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24 pages, 624 KiB  
Systematic Review
Integrating Artificial Intelligence into Perinatal Care Pathways: A Scoping Review of Reviews of Applications, Outcomes, and Equity
by Rabie Adel El Arab, Omayma Abdulaziz Al Moosa, Zahraa Albahrani, Israa Alkhalil, Joel Somerville and Fuad Abuadas
Nurs. Rep. 2025, 15(8), 281; https://doi.org/10.3390/nursrep15080281 - 31 Jul 2025
Viewed by 126
Abstract
Background: Artificial intelligence (AI) and machine learning (ML) have been reshaping maternal, fetal, neonatal, and reproductive healthcare by enhancing risk prediction, diagnostic accuracy, and operational efficiency across the perinatal continuum. However, no comprehensive synthesis has yet been published. Objective: To conduct a scoping [...] Read more.
Background: Artificial intelligence (AI) and machine learning (ML) have been reshaping maternal, fetal, neonatal, and reproductive healthcare by enhancing risk prediction, diagnostic accuracy, and operational efficiency across the perinatal continuum. However, no comprehensive synthesis has yet been published. Objective: To conduct a scoping review of reviews of AI/ML applications spanning reproductive, prenatal, postpartum, neonatal, and early child-development care. Methods: We searched PubMed, Embase, the Cochrane Library, Web of Science, and Scopus through April 2025. Two reviewers independently screened records, extracted data, and assessed methodological quality using AMSTAR 2 for systematic reviews, ROBIS for bias assessment, SANRA for narrative reviews, and JBI guidance for scoping reviews. Results: Thirty-nine reviews met our inclusion criteria. In preconception and fertility treatment, convolutional neural network-based platforms can identify viable embryos and key sperm parameters with over 90 percent accuracy, and machine-learning models can personalize follicle-stimulating hormone regimens to boost mature oocyte yield while reducing overall medication use. Digital sexual-health chatbots have enhanced patient education, pre-exposure prophylaxis adherence, and safer sexual behaviors, although data-privacy safeguards and bias mitigation remain priorities. During pregnancy, advanced deep-learning models can segment fetal anatomy on ultrasound images with more than 90 percent overlap compared to expert annotations and can detect anomalies with sensitivity exceeding 93 percent. Predictive biometric tools can estimate gestational age within one week with accuracy and fetal weight within approximately 190 g. In the postpartum period, AI-driven decision-support systems and conversational agents can facilitate early screening for depression and can guide follow-up care. Wearable sensors enable remote monitoring of maternal blood pressure and heart rate to support timely clinical intervention. Within neonatal care, the Heart Rate Observation (HeRO) system has reduced mortality among very low-birth-weight infants by roughly 20 percent, and additional AI models can predict neonatal sepsis, retinopathy of prematurity, and necrotizing enterocolitis with area-under-the-curve values above 0.80. From an operational standpoint, automated ultrasound workflows deliver biometric measurements at about 14 milliseconds per frame, and dynamic scheduling in IVF laboratories lowers staff workload and per-cycle costs. Home-monitoring platforms for pregnant women are associated with 7–11 percent reductions in maternal mortality and preeclampsia incidence. Despite these advances, most evidence derives from retrospective, single-center studies with limited external validation. Low-resource settings, especially in Sub-Saharan Africa, remain under-represented, and few AI solutions are fully embedded in electronic health records. Conclusions: AI holds transformative promise for perinatal care but will require prospective multicenter validation, equity-centered design, robust governance, transparent fairness audits, and seamless electronic health record integration to translate these innovations into routine practice and improve maternal and neonatal outcomes. Full article
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17 pages, 3168 KiB  
Article
Amphibian Egg Jelly as a Biocompatible Material: Physicochemical Characterization and Selective Cytotoxicity Against Melanoma Cells
by Behlul Koc-Bilican, Tugce Karaduman-Yesildal, Selay Tornaci, Demet Cansaran-Duman, Ebru Toksoy Oner, Serkan Gül and Murat Kaya
Polymers 2025, 17(15), 2046; https://doi.org/10.3390/polym17152046 - 27 Jul 2025
Viewed by 375
Abstract
Extensive research on amphibians has focused on areas such as morphological and molecular taxonomy, ecology, embryology, and molecular phylogeny. However, the structure and biotechnological potential of egg jelly—which plays a protective and nutritive role for embryos—have remained largely unexplored. This study presents, for [...] Read more.
Extensive research on amphibians has focused on areas such as morphological and molecular taxonomy, ecology, embryology, and molecular phylogeny. However, the structure and biotechnological potential of egg jelly—which plays a protective and nutritive role for embryos—have remained largely unexplored. This study presents, for the first time, a detailed physicochemical analysis of the egg jelly of Pelophylax ridibundus, an amphibian species, using Fourier Transform Infrared Spectroscopy, Thermogravimetric Analyzer, X-ray Diffraction, and elemental analysis. The carbohydrate content was determined via High-Performance Liquid Chromatography analysis, and the protein content was identified using Liquid Chromatography-Tandem Mass Spectrometry analysis. Additionally, it was revealed that this jelly exhibits a significant cytotoxic effect on melanoma cells (viability < 30%) while showing no cytotoxicity on healthy dermal fibroblast cells (viability > 70%). Consequently, this non-toxic, biologically derived, and cultivable material is proposed as a promising candidate for cancer applications, paving the way for further research in the field. Full article
(This article belongs to the Special Issue Bio-Inspired Polymers: Synthesis, Properties and Applications)
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17 pages, 6842 KiB  
Article
Identification of the Embryogenesis Gene BBM in Alfalfa (Medicago sativa) and Analysis of Its Expression Pattern
by Yuzhu Li, Jiangdi Yu, Jiamin Miao, Weinan Yue and Tongyu Xu
Agronomy 2025, 15(8), 1768; https://doi.org/10.3390/agronomy15081768 - 23 Jul 2025
Viewed by 240
Abstract
Apomixis-mediated fixation of heterosis could transform hybrid breeding in alfalfa (Medicago sativa), a globally important forage crop. The parthenogenesis-inducing morphogenetic regulator BABY BOOM (BBM) represents a promising candidate for enabling this advancement. Here, we identified BBM homologs from three alfalfa genomes, [...] Read more.
Apomixis-mediated fixation of heterosis could transform hybrid breeding in alfalfa (Medicago sativa), a globally important forage crop. The parthenogenesis-inducing morphogenetic regulator BABY BOOM (BBM) represents a promising candidate for enabling this advancement. Here, we identified BBM homologs from three alfalfa genomes, characterized their promoter regions, and cloned a 2082 bp MsBBM gene encoding a 694-amino acid nuclear-localized protein. Three alfalfa BBM gene promoters primarily contained light- and hormone-responsive elements. Phylogenetic and conserved domain analyses of the MsBBM protein revealed a high sequence similarity with M. truncatula BBM. Expression profiling demonstrated tissue-specific accumulation of MsBBM transcripts, with the highest expression in the roots and developing pods. Hormonal treatments differentially regulated MsBBM. Expression was upregulated by GA3 (except at 4 h) and SA, downregulated by NAA, MeJA (both except at 8 h), and ABA (except at 4 h), while ETH treatment induced a transient expression peak at 2 h. As an AP2/ERF family transcription factor showing preferential expression in young embryos, MsBBM likely participates in reproductive development and may facilitate apomixis. These findings establish a molecular framework for exploiting MsBBM to enhance alfalfa breeding efficiency through heterosis fixation. Full article
(This article belongs to the Section Grassland and Pasture Science)
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27 pages, 7011 KiB  
Review
Conceptus Elongation, Implantation, and Early Placental Development in Species with Central Implantation: Pigs, Sheep, and Cows
by Gregory A. Johnson, Thainá Minela, Heewon Seo, Fuller W. Bazer, Robert C. Burghardt, Guoyao Wu, Ky G. Pohler, Claire Stenhouse, Joe W. Cain, Zachary K. Seekford and Dallas R. Soffa
Biomolecules 2025, 15(7), 1037; https://doi.org/10.3390/biom15071037 - 17 Jul 2025
Viewed by 534
Abstract
Species have different strategies for implantation and placentation. Much can be learned about general molecular and cellular biology through the examination and comparison of these differences. To varying degrees, implantation in all species includes alterations in epithelial polarity, the transformation of the endometrial [...] Read more.
Species have different strategies for implantation and placentation. Much can be learned about general molecular and cellular biology through the examination and comparison of these differences. To varying degrees, implantation in all species includes alterations in epithelial polarity, the transformation of the endometrial stroma, the differentiation of the trophoblast, cell-to-cell and tissue-to-tissue signaling through hormones, cytokines, and extracellular vesicles, and the alteration of the maternal immune system. This review focuses on implantation in pigs, sheep, and cows. These species share with mice/rats and humans/primates the key events of early embryonic development, pregnancy recognition, and the establishment of functional placentation. However, there are differences between the pregnancies of livestock and other species that make livestock unique biomedical models for the study of pregnancy and cell biology in general. Pig, sheep, and cow conceptuses (embryo/fetus and associated placental membranes) elongate prior to implantation, displaying central implantation, extended periods of conceptus attachment to the uterus, and epitheliochorial (pigs) and synepitheliochorial (sheep and cows) placentation. This review will discuss what is understood about how the trophoblast and extraembryonic endoderm of pig, sheep, and cow conceptuses elongate, and how a major goal of current in vitro models is to achieve conceptus elongation. It will then examine the adhesion cascade for conceptus implantation that initiates early placental development in pigs, sheep, and cows. Finally, it will conclude with a brief overview of early placental development in pigs, sheep, and cows, with a listing of some important “omics” studies that have been published. Full article
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16 pages, 2015 KiB  
Article
Somatic Embryogenesis and Genetic Transformation of Caragana intermedia
by Ju Tian, Jialei Zhu, Xiaohan Deng, Xu Zhu, Ruigang Wang and Guojing Li
Plants 2025, 14(10), 1545; https://doi.org/10.3390/plants14101545 - 21 May 2025
Viewed by 516
Abstract
Caragana intermedia is a perennial shrub species in the genus Caragana (Fabaceae), demonstrating remarkable stress resistance and adaptability. However, research on its somatic embryogenesis (SE) and genetic transformation techniques remains limited. In this study, we established an SE system by utilizing immature cotyledons [...] Read more.
Caragana intermedia is a perennial shrub species in the genus Caragana (Fabaceae), demonstrating remarkable stress resistance and adaptability. However, research on its somatic embryogenesis (SE) and genetic transformation techniques remains limited. In this study, we established an SE system by utilizing immature cotyledons isolated from young C. intermedia seeds. Our findings demonstrated that the immature cotyledons at 6–7 weeks after flowering (WAF) were the best explants for SE. The optimal embryo induction medium consisted of an MS basal medium supplemented with 5 mg/L α-naphthaleneacetic acid (NAA), 3 mg/L 6-benzylaminopurine (6-BA), 30 g/L sucrose, 7 g/L agar, and 500 mg/L hydrolyzed casein. Cotyledon-stage embryos germinated on a half-strength MS medium, exhibiting a 34.36% germination rate. Based on the SE system, we developed a preliminary genetic transformation system using the RUBY reporter gene, which successfully generated transgenic calli and cotyledon-stage embryos. The establishment of the SE system is expected to shorten breeding cycles, facilitate propagation of superior cultivars, and support large-scale industrial applications in C. intermedia. Furthermore, the stable transformation system provides a platform for molecular breeding and gene function verification. Full article
(This article belongs to the Section Plant Genetics, Genomics and Biotechnology)
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22 pages, 9589 KiB  
Review
The Complexities of Interspecies Somatic Cell Nuclear Transfer: From Biological and Molecular Insights to Future Perspectives
by Peachanika Pankammoon, Marvin Bryan Segundo Salinas, Chatchote Thitaram and Anucha Sathanawongs
Int. J. Mol. Sci. 2025, 26(7), 3310; https://doi.org/10.3390/ijms26073310 - 2 Apr 2025
Viewed by 2361
Abstract
For nearly three decades, interspecies somatic cell nuclear transfer (iSCNT) has been explored as a potential tool for cloning, regenerative medicine, and wildlife conservation. However, developmental inefficiencies remain a major challenge, largely due to persistent barriers in nucleocytoplasmic transport, mitonuclear communication, and epigenome [...] Read more.
For nearly three decades, interspecies somatic cell nuclear transfer (iSCNT) has been explored as a potential tool for cloning, regenerative medicine, and wildlife conservation. However, developmental inefficiencies remain a major challenge, largely due to persistent barriers in nucleocytoplasmic transport, mitonuclear communication, and epigenome crosstalk. This review synthesized peer-reviewed English articles from PubMed, Web of Science, and Scopus, spanning nearly three decades, using relevant keywords to explore the molecular mechanisms underlying iSCNT inefficiencies and potential improvement strategies. We highlight recent findings deepening the understanding of interspecies barriers in iSCNT, emphasizing their interconnected complexities, including the following: (1) nucleocytoplasmic incompatibility may disrupt nuclear pore complex (NPC) assembly and maturation, impairing the nuclear transport of essential transcription factors (TFs), embryonic genome activation (EGA), and nuclear reprogramming; (2) mitonuclear incompatibility could lead to nuclear and mitochondrial DNA (nDNA-mtDNA) mismatches, affecting electron transport chain (ETC) assembly, oxidative phosphorylation, and energy metabolism; (3) these interrelated incompatibilities can further influence epigenetic regulation, potentially leading to incomplete epigenetic reprogramming in iSCNT embryos. Addressing these challenges requires a multifaceted, species-specific approach that balances multiple incompatibilities rather than isolating a single factor. Gaining insight into the molecular interactions between the donor nucleus and recipient cytoplast, coupled with optimizing strategies tailored to specific pairings, could significantly enhance iSCNT efficiency, ultimately transforming experimental breakthroughs into real-world applications in reproductive biotechnology, regenerative medicine, and species conservation. Full article
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27 pages, 9691 KiB  
Article
Establishment of a Protocol for the Characterization of Secreted Biomolecules in Somatic Embryogenic Cultures of Olea europaea L.
by Rita Pires, Lénia Rodrigues, Fátima Milhano Santos, Iola F. Duarte, Sergio Ciordia, Augusto Peixe and Hélia Cardoso
Horticulturae 2025, 11(3), 331; https://doi.org/10.3390/horticulturae11030331 - 19 Mar 2025
Viewed by 729
Abstract
Somatic embryogenesis (SE) involves the formation of embryo-like structures from somatic cells without fertilization and is widely used for clonal propagation and genetic transformation. However, in olive (Olea europaea sp. europaea), SE remains challenging due to the recalcitrant behavior of adult [...] Read more.
Somatic embryogenesis (SE) involves the formation of embryo-like structures from somatic cells without fertilization and is widely used for clonal propagation and genetic transformation. However, in olive (Olea europaea sp. europaea), SE remains challenging due to the recalcitrant behavior of adult tissues when used as initial explants. Bioactive molecules released into the culture medium (conditioned medium, CM) by embryogenic cultures have been identified as modulators of the SE response. However, their potential role in enhancing SE efficiency in olive and overcoming tissue recalcitrance remains largely unexplored. To investigate the role of these biomolecules in olive SE, a protocol was established using SE cultures of cv. ‘Galega Vulgar’. Proteins and metabolites were separated by filtration, concentrated through lyophilization, and precipitated using three methods: Acetone, TCA/Acetone, and Methanol/Chloroform. The efficiency of these methods was evaluated through total protein quantification and via SDS-PAGE electrophoresis. LC-MS/MS was employed to analyze secretome composition using the TCA/Acetone precipitation method. Additionally, metabolite profiles were analyzed using 1H NMR spectroscopy. The results led to the identification of 1096 (526 protein groups) Olea europaea proteins, including well-known SE biomarkers such as kinases and peroxidases. NMR spectroscopy identified several metabolites secreted into the medium or resulting from the metabolic activity of secreted enzymes, confirming the applicability of the procedure. Although extracting secreted biomolecules from the culture medium presents significant challenges, the protocol established in this study successfully enabled the isolation and identification of both proteins and metabolites, revealing a valuable workflow for future in-depth analyses of secreted biomolecules in olive SE. Full article
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14 pages, 1819 KiB  
Article
Differential Expression of Key Immune Markers in the Intestinal Tract of Developing Chick Embryos
by Shreeya Sharma, Mohammadali Alizadeh, Scott Pratt, Alexis Stamatikos and Khaled Abdelaziz
Vet. Sci. 2025, 12(2), 186; https://doi.org/10.3390/vetsci12020186 - 19 Feb 2025
Viewed by 687
Abstract
Research on the immunological development of lymphoid organs in chicks has been extensive, yet a significant gap exists in our understanding of innate immunity during embryonic life within the intestinal tract. This study investigated the developmental trajectory of intestinal immunity in chick embryos [...] Read more.
Research on the immunological development of lymphoid organs in chicks has been extensive, yet a significant gap exists in our understanding of innate immunity during embryonic life within the intestinal tract. This study investigated the developmental trajectory of intestinal immunity in chick embryos by evaluating basal gene expression levels of key immune markers at embryonic days (ED) 14, 17, and 20. The results indicated variable expression levels of cytokines, antimicrobial peptides (AMPs), and Toll-like receptor (TLRs) genes throughout the intestinal tract. Most cytokines and chemokines exhibited elevated expression in the cecum, while AMPs, including avian-β-defensins (AvBDs) and cathelicidins (CATHs) genes, showed increased levels in the jejunum at ED20. The findings from the developmental trajectory analysis of these genes revealed elevated expression levels of cytokines, including interferon (IFN)-γ, interleukin (IL)-6, IL-13, and transforming-growth factor (TGF)-β in the cecum at ED20. However, no consistent patterns were observed for AvBDs, CATHs, and TLRs, as their expression varied across different developmental stages of the chick embryo. These findings significantly contribute to our understanding of intestinal immune system development in chick embryos and provide a foundation for further research aimed at enhancing immune capabilities, especially in segments with lower expression levels of immunomodulatory genes. Full article
(This article belongs to the Section Veterinary Microbiology, Parasitology and Immunology)
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20 pages, 15436 KiB  
Article
Genome-Wide Identification and Expression Pattern Analysis of Nuclear Factor Y B/C Genes in Pinus koraiensis, and Functional Identification of LEAFY COTYLEDON 1
by Xiuyue Xu, Xin He, Qun Zhang and Ling Yang
Plants 2025, 14(3), 438; https://doi.org/10.3390/plants14030438 - 2 Feb 2025
Viewed by 991
Abstract
The nuclear factor Y (NF-Y) transcription factor is widely involved in various plant biological processes, such as embryogenesis, abscisic acid signaling, and abiotic stress responses. This study presents a comprehensive genome-wide identification and expression profile of transcription factors NF-YB and NF-YC in Pinus [...] Read more.
The nuclear factor Y (NF-Y) transcription factor is widely involved in various plant biological processes, such as embryogenesis, abscisic acid signaling, and abiotic stress responses. This study presents a comprehensive genome-wide identification and expression profile of transcription factors NF-YB and NF-YC in Pinus koraiensis. Eight NF-YB and seven NF-YC transcription factors were identified through bioinformatics analysis, including sequence alignment, phylogenetic tree construction, and conserved motif analysis. We evaluate the expression patterns of NF-YB/C genes in various tissues and somatic embryo maturation processes through the transcriptomics of ABA-treated tissues from multiple nutritional tissues, reproductive tissues, and somatic embryo maturation processes. The Leafy cotyledon1 (LEC1) gene belongs to the LEC1-type gene in the NF-YB family, numbered PkNF-YB7. In this study, we characterized the function of PkLEC1 during somatic embryonic development using genetic transformation techniques. The results indicate that PkNF-YB/C transcription factors are involved in the growth and development of nutritional tissues and reproductive organs, with specific high expression in PkNF-YB7 embryogenic callus, somatic embryos, zygotic embryos, and macropores. Most PkNF YB/C genes do not respond to ABA treatment during the maturation culture process. Compared with the absence of ABA, PkNF-YB8 was up-regulated in ABA treatment for one week (4.1 times) and two weeks (11.6 times). However, PkNF-YC5 was down-regulated in both one week (0.6 times) and two weeks (0.36 times) of culture, but the down-regulation trend was weakened in tissues treated with ABA (0.72–0.83 times). In addition, the promoter of PkNF YB/Cs was rich in elements that respond to various plant hormones, indicating their critical role in hormone pathways. The overexpression of PkLEC1 stimulated the generation of early somatic embryos from callus tissue with no potential for embryogenesis, enhancing the somatic embryogenesis ability of P. koraiensis callus tissue. Full article
(This article belongs to the Special Issue Advances in Forest Tree Genetics and Breeding)
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17 pages, 4096 KiB  
Article
Tending to the Facial Surfaces of a Mathematical Biology Head-Scratcher: Why Does the Head of the Sea Turtle Natator depressus Resemble a Convex Zygomorphic Dodecahedron?
by David A. Becker
Animals 2025, 15(1), 100; https://doi.org/10.3390/ani15010100 - 4 Jan 2025
Viewed by 1512
Abstract
Two convex polyhedra that markedly resemble the head of the flatback sea turtle hatchling are identified. The first example is a zygomorphic tetragonal dodecahedron, while the other, an even better matching structure, is a related tetradecahedron, herein speculated to arise from this particular [...] Read more.
Two convex polyhedra that markedly resemble the head of the flatback sea turtle hatchling are identified. The first example is a zygomorphic tetragonal dodecahedron, while the other, an even better matching structure, is a related tetradecahedron, herein speculated to arise from this particular dodecahedron via known mechanisms gleaned from studies of the behavior of foams. A segmented, biomorphic, convex polyhedral model to address cephalic topology is thus presented stemming from solid geometry, anatomical observations, and a recently computed densest local packing arrangement of fifteen slightly oblate spheroids in which fourteen oblate spheroids surround a central such spheroid. This particular array of oblate spheroids shares salient structural features with the aforementioned dodecahedron. Successful testing of the model has been achieved by converting this array of fifteen oblate spheroids constructed with putty to the cephaloid dodecahedron in a process involving ventral elongation induced by stretching in the anterior direction along the anteroposterior axis (convergent extension). During convergent extension, the two left most anterolateral oblate spheroids that are in direct contact with the ventral spheroid of the array merge into a single lateral facet of the incipient dodecahedron, while the corresponding two right such oblate spheroids do the same. Thus, the fourteen outer oblate spheroids of the array give rise to the twelve facets of the finalized dodecahedron, while the central oblate spheroid remnant assumes an interior dodecahedral position. The hypothetical dodecahedron to tetradecahedron transformation entails the collapse of a tetravalent vertex (which is known to occur in foams as part of a T1 transition) followed by bilateral facet splitting. Remarkably, a model stipulating that convexity is to be retained in connection with this sequence of steps necessitates that the starting dodecahedral template undergoes modification to become a tetradecahedron in possession of precisely the highly ordered feature found at the top of the head of numerous specimens of the flatback sea turtle hatchling, namely, a fused medial pentagon–heptagon pair in the form of a pentagonal frontal scute and heptagonal frontoparietal scute. Such a possible new instance of geometric biomorphy, taken together with the correct anticipation of the cephalic pentagon–heptagon pair, might serve to instill further confidence in renewed efforts to shed light on morphogenesis with foam embryo models. Full article
(This article belongs to the Special Issue Animal Geometric Morphometrics—Concepts, Methods, and Applications)
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17 pages, 7439 KiB  
Article
Somatic Embryogenesis from the Leaf-Derived Calli of In Vitro Shoot-Regenerated Plantlets of Rosa hybrida ‘Carola’
by Mingao Duan, Juan Liu, Yining Zhao, Xiaofei Wang, Longzhen Li, Shiyi Wang, Ruidong Jia, Xin Zhao, Yaping Kou, Kairui Su, Hong Ge and Shuhua Yang
Plants 2024, 13(24), 3553; https://doi.org/10.3390/plants13243553 - 19 Dec 2024
Cited by 1 | Viewed by 1667
Abstract
Roses are one of the most important flowers applied to landscape, cut flowers, fragrance and food industries widely. As an effective method for plant reproduction, the regeneration via somatic embryos is the most promising method for breed improvement and genetic transformation of woody [...] Read more.
Roses are one of the most important flowers applied to landscape, cut flowers, fragrance and food industries widely. As an effective method for plant reproduction, the regeneration via somatic embryos is the most promising method for breed improvement and genetic transformation of woody plants. However, lower somatic embryogenesis (SE) induction rates and genotypic constraints impede progress in genetic transformation in rose. This study describes a plant regeneration system for the famous red cut flower cultivar Rosa hybrida ‘Carola’. The stems without petioles cultured on Murashige and Skoog (MS) medium supplemented with 1.0 mg·L−1 6-benzylaminopurine (6-BA), 0.05 mg·L−1 a-naphthalene acetic acid (NAA) and 30 g·L−1 sucrose showed the maximum proliferation coefficient of shoots with 3.41 for the micropropagation system. We evaluated the effects of different plant growth regulators (PGRs) on the induction, proliferation and conversion of somatic embryos. The induction rate of calli reached 100% on MS medium supplemented with 2.0 g·L−1 NAA and 30 g·L−1 glucose. The highest induction rate of somatic embryos achieved a frequency of 13.33% on MS medium supplemented with 2.0 mg·L−1 zeatin (ZT), 0.1 mg·L−1 NAA and 30 g·L−1 glucose. The most suitable carbohydrate with 60 g·L−1 glucose resulted in a proliferation rate of somatic embryos (4.02) on MS medium containing 1.5 mg·L−1 ZT, 0.2 mg·L−1 NAA and 0.1 mg·L−1 gibberellic acid (GA3). The highest somatic embryos germination rate (43.33%) was obtained from the MS medium supplemented with 1.0 mg·L−1 6-BA, 0.01 mg·L−1 IBA and 30 g·L−1 glucose. Finally, the germinated somatic embryos successfully rooted on 1/2 MS medium containing 1.0 mg·L−1 NAA, 30 g·L−1 sucrose, and the vigorous plantlets were obtained after hardening-off culture. This study provided a stable and efficient protocol for plant regeneration via somatic embryos in R. hybrida ‘Carola’, which will be beneficial to the further theoretical study and genetic improvement in roses. Full article
(This article belongs to the Special Issue Molecular Biology of Ornamental Plants, Volume II)
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18 pages, 20472 KiB  
Article
Genome-Wide Identification and Evolutionary Analysis of Functional BBM-like Genes in Plant Species
by Zhengyuan Hong, Linghong Zhu, Chaolei Liu, Kejian Wang, Yuchun Rao and Hongwei Lu
Genes 2024, 15(12), 1614; https://doi.org/10.3390/genes15121614 - 17 Dec 2024
Cited by 1 | Viewed by 1277
Abstract
Background/Objectives: BABY BOOM (BBM), a transcription factor from the APETALA2 (AP2) protein family, plays a critical role in somatic embryo induction and apomixis. BBM has now been widely applied to induce apomixis or enhance plant transformation and regeneration efficiency through overexpression or [...] Read more.
Background/Objectives: BABY BOOM (BBM), a transcription factor from the APETALA2 (AP2) protein family, plays a critical role in somatic embryo induction and apomixis. BBM has now been widely applied to induce apomixis or enhance plant transformation and regeneration efficiency through overexpression or ectopic expression. However, the structural and functional evolutionary history of BBM genes in plants is still not well understood. Methods: The protein sequences of 10 selected plant species were used to locate the branch of BBM-Like by key domain identification and phylogenetic tree construction. The identified BBML genes were used for further conserved motif identification, gene structural analysis, miRNA binding site prediction, cis-acting element prediction, collinear analysis, protein–protein interaction network construction, three-dimensional structure modeling, molecular docking, and expression pattern analysis. Results: A total of 24 BBML proteins were identified from 10 representative plant species. Phylogenetic relationship analysis displayed that BBML proteins from eudicots and monocots were divided into two clusters, with monocots exhibiting a higher number of BBMLs. Gene duplication events indicated that whole genome/segmental duplication were the primary drivers of BBML genes’ evolution in the tested species, with purifying selection playing a key role during evolution processes. Comparative analysis of motif, domains, and gene structures revealed that most BBMLs were highly evolutionarily conserved. The expression patterns of BBML genes revealed significant tissue specificity, particularly in the root and embryo. We also constructed protein–protein interaction networks and molecular docking models to identify functional pathways and key amino acid residues of BBML proteins. The functions of BBMLs may differ between monocots and eudicots, as suggested by the functional enrichment of interacting proteins. Conclusions: Our research delved into the molecular mechanism, evolutionary relationships, functional differentiation, and expression patterns of BBML genes across plants, laying the groundwork for further investigations into the molecular properties and biological roles of BBMLs. Full article
(This article belongs to the Special Issue Genetics and Genomics of Rice)
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16 pages, 1584 KiB  
Review
Advancements and Challenges in Preimplantation Genetic Testing for Aneuploidies: In the Pathway to Non-Invasive Techniques
by Ana del Arco de la Paz, Carla Giménez-Rodríguez, Aikaterini Selntigia, Marcos Meseguer and Daniela Galliano
Genes 2024, 15(12), 1613; https://doi.org/10.3390/genes15121613 - 17 Dec 2024
Cited by 1 | Viewed by 3035
Abstract
The evolution of preimplantation genetic testing for aneuploidy (PGT-A) techniques has been crucial in assisted reproductive technologies (ARTs), improving embryo selection and increasing success rates in in vitro fertilization (IVF) treatments. Techniques ranging from fluorescence in situ hybridization (FISH) to next-generation sequencing (NGS) [...] Read more.
The evolution of preimplantation genetic testing for aneuploidy (PGT-A) techniques has been crucial in assisted reproductive technologies (ARTs), improving embryo selection and increasing success rates in in vitro fertilization (IVF) treatments. Techniques ranging from fluorescence in situ hybridization (FISH) to next-generation sequencing (NGS) have relied on cellular material extraction through biopsies of blastomeres at the cleavage stage on day three or from trophectoderm (TE) cells of the blastocyst. However, this has raised concerns about its potential impact on embryo development. As a result, there has been growing interest in developing non-invasive techniques for detecting aneuploidies, such as the analysis of blastocoel fluid (BF), spent culture medium (SCM), and artificial intelligence (AI) models. Non-invasive methods represent a promising advancement in PGT-A, offering the ability to detect aneuploidies without compromising embryo viability. This article reviews the evolution and principles of PGT-A, analyzing both traditional techniques and emerging non-invasive approaches, while highlighting the advantages and challenges associated with these methodologies. Furthermore, it explores the transformative potential of these innovations, which could optimize genetic screening and significantly improve clinical outcomes in the field of assisted reproduction. Full article
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12 pages, 4020 KiB  
Article
Transcriptome and miRNA Reveal the Key Factor Regulating the Somatic Embryogenesis of Camellia oleifera
by Qinqin Xing, Kailiang Wang, Henfu Yin, Chaochen Yang and Minyan Wang
Horticulturae 2024, 10(12), 1291; https://doi.org/10.3390/horticulturae10121291 - 4 Dec 2024
Viewed by 1137
Abstract
The key genes involved in plant regeneration play a crucial role in enhancing reproductive capabilities, plant genetic transformation, and gene editing efficiency. Camellia oleifera, a vital woody oil crop, faces challenges in genetic improvement efficiency due to its slow growth and the [...] Read more.
The key genes involved in plant regeneration play a crucial role in enhancing reproductive capabilities, plant genetic transformation, and gene editing efficiency. Camellia oleifera, a vital woody oil crop, faces challenges in genetic improvement efficiency due to its slow growth and the difficulties it experiences during the regeneration process. This study focused on the expression levels of mRNA and miRNA during the somatic embryogenesis of C. oleifera, and the core genes of plant regeneration involved in the C. oleifera somatic embryogenesis process were identified, including WUSCHEL-related homeobox 4 (WOX4), WOX13, and DNA-Binding One Zinc Finger 5.6 (DOF5.6) during the somatic embryo callus induction phase; WOX11, PLETHORA2 (PLT2), and Growth-regulating factor (GRF) during the somatic embryogenesis and bud regeneration phase; and miRNAs such as miR156, miR319, and miR394. These key regulatory factors may participate in the regulation of plant auxin and cytokinin and play a core role in the regeneration process of C. oleifera. The research data elucidate the process of somatic embryogenesis in C. oleifera at the molecular level. The key regulatory genes identified provide potential targets for improving the regeneration efficiency of C. oleifera and other woody oilseed plants. Full article
(This article belongs to the Special Issue Germplasm, Genetics and Breeding of Ornamental Plants)
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16 pages, 1923 KiB  
Article
Optimizing the Genetic Transformation of Coffea arabica Using Agrobacterium tumefaciens
by Diana Molina and Ricardo Acuña
Int. J. Plant Biol. 2024, 15(4), 1250-1265; https://doi.org/10.3390/ijpb15040086 - 27 Nov 2024
Cited by 1 | Viewed by 1628
Abstract
The genetic transformation of Coffea arabica L. is an alternative strategy for obtaining plants with agronomic traits of interest that is less time-consuming than conventional breeding methods. Given the importance of coffee cultivation in Colombia, this study evaluated the main factors interfering with [...] Read more.
The genetic transformation of Coffea arabica L. is an alternative strategy for obtaining plants with agronomic traits of interest that is less time-consuming than conventional breeding methods. Given the importance of coffee cultivation in Colombia, this study evaluated the main factors interfering with the genetic transformation of C. arabica using Agrobacterium tumefaciens. An efficient and reproducible method was accordingly developed that involved propagating “early” embryogenic calli in a liquid proliferation medium supplemented with 3 mg L−1 BAP for eight months, followed by sonication for 300 s in a suspension of LBA4404 OD600 of 0.5, harboring pCambia1301, and then incubation in this same suspension for 1 h. The vector pCambia1301 contained the uidA gene under control of the 35S promoter. A micropipette was used to remove the Agrobacterium suspension from the embryogenic callus. The remaining Agrobacterium suspension was blotted off by placing the embryogenic callus on filter paper. The embryogenic callus was then co-cultured for four days in a solid differentiation medium supplemented with 100 µM acetosyringone on filter paper. Subsequently, the embryogenic callus was post-cultured for four days in liquid differentiation medium under constant shaking at 100 rpm with 300 mg L−1 Cefotaxime, followed by selection with 50 mg L−1 hygromycin at 26 °C in the dark, with subcultures at 20-day intervals until somatic embryos were formed for subsequent culturing in germination medium. Molecular analysis confirmed the presence of the uidA gene in coffee seedlings transformed with strains LBA4404 and EHA105 and vectors pCambia1301 and pCambia2301 by polymerase chain reaction (PCR) analysis. This method successfully enables the stable integration of genes of interest in the coffee plant genome. Full article
(This article belongs to the Section Plant Reproduction)
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