубликована: Фев. 26, 2025
Molecular genetics aims to understand the genetic principles and functions of genes at molecular level, while plant breeding apply this information improve traits develop new crop varieties with desired characteristics [...].
Язык: Английский
Процитировано
1
Genes, Год журнала: 2025, Номер 16(4), С. 363 - 363
Опубликована: Март 22, 2025
Sheep (Ovis aries) were domesticated around 10,000 years ago and have since become an integral part of human agriculture, providing essential resources, such as wool, meat, milk. Over the past century, advances in communication agricultural productivity driven evolution selective breeding practices, further enhancing value sheep global economy. Recently, rapid development whole-genome resequencing (WGR) technologies has significantly accelerated research molecular biology, facilitating discovery genetic underpinnings for critical traits. This review offers a comprehensive overview its application to genetics. It explores domestication origins sheep, examines structure differentiation various populations, discusses use WGR maps. In particular, highlights how technology advanced our understanding key traits, wool production, lactation, reproductive performance, disease resistance, environmental adaptability. The also covers conservation sustainable utilization offering valuable insights future programs aimed at diversity resilience populations.
Язык: Английский
Процитировано
1
Journal of Experimental Botany, Год журнала: 2025, Номер unknown
Опубликована: Янв. 9, 2025
Abstract Adaptation to drought is one of the most important challenges for agriculture. The root system, and its integration with soil, fundamental in conferring tolerance. At same time, it extremely challenging study. result that investigations aimed at increasing crop tolerance have mainly focused on above-ground traits, especially perennial species. In this review, we explore trait syndromes would constitute tolerant ideotypes, taking example grapevine as a model grafted plant. We introduce discuss complexity interactions across different spatial temporal scales considering their diversity, plasticity, possible trade-offs. Finally, review future approaches discovering hidden tolerance, such state-of-the-art phenotyping technologies, use modeling tool upscale traits field, new strategies link genes phenotypes. Together these integrated can improve breeding rootstocks.
Язык: Английский
Процитировано
0
Journal of Advanced Research, Год журнала: 2025, Номер unknown
Опубликована: Янв. 1, 2025
The development of pangenomes has revolutionized genomic studies by capturing the complete genetic diversity within a species. Pangenome assembly integrates data from multiple individuals to construct comprehensive landscape, revealing both core and accessory elements. This approach enables identification novel genes, structural variations, gene presence-absence providing insights into species evolution, adaptation, trait variation. Representing requires innovative visualization formats that effectively convey complex structures variations. review delves contemporary methodologies recent advancements in constructing pangenomes, particularly plant genomes. It examines structure pangenome representation, including format comparison, conversion, techniques, their implications for enhancing crop improvement strategies. Earlier comparative have illuminated sequences, copy number variations across diverse concept pan-genome, which captures broad spectrum genotypes, offers holistic perspective species' makeup. However, pan-genome plants with larger genomes poses challenges, managing vast genome sequence comprehending germplasm. To address these researchers explored cost-effective alternatives encapsulate single known as pangenome. involves reducing volume sequences while focusing on With growing prominence genomics, several software tools emerged facilitate construction. sheds light developing utilizing tailored pan-genomes plants. also discusses representation suitable downstream analyses, offering valuable landscape evolutionary dynamics In summary, this underscores significance construction resolving architecture plants, those provides overview advancements, aiding exploring understanding diversity.
Язык: Английский
Процитировано
0
Research Square (Research Square), Год журнала: 2025, Номер unknown
Опубликована: Фев. 5, 2025
Язык: Английский
Процитировано
0
Proceedings of the National Academy of Sciences, Год журнала: 2025, Номер 122(6)
Опубликована: Фев. 7, 2025
Hemizygous genes, which are present on only one of the two homologous chromosomes diploid organisms, have been mainly studied in context sex and sex-linked genes. However, these genes can also occur autosomes plants due to structural variants (SVs), such as a deletion/insertion allele, this phenomenon largely unexplored plants. Here, we investigated genomic epigenomic landscapes hemizygous across 22 genomes with varying propagation histories: eleven clonal lineages, seven outcrossed samples, four inbred putatively homozygous genomes. We identified SVs leading genic hemizygosity. As expected, very few (0.01 1.2%) were genomes, representing negative controls. Hemizygosity was appreciable among averaging 8.7% but consistently elevated for samples at 13.8% likely reflecting heterozygous SV accumulation during propagation. Compared more often situated centromeric than telomeric regions experienced weaker purifying selection. They had reduced levels expression, ~20% expression violating evolutionary model dosage compensation. detected higher DNA methylation transposable elements, may contribute their expression. Finally, profiles showed that specifically expressed contexts related fruit development, organ differentiation, stress responses. Overall, accumulate clonally propagated lineages display distinct genetic epigenetic features compared shedding unique insights into studies breeding programs crops.
Язык: Английский
Процитировано
0
Horticulture Research, Год журнала: 2025, Номер 12(6)
Опубликована: Март 3, 2025
Kiwifruits, belonging to the genus Actinidia, are acknowledged as one of most successfully domesticated fruits in twentieth century. Despite rich wild resources and diverse phenotypes within this genus, insights into genomic changes still limited. Here, we conducted whole-genome sequencing on seven representative materials from highly diversified sections leading assembly annotation 14 haplotype genomes with sizes spanning 602.0 699.6 Mb. By compiling these genomes, constructed a super pan-genome for genus. We identified numerous structural variations (SVs, including gene copy number) diverged regions genomes. Notably, significant SV variability was observed intronic MED25 TTG1 genes across different materials, suggesting their potential roles influencing fruit size trichome formation. Intriguingly, our findings indicated high genetic divergence between two individual, tentatively named Actinidia × leiocacarpae, sect. Leiocacarpae. This likely hybrid heterozygous genome exhibited notable adaptations related resistance against bacterial canker, particularly through upregulation RPM1 gene, which contains specific SV, after infection by Pseudomonas syringae pv. actinidiae. In addition, also discussed interlineage hybridizations taxonomic treatments Actinidia. Overall, comprehensive here, along findings, lays foundation examining compositions markers, those SVs, facilitate breeding aimed at developing desired kiwifruits.
Язык: Английский
Процитировано
0