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19 pages, 702 KB  
Review
Pediatric Vernal Keratoconjunctivitis (VKC): Current State and Future Directions—A Narrative Review of Clinical Features, Diagnostic Strategies, and Emerging Therapies
by Elia Pignataro, Giulia Brindisi, Alessandra Gori, Giorgio Colletti, Paola Moraca, Bianca Laura Cinicola, Alberto Spalice, Caterina Anania and Anna Maria Zicari
Children 2026, 13(3), 335; https://doi.org/10.3390/children13030335 - 26 Feb 2026
Viewed by 280
Abstract
Vernal keratoconjunctivitis (VKC) represents far more than a typical allergic eye disease. It is a distinct and often underestimated chronic inflammatory condition that primarily affects children during critical stages of physical and emotional development. Though frequently grouped with seasonal allergic conjunctivitis, VKC differs [...] Read more.
Vernal keratoconjunctivitis (VKC) represents far more than a typical allergic eye disease. It is a distinct and often underestimated chronic inflammatory condition that primarily affects children during critical stages of physical and emotional development. Though frequently grouped with seasonal allergic conjunctivitis, VKC differs significantly in its immunopathology, clinical presentation, and long-term implications. Its intense ocular symptoms and its potential for corneal damage and substantial psychosocial burden require, rather than symptom control, coordinated and multidisciplinary management. This narrative review explores VKC from every angle, with a particular focus on its implications for pediatric care. VKC, in fact, represents a genuine clinical challenge: as its symptoms can mimic milder forms of conjunctivitis, its course is often unpredictable, and its treatment requires balancing efficacy and safety in vulnerable age groups. We examined the immunological mechanisms that make it a model of localized Th2 inflammation, the diagnostic pitfalls that delay recognition, and the evolving treatment landscape, from conventional therapies like cyclosporine A and tacrolimus to innovative agents such as omalizumab and dupilumab. We also highlighted the role of emerging biomarkers, the influence of environmental and microbiome factors, and the urgent need for standardized care pathways. As research continues to expand our understanding, VKC is emerging as a prime example of how personalized medicine and translational science can intersect to address complex immune-mediated diseases in children. For the ones treating pediatric allergic disorders, VKC is no longer a rare curiosity: it is a clinical challenge worth understanding deeply. Full article
(This article belongs to the Section Pediatric Allergy and Immunology)
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23 pages, 10228 KB  
Article
Genomic Insights into Winter Wheat Breeding for Severely Cold Climates
by Demissew Sertse, Wubishet A. Bekele and Curt A. McCartney
Int. J. Mol. Sci. 2026, 27(3), 1568; https://doi.org/10.3390/ijms27031568 - 5 Feb 2026
Viewed by 375
Abstract
Wheat is one of the world’s most important crops, cultivated across diverse ecogeographic zones on more than ~245 million hectares annually. Classified by vernalization requirement into spring, facultative, or winter types, the latter typically achieves higher yields due to its extended growing season, [...] Read more.
Wheat is one of the world’s most important crops, cultivated across diverse ecogeographic zones on more than ~245 million hectares annually. Classified by vernalization requirement into spring, facultative, or winter types, the latter typically achieves higher yields due to its extended growing season, reaching ~18 t ha−1 and 9–10 t ha−1 as a national average for Western European countries such as Germany, France, and England, compared with the global average of barely above 3 t ha−1. Despite this potential, winter wheat is largely confined to regions with relatively mild winters, while vast temperate zones with extremely cold winters rely on spring wheat. Breeding has traditionally targeted the vernalization–C-repeat Binding Factor (VRN–CBF) pathway, which confers tolerance to moderately severe winters but is insufficient for extreme cold, implying the need for additional layers of adaptive mechanisms. Using multiple genotypic datasets, we identified genomic regions underlying low-temperature tolerance. Genome- and chromosome-wide scans revealed strong differentiation on chromosome 5A (526–703 Mb), overlapping the VRN–CBF loci. SNP-level FST analysis between spring and winter cultivars highlighted the VRN-A1 (586–588 Mb) region and a locus spanning 549 and 559 Mb on chromosome 6A. Further comparisons between winter accessions adapted to extreme cold (≤−12 °C) and mild winters (>0 °C) revealed a differentiated region on chromosome 3B (561–564 Mb) harbouring two key genes conferring CBF-independent cold tolerance, TRAESCS3B02G351100 and TRAESCS3B02G354000, encoding diacylglycerol kinase1 (DGK1) and peroxidase 56 (PRX56), respectively. These findings underscore alternative pathways in shaping cold adaptation, highlighting the need to broaden breeding strategies for extreme environments. We further detected a pronounced haplotype divergence between Chinese and U.S. winter cultivars reflecting distinct breeding trajectories; notably, China, where ~90% of wheat production is of the winter type, achieves national yields >5 t ha−1, compared with ~3 t ha−1 in the United States, where over 70% of production is winter wheat. This contrast suggests that the haplotypes enriched in Chinese winter cultivars could represent valuable resources for enhancing winter wheat performance in other regions with comparable environments. Full article
(This article belongs to the Section Molecular Genetics and Genomics)
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24 pages, 2016 KB  
Article
Greenhouse Performance of Anemone and Ranunculus Under Northern Climates: Effects of Temperature, Vernalization, and Storage Organ Traits
by Sara Benchaa and Line Lapointe
Horticulturae 2026, 12(1), 43; https://doi.org/10.3390/horticulturae12010043 - 29 Dec 2025
Viewed by 1289
Abstract
Optimizing the growing conditions of Anemone coronaria and Ranunculus asiaticus for cut-flower production under northern greenhouse conditions requires a better understanding of the environmental and cultivation practices influencing emergence, flowering, and flower quality. This study evaluated the effect of storage organ reuse, along [...] Read more.
Optimizing the growing conditions of Anemone coronaria and Ranunculus asiaticus for cut-flower production under northern greenhouse conditions requires a better understanding of the environmental and cultivation practices influencing emergence, flowering, and flower quality. This study evaluated the effect of storage organ reuse, along with vernalization conditions, growth temperature, growing season, and planting method (in-ground vs. containers) on plant phenology and flower yield and quality. Flower quantity and quality were unaffected by storage organ age, confirming that these organs can be stored and reused the following season. Vernalization at temperatures of 7 °C or 10 °C advanced flowering compared to warmer vernalization in all cultivars, and increased flower yield compared to non-vernalization. Growth under cool conditions (15/10 °C day/night) extended the production period and improved floral quality by promoting longer stems and delaying senescence. Short to moderate photoperiods (11–13 h in the winter vs. 15 h in the spring) and low light intensity, typical of winter, promoted stem elongation and marketable flower yield, whereas increasing photoperiod and temperature in late spring shorten the flowering period. Ground beds provided cooler and more buffered soil conditions, improving flowering duration and yield compared to container-grown plants during springtime. These findings highlight the importance of integrating temperature management, vernalization, and tailored cultivation practices to enhance flower quality, prolong the production, and improve sustainability of cut-flower production under northern climates in both species. Full article
(This article belongs to the Section Floriculture, Nursery and Landscape, and Turf)
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13 pages, 4209 KB  
Article
BrMAF5 and Its Antisense lncRNA BrMAF5L Regulate Vernalization-Induced Bolting and Flowering in Chinese Cabbage
by Xiangqianchen Li, Xinyu Gao, Shaoxing Wang, Shifan Zhang, Fei Li, Guoliang Li, Rifei Sun, Shujiang Zhang, Hui Zhang and Yun Dai
Horticulturae 2025, 11(12), 1519; https://doi.org/10.3390/horticulturae11121519 - 15 Dec 2025
Viewed by 341
Abstract
Bolting and flowering time are critical agronomic traits affecting the commercial value and breeding efficiency of Chinese cabbage (Brassica rapa L. ssp. pekinensis). Although vernalization is a key environmental signal promoting flowering, its regulatory mechanisms remain poorly understood in this crop. [...] Read more.
Bolting and flowering time are critical agronomic traits affecting the commercial value and breeding efficiency of Chinese cabbage (Brassica rapa L. ssp. pekinensis). Although vernalization is a key environmental signal promoting flowering, its regulatory mechanisms remain poorly understood in this crop. Here, we identify the flowering repressor gene BrMAF5 and its antisense long non-coding RNA BrMAF5L as negative regulators of vernalization-induced flowering. During vernalization, transcript levels of both genes showed a decreasing trend as the vernalization period extended. Functional assays in Arabidopsis thaliana demonstrated that ectopic expression of BrMAF5 or BrMAF5L significantly delayed flowering, accompanied by increased expression of floral repressors (AtFLC, AtTEM1) and reduced expression of floral activators (AtFT, AtSOC1). Moreover, protein interaction analysis revealed that BrMAF5 associates with BrACP4 and BrRAB1A, linking it to fatty acid metabolism and membrane trafficking pathways. Collectively, our results reveal a novel regulatory module in vernalization-mediated flowering. These findings pave the way for developing bolting-resistant Brassicaceae crops by identifying promising molecular targets. Full article
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22 pages, 1057 KB  
Review
Epigenetic Regulation of Floral Transition
by Yulong Li, Dian Zhang, Jin Wang, Meiru Yang, Zhancai Yin, Keming Zhu, Yuanxue Liang and Xiaoli Tan
Plants 2025, 14(22), 3471; https://doi.org/10.3390/plants14223471 - 14 Nov 2025
Cited by 1 | Viewed by 1505
Abstract
As an emerging field of life science, epigenetics plays a pivotal role in regulating gene expression. Epigenetic modifications including histone modifications, DNA methylation, chromatin remodeling, non-coding RNAs, and RNA modifications (particularly m6A methylation) play crucial roles in fine-tuning plant developmental processes. [...] Read more.
As an emerging field of life science, epigenetics plays a pivotal role in regulating gene expression. Epigenetic modifications including histone modifications, DNA methylation, chromatin remodeling, non-coding RNAs, and RNA modifications (particularly m6A methylation) play crucial roles in fine-tuning plant developmental processes. Among these, floral transition marks a key developmental switch from vegetative to reproductive growth, orchestrated by complex interactions between endogenous signals (such as age and hormones) and environmental cues (such as photoperiod and temperature). Recent advances have uncovered that epigenetic mechanisms act as molecular bridges integrating these signals to ensure flowering occurs under optimal conditions. This review synthesizes the current understanding of epigenetic control in the six canonical flowering pathways—photoperiod, vernalization, autonomous, thermosensory, gibberellin, and age-dependent pathways—with a particular emphasis on the emerging role of m6A RNA modification. We also discuss the crosstalk among epigenetic layers and highlight the translational potential of epigenetic engineering in optimizing flowering time and crop adaptation. Full article
(This article belongs to the Section Horticultural Science and Ornamental Plants)
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13 pages, 1865 KB  
Article
Alternative Methodology for Cortisol Evaluation Before and After Sheep Shearing Using Raman Spectroscopy: A Feasibility Study
by Giuseppe Acri, Barbara Testagrossa, Alberto Scoglio, Alessandro Attanzio, Francesca Arfuso, Maria Rizzo, Giuseppe Piccione and Claudia Giannetto
Animals 2025, 15(19), 2776; https://doi.org/10.3390/ani15192776 - 23 Sep 2025
Viewed by 904
Abstract
This research proposed a feasibility study for a qualitative and semiquantitative analysis of sheep serum using Raman Spectroscopy analysis as an alternative to standard methodologies. Raman Spectroscopy was used to obtain information about molecular vibrations that can provide information about the behavior of [...] Read more.
This research proposed a feasibility study for a qualitative and semiquantitative analysis of sheep serum using Raman Spectroscopy analysis as an alternative to standard methodologies. Raman Spectroscopy was used to obtain information about molecular vibrations that can provide information about the behavior of specific variations in the protein network. This study was conducted during the traditional vernal shearing procedure in Sicilian sheep breeding. Twenty female sheep were randomly chosen from a one-hundred Comisana-bred flock habituated to the handling required for shearing and venipuncture. Animals had a mean body weight of 52.35 ± 4.55 kg, were aged between 2 and 3 years old, and were clinically healthy with no evidence of disease and free from internal and external parasites. All animals were shorn on the same day by hand using traditional shearing scissors in a 15 m × 10 m pen. The animals were released into an adjacent pen at the end of the shearing procedure. For each animal, blood samples were collected through jugular venipuncture into a vacutainer tube with a clot activator (Terumo Corporation, Japan) immediately before and 5 and 60 min after the end of the shearing procedure. On the obtained sera, ELISA and Raman spectroscopy analyses were performed to evaluate cortisol concentrations. The band area corresponding to the cortisol vibration mode was identified in the 1300–1366 cm−1 band. The Raman spectra obtained during the various protocol data points showed the same trend, with differences in the intensity of the band area 1300–1366 cm−1. A positive correlation was found between ELISA and Raman assessment in all experimental conditions. The obtained results demonstrate that Raman spectroscopy analysis could be a suitable tool for biomolecule identification. This study demonstrated that this technique provides useful information for understanding sheep responses to stress induced by management conditions. Full article
(This article belongs to the Section Animal Physiology)
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17 pages, 2667 KB  
Article
Comprehensive Analysis of TaNCED Gene Family in Wheat Vernalization Process
by Guoqing Cui and Hao Cheng
Biology 2025, 14(9), 1293; https://doi.org/10.3390/biology14091293 - 19 Sep 2025
Viewed by 784
Abstract
9-cis-epoxycarotenoid dioxygenases (NCEDs), serving as the rate-limiting enzymes in abscisic acid (ABA) biosynthesis, play a pivotal role in regulating plant growth and development, as well as responses to abiotic stresses. Despite their agronomic importance, the molecular dialog between ABA signaling and [...] Read more.
9-cis-epoxycarotenoid dioxygenases (NCEDs), serving as the rate-limiting enzymes in abscisic acid (ABA) biosynthesis, play a pivotal role in regulating plant growth and development, as well as responses to abiotic stresses. Despite their agronomic importance, the molecular dialog between ABA signaling and vernalization, a cold-induced switch from vegetative to reproductive growth in wheat, remains poorly characterized, particularly regarding the TaNCED gene family members. Here, we systematically identified 13 TaNCED members in hexaploid wheat, followed by multi-omics characterization encompassing physicochemical properties, exon–intron architectures, conserved catalytic domains, protein motifs, and cis-acting elements. By analyzing transcriptome data from vernalization treatments, we profiled the expression patterns of TaNCED genes during vernalization. Notably, TaNCED5-6A, TaNCED5-6B, and TaNCED5-6D exhibited significant upregulation in vernalized leaves and tiller buds, while maintaining basal expression in the shoot apical meristem, the site of floral induction. This tissue-specific expression pattern implicates their specialized role in mediating vernalization responses via ABA biosynthesis. Collectively, our findings provide novel insights into the regulatory mechanisms of ABA-mediated vernalization in wheat and offer valuable targets for vernalization efficiency in cereal breeding programs. Full article
(This article belongs to the Section Plant Science)
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21 pages, 645 KB  
Review
Vernalization of Winter Crops Increases Photosynthetic Energy Conversion Efficiency and Seed Yield
by Norman P. A. Hüner, Alexander G. Ivanov, Beth Szyszka-Mroz, Leon A. Bravo, Leonid V. Savitch and Marianna Krol
Plants 2025, 14(15), 2357; https://doi.org/10.3390/plants14152357 - 31 Jul 2025
Cited by 1 | Viewed by 1368
Abstract
We summarize our present knowledge of the regulation of photostasis and photosynthetic performance versus photoprotection in response to vernalization and conclude that the enhanced photosynthetic performance of winter crops is due to an inherent increase in photosynthetic energy conversion efficiency induced by vernalization [...] Read more.
We summarize our present knowledge of the regulation of photostasis and photosynthetic performance versus photoprotection in response to vernalization and conclude that the enhanced photosynthetic performance of winter crops is due to an inherent increase in photosynthetic energy conversion efficiency induced by vernalization which translates into high seed yield in the field as well as under controlled environment conditions. This is consistent with the published data for enhanced photosynthetic performance of the only two extant terrestrial angiosperms, Colobanthus quitensis and Deschampsia antarctica, native to the frigid conditions of terrestrial Antarctica. The Cold Binding factor family of transcription factors (CBFs/DREBs) governs the enhanced photosynthetic performance of winter cereals as well as the Antarctic angiosperms. In contrast to winter crops, spring varieties survive cold environments by stimulating photoprotection at the expense of photosynthetic performance like that observed for green algae and cyanobacteria. Consequently, this minimizes the photosynthetic energy conversion efficiency of spring varieties and limits their seed yield upon cold acclimation. This review provides critical insights into the regulation of photostasis and the balance between photosynthetic performance and photoprotection in plants and how vernalization has enhanced photosynthetic energy conversion, which is essential for understanding plant adaptation to cold environments and optimizing agricultural productivity for improving crop resilience and yield in challenging climates. Full article
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18 pages, 1445 KB  
Systematic Review
Topical Use of Tacrolimus in Corneal and Ocular Surface Pathologies: A Systematic Review
by Georgios Katonis, Argyrios Tzamalis, Ioannis Tsinopoulos and Nikolaos Ziakas
J. Clin. Med. 2025, 14(15), 5347; https://doi.org/10.3390/jcm14155347 - 29 Jul 2025
Cited by 1 | Viewed by 5076
Abstract
Background/Objectives: Tacrolimus, an immunosuppressant, is increasingly used topically in ophthalmology, particularly for conditions like vernal keratoconjunctivitis and post-keratoplasty rejection prophylaxis. This systematic review aims to evaluate the efficacy and safety of topical tacrolimus in these ocular conditions. Methods: A thorough search [...] Read more.
Background/Objectives: Tacrolimus, an immunosuppressant, is increasingly used topically in ophthalmology, particularly for conditions like vernal keratoconjunctivitis and post-keratoplasty rejection prophylaxis. This systematic review aims to evaluate the efficacy and safety of topical tacrolimus in these ocular conditions. Methods: A thorough search was conducted in PubMed and Cochrane Library for relevant studies published up to 16 March 2025. Studies were eligible for inclusion if they were randomized controlled trials investigating topical tacrolimus in human ocular disease, were published in English, and reported clearly defined outcomes. Exclusion criteria included non-randomized studies, animal studies, systemic treatments, non-English publications, and studies lacking clearly reported outcomes. Data regarding study design, patient demographics, intervention details, and outcomes were extracted and analyzed. The Cochrane risk-of-bias tool (RoB 2.0) was used to assess the risk of bias. Results: A total of 10 studies met the inclusion criteria, were retrieved, and were categorized as not highly biased after the risk-of-bias assessment. These studies were included in the systematic review, where a qualitative analysis took place. Our analysis revealed that the topical use of tacrolimus showed promising results, as it improved clinical signs and symptoms in most patients. In half of the studies, tacrolimus demonstrated superior efficacy compared to the control group, while in the remaining studies, it showed equivalent efficacy. Adverse effects, such as a burning sensation, were noted in 7/10 studies but were generally mild. The methodologies were somewhat heterogeneous, and some studies had small sample sizes. Conclusions: Topical tacrolimus shows promising effects in managing various ocular surface diseases. While randomized controlled trials provide evidence, further research with larger sample sizes is necessary to solidify its efficacy and safety profile compared to other immunosuppressants. Full article
(This article belongs to the Special Issue Advancements in Cornea Transplantation)
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20 pages, 2613 KB  
Review
The Genetic Basis of Wheat Spike Architecture
by Zhen Ji, Xin Liu, Fei Yan, Shouqing Wu and Yanfang Du
Agriculture 2025, 15(15), 1575; https://doi.org/10.3390/agriculture15151575 - 22 Jul 2025
Viewed by 3462
Abstract
Wheat is one of the three major staple crops globally. The wheat spike serves as the primary structure bearing wheat grains. Spike architectures of wheat have a direct impact on the number of grains per spike, and thus the grain yield per spike. [...] Read more.
Wheat is one of the three major staple crops globally. The wheat spike serves as the primary structure bearing wheat grains. Spike architectures of wheat have a direct impact on the number of grains per spike, and thus the grain yield per spike. The development of wheat spike morphology is conserved to some extent in cereal crops, yet also exhibits differences, being strictly regulated by photoperiod and temperature. This paper compiles QTLs and genes related to wheat spike traits that have been published over the past two decades, summarizes the photoperiod and vernalization pathways influencing the transition from vegetative to reproductive growth, and organizes the key regulatory networks controlling spikelet and floret development. Additionally, it anticipates advancements in wheat gene cloning methods, challenges in optimizing wheat spike architecture for high yield and future directions in wheat spike trait research. Full article
(This article belongs to the Section Crop Genetics, Genomics and Breeding)
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26 pages, 3710 KB  
Article
Global Transcriptome and Weighted Gene Co-Expression Network Analyses of Cold Stress Responses in Chinese Cabbage
by Jizong Zhang, Songtao Liu, Huibin Li, Mengmeng Sun, Baoyue Yan, Peng Zhang and Lifeng Zhang
Genes 2025, 16(7), 845; https://doi.org/10.3390/genes16070845 - 20 Jul 2025
Viewed by 1151
Abstract
Background/Objectives: Chinese cabbage (Brassica rapa ssp. Pekinensis, AA) growth and development is highly sensitive to cold temperatures. Prolonged low-temperature exposure during early growth stages can induce premature bolting, which reduces market quality and yield. Methods: Here, using comparative leaf RNA-seq transcriptome [...] Read more.
Background/Objectives: Chinese cabbage (Brassica rapa ssp. Pekinensis, AA) growth and development is highly sensitive to cold temperatures. Prolonged low-temperature exposure during early growth stages can induce premature bolting, which reduces market quality and yield. Methods: Here, using comparative leaf RNA-seq transcriptome analysis of plants grown at 6, 9, 12, and 15 °C, we explored key genes and metabolic pathways regulating Chinese cabbage cold response. Results: RNA-seq transcriptome analysis identified a total of 1832 differentially expressed genes (DEGs) in the three comparison groups, with 5452, 1861, and 752 DEGs specifically expressed in the A6_vs_A15, A9_vs_A15, and A12_vs_A15 groups, respectively. KEGG enrichment analysis of DEGs showed that sulfur metabolism, secondary metabolites biosynthesis and photosynthesis pathways were mostly affected by cold stress. K-means clustering revealed distinct expression profiles among the DEGs enriched in cold stress response-associated clusters. Subsequently, DEGs were divided into 18 modules by WGCNA, whereupon co-expression genes that clustered into similar modules exhibited diverse expression and were annotated to various GO terms at different temperatures. Module-trait association analysis revealed M1, M2, M3, and M6 modules as key clusters potentially linked to vernalization-related processes. These modules harbored candidate hub genes encoding transcription factors (including MYB, bZIP, and WRKY), protein kinases, and cold-stress-responsive genes. Additionally, phenotypic analysis showed that 12 °C to 15 °C supported optimal growth, whereas <9 °C temperature inhibited growth. Physiological measurements showed increased antioxidant enzyme activity and proline accumulation at 6 °C. Conclusions: Overall, our study provides a set of candidate cold-stress-responsive genes and co-expression modules that may support cold stress tolerance breeding in Chinese cabbage. Full article
(This article belongs to the Section Plant Genetics and Genomics)
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24 pages, 1334 KB  
Article
Evaluation of the Global White Lupin Collection Reveals Significant Associations Between Homologous FLOWERING LOCUS T Indels and Flowering Time, Providing Validated Markers for Tracking Spring Ecotypes Within a Large Gene Pool
by Wojciech Bielski, Anna Surma, Michał Książkiewicz and Sandra Rychel-Bielska
Int. J. Mol. Sci. 2025, 26(14), 6858; https://doi.org/10.3390/ijms26146858 - 17 Jul 2025
Viewed by 912
Abstract
FLOWERING LOCUS T (FT) is a key integrator of flowering pathways. White lupin, a grain legume, encodes four FT homologs: LalbFTa1, LalbFTa2, LalbFTc1, and LalbFTc2. Widespread distribution of white lupin implies diverse phenological adaptations to contrasting ecosystems. [...] Read more.
FLOWERING LOCUS T (FT) is a key integrator of flowering pathways. White lupin, a grain legume, encodes four FT homologs: LalbFTa1, LalbFTa2, LalbFTc1, and LalbFTc2. Widespread distribution of white lupin implies diverse phenological adaptations to contrasting ecosystems. Recent studies highlighted associations between FT indels and flowering regulation. Therefore, we surveyed the global white lupin collection for the presence of such indels and potential links to phenology. A panel of 626 white lupin genotypes, representing several European and African agro-climates, was phenotyped under a long-day photoperiod in a two-year study, showing up to 80 days of flowering time difference between early landraces from Eastern Mediterranean and late accessions from France, Madeira, the Canaries, Greece, Italy, and the Azores. As many as seventeen indel variants were identified for LalbFTc1, twelve for LalbFTa2, nine for LalbFTa1, and four for LalbFTc2, yielding roughly three hundred allelic combinations. Significant correlations with phenology were confirmed for one LalbFTa1 indel and twelve LalbFTc1 indels. A large, highly correlated LalbFTc1 indel was revealed to be conserved among all domesticated Old World lupins, carrying all FTc1-promoter candidate binding sites of the same major floral repressor, AGAMOUS-LIKE 15. A small LalbFTa1 indel, providing additional contribution to earliness, showed homology between white and yellow lupins. LalbFTc1 indel-based PCR markers revealed high discriminatory power towards early (PR_42a and PR_71b) or late (PR_58c, PR_36b, PR_80, and PR_60b) flowering. Full article
(This article belongs to the Special Issue Developing Methods and Molecular Basis in Plant Biotechnology)
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17 pages, 1470 KB  
Article
Combination of Vrn Alleles Assists in Optimising the Vernalization Requirement in Barley (Hordeum vulgare L.)
by Raushan Yerzhebayeva, Tamara Bazylova, Gaziza Zhumaliyeva, Sholpan Bastaubayeva, Askar Baimuratov, Burabai Sariev, Galym Shegebayev, Namuk Ergün and Yuri Shavrukov
Agriculture 2025, 15(13), 1389; https://doi.org/10.3390/agriculture15131389 - 28 Jun 2025
Cited by 1 | Viewed by 988
Abstract
Vernalization genes (Vrn) play a key role in plant adaptation to various geographic locations and their allelic diversity can have fundamental importance for breeding programs. In the current study, 340 barley genotypes were studied, including germplasm accessions and advanced breeding lines. [...] Read more.
Vernalization genes (Vrn) play a key role in plant adaptation to various geographic locations and their allelic diversity can have fundamental importance for breeding programs. In the current study, 340 barley genotypes were studied, including germplasm accessions and advanced breeding lines. For phenotype evaluation in South-Eastern Kazakhstan, the transition of barley plants from vegetative to reproductive stages was estimated in field trials with spring- and winter-sown seeds. For molecular analysis, 10 previously described molecular markers were studied in three barley vernalization loci: Vrn-H1, Vrn-H2 and Vrn-H3. The comparison between molecular results and phenotypes for plant development confirmed 211 spring genotypes, 56 winter and 28 facultative. Vrn-H1 haplotypes 1A and recessive allele vrn-H3 were in the majority. Best spring and winter high-yielding advanced breeding lines were identified. Based on Vrn allele combination, a breeding line 76/13-4 with facultative type development showed superior results in both winter and spring sowings, presenting a new prospective barley cultivar that can be grown equally either in spring or winter sowing conditions. The presented results can be used for barley marker-assisted selection predicting crosses with favourable combinations of Vrn alleles for prospective breeding line development. Full article
(This article belongs to the Section Crop Genetics, Genomics and Breeding)
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14 pages, 5685 KB  
Article
Construction of an Overexpression Library for Chinese Cabbage Orphan Genes in Arabidopsis and Functional Analysis of BOLTING RESISTANCE 4-Mediated Flowering Delay
by Ruiqi Liao, Ruiqi Zhang, Xiaonan Li and Mingliang Jiang
Plants 2025, 14(13), 1947; https://doi.org/10.3390/plants14131947 - 25 Jun 2025
Cited by 2 | Viewed by 989
Abstract
Orphan genes (OGs), which are unique to a specific taxon and have no detectable sequence homology to any known genes across other species, play a pivotal role in governing species-specific phenotypic traits and adaptive evolution. In this study, 20 OGs of [...] Read more.
Orphan genes (OGs), which are unique to a specific taxon and have no detectable sequence homology to any known genes across other species, play a pivotal role in governing species-specific phenotypic traits and adaptive evolution. In this study, 20 OGs of Chinese cabbage (Brassica rapa OGs, BrOGs) were transferred into Arabidopsis thaliana by genetic transformation to construct an overexpression library in which 50% of the transgenic lines had a delayed flowering phenotype, 15% had an early flowering phenotype, and 35% showed no difference in flowering time compared to control plants. There were many other phenotypes attached to these transgenic lines, such as leaf color, number of rosette leaves, and silique length. To understand the impact of BrOGs on delayed flowering, BrOG142OE, which showed the most significantly delayed flowering phenotype, was chosen for further analysis, and BrOG142 was renamed BOLTING RESISTANCE 4 (BR4). In BR4OE, the expression of key flowering genes, including AtFT and AtSOC1, significantly decreased, and AtFLC and AtFRI expression increased. GUS staining revealed BR4 promoter activity mainly in the roots, flower buds and leaves. qRT-PCR showed that BR4 primarily functions in the flowers, flower buds, and leaves of Chinese cabbage. BR4 is a protein localized in the nucleus, cytoplasm, and cell membrane. The accelerated flowering time phenotype of BR4OE was observed under gibberellin and vernalization treatments, indicating that BR4 regulates flowering time in response to these treatments. These results provide a foundation for elucidating the mechanism by which OGs regulate delayed flowering and have significance for the further screening of bolting-resistant Chinese cabbage varieties. Full article
(This article belongs to the Section Plant Development and Morphogenesis)
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16 pages, 3897 KB  
Article
Allelic Variations in Phenology Genes in Club Wheat (Triticum compactum) and Their Association with Heading Date
by Bárbara Mata and Adoración Cabrera
Int. J. Mol. Sci. 2025, 26(10), 4875; https://doi.org/10.3390/ijms26104875 - 19 May 2025
Viewed by 1046
Abstract
The allelic diversity within genes controlling the vernalization requirement (VRN1) and photoperiod response (PPD1) determines the ability of wheat to adapt to a wide range of environmental conditions and influences grain yield. In this study, allelic variations at the [...] Read more.
The allelic diversity within genes controlling the vernalization requirement (VRN1) and photoperiod response (PPD1) determines the ability of wheat to adapt to a wide range of environmental conditions and influences grain yield. In this study, allelic variations at the VRN-A1, VRN-B1, VRN-D1 and PPD-D1 genes were studied for 89 accessions of Triticum compactum from different eco-geographical regions of the world. The collection was evaluated for heading date in both field and greenhouse experiments under a long photoperiod and without vernalization. Based on heading date characteristics, 52 (58.4%) of the genotypes had a spring growth habit, and all of them carried at least one dominant VRN1 allele, while 37 (41.6%) accessions had a winter growth habit and carried the triple recessive allele combination. The photoperiod-sensitive Ppd-D1b allele was detected in 85 (95.5%) accessions and the insensitive Ppd-D1a allele in four (4.5%) accessions. A total of 10 phenology gene profiles (haplotypes) were observed at four major genes in the T. compactum germplasm collection. The LSD test revealed significant differences in the mean heading date among the different spring phenology gene profiles, both in greenhouse and field conditions. In addition, 21 microsatellite markers (simple sequence repeats, SSRs) were used to assess the genetic diversity in the collection. The 21 SSR markers amplified a total of 183 alleles across all the genotypes, with a mean of 3.2 alleles per locus. The polymorphic information content ranged from 0.49 to 0.94, with a mean of 0.84. The results of this study may be useful for both T. compactum and common wheat breeding programs as a source of agronomic traits. Full article
(This article belongs to the Collection Genetics and Molecular Breeding in Plants)
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