aBIOTECH最新文献_第3页

FUL1 is a key regulator of grain morphology, stem development, and other shoot characteristics in Sorghum bicolor. FUL1是双色高粱籽粒形态、茎发育和其他茎部性状的关键调控因子。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2026-01-16 eCollection Date: 2026-06-01 DOI: 10.1016/j.abiote.2026.100021

Yasmine T D Lam, Karen Massel, Ian D Godwin, Andrew K Borrell

{"title":"FUL1 is a key regulator of grain morphology, stem development, and other shoot characteristics in Sorghum bicolor.","authors":"Yasmine T D Lam, Karen Massel, Ian D Godwin, Andrew K Borrell","doi":"10.1016/j.abiote.2026.100021","DOIUrl":"10.1016/j.abiote.2026.100021","url":null,"abstract":"The AP1/FUL-like family plays key roles in floral development and flowering time in plants, influencing plant architecture and grain yield. However, the functions of AP1/FUL-like family members in sorghum (Sorghum bicolor) have yet to be fully elucidated. In this study, we used CRISPR/Cas9 to characterise SbFUL1 in sorghum through comprehensive phenotypic and molecular analyses. The Sbful1 mutants exhibited significant delays in flowering time. Quantitative phenotypic assays revealed changes in seed morphology and inflorescence architecture, which are consistent with previously reported functions of FUL1 in other plant species. Notably, the mutants displayed novel pleiotropic effects on stem morphology not previously associated with FUL1 genes, including changes in stem structure and integrity. DAP-seq analysis identified potential SbFUL1 binding sites in genes involved in pectin biosynthesis and cell wall remodelling pathways, providing a putative molecular mechanism for the observed phenotypes. These findings confirm the conserved roles of FUL1 in regulating flowering time and floral development sorghum while also revealing broader pleiotropic effects than previously recognised. This study demonstrates the value of holistic phenotypic approaches for gene characterisation and highlights opportunities for crop improvement through harnessing floral regulatory genes with expanded functional roles.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 2","pages":"100021"},"PeriodicalIF":8.5,"publicationDate":"2026-01-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13089154/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147724459","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Selenium nanoparticles and glutathione synergistically enhance salt tolerance in soybean via the jasmonic acid pathway and arbutin-regulated rhizosphere microbiota. 硒纳米颗粒和谷胱甘肽通过茉莉酸途径和熊果苷调节的根际微生物群协同增强大豆的耐盐性。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2026-01-15 eCollection Date: 2026-06-01 DOI: 10.1016/j.abiote.2026.100022

Yanxi Chen, Shuai Zhao, Xuanxuan Ma, Li Ling, Pengxin Du, Xu Liu, Yuhao Yao, Qibin Ma, Yanbo Cheng, Yingxiang Wang, Jian Wei, Hai Nian, Tengxiang Lian

{"title":"Selenium nanoparticles and glutathione synergistically enhance salt tolerance in soybean via the jasmonic acid pathway and arbutin-regulated rhizosphere microbiota.","authors":"Yanxi Chen, Shuai Zhao, Xuanxuan Ma, Li Ling, Pengxin Du, Xu Liu, Yuhao Yao, Qibin Ma, Yanbo Cheng, Yingxiang Wang, Jian Wei, Hai Nian, Tengxiang Lian","doi":"10.1016/j.abiote.2026.100022","DOIUrl":"10.1016/j.abiote.2026.100022","url":null,"abstract":"Soil salinity threatens agriculture worldwide. Nano-fertilizers offer a promising strategy to enhance tolerance to salinity and other stresses in crops, but their field performance is sometimes unpredictable, potentially due to complex interactions within the plant-microbe holobiont. Here, we designed chitosan-stabilized selenium nanoparticles (SeNPs@CS) as a novel nano-fertilizer. SeNPs@CS exhibited a uniform size (∼109.8 nm) and a positively charged surface (+14.7 mV), which confers good adhesion to plant tissues. Due to their good biocompatibility and small size, SeNPs@CS can be readily absorbed and utilized by plant leaves. When SeNPs@CS were combined with glutathione (GSH) to form a nanocomposite (SeG), they significantly promoted plant growth and enhanced salt tolerance in soybean (Glycine max). Multi-omics analyses revealed that SeG activates jasmonic acid (JA) pathways in the plant and remodels the root metabolic profile, leading to the enrichment of arbutin, a key signaling molecule, in the rhizosphere. This metabolic shift recruits and enriches beneficial salt-tolerant microbes, including Bacillus and Streptomyces, thereby establishing a protective microbiome. Treatment of plants with a synthetic microbial community (SynCom) composed of these elite strains, in combination with arbutin, reproduced the salt tolerance phenotype conferred by SeG treatment. Therefore, SeG improves salt tolerance in soybean via activation of the JA defense pathway and arbutin-driven recruitment of salt-tolerant rhizosphere microorganisms. Together, these two mechanisms enhance plant resilience under salt stress. This multi-kingdom synergistic mechanism for alleviating stress provides a new paradigm for developing smart agricultural inputs that target the plant holobiont to improve crop resilience.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 2","pages":"100022"},"PeriodicalIF":8.5,"publicationDate":"2026-01-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973407/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624852","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

RNA modifications and epigenetic regulation in plants. 植物的RNA修饰和表观遗传调控。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2026-01-12 eCollection Date: 2026-06-01 DOI: 10.1016/j.abiote.2026.100020

Xinran Zhang, Jiangbo Wei

引用次数: 0

The evolution of gene expression in allopolyploid cotton relative to parental diploids and induced haploids. 异源多倍体棉花相对于亲本二倍体和诱导单倍体基因表达的进化。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-30 eCollection Date: 2026-06-01 DOI: 10.1016/j.abiote.2025.100019

Haotian Luo, Yan Li, Xianpeng Xiong, Sicheng Gu, Xiongfeng Ma, Yongshan Zhang, Guanjing Hu

{"title":"The evolution of gene expression in allopolyploid cotton relative to parental diploids and induced haploids.","authors":"Haotian Luo, Yan Li, Xianpeng Xiong, Sicheng Gu, Xiongfeng Ma, Yongshan Zhang, Guanjing Hu","doi":"10.1016/j.abiote.2025.100019","DOIUrl":"10.1016/j.abiote.2025.100019","url":null,"abstract":"Allopolyploidization, a process involving interspecific hybridization and whole-genome duplication, has both immediate and long-term evolutionary effects on plants. However, the immediate impact of genome doubling in cotton (Gossypium spp.) remains understudied due to the lack of resynthesized allopolyploids. In this study, we used haploid lines from the allotetraploid species Gossypium hirsutum (AD1) and G. barbadense (AD2) to evaluate the effects of immediate changes in ploidy. We compared the transcriptomes of diploid cotton species G. arboreum (A2), G. raimondii (D5), their F1 hybrid (A2 × D5), natural allotetraploids (AD1 and AD2), and their derived haploids (hAD1 via the GhDMP knockout system and hAD2 via semigamy). We determined that haploidization has a minor effect on changes in gene expression compared to hybridization and allopolyploidization, highlighting the large effect of species-specific long-term evolution. Specifically, ploidy changes in AD1 were linked to chromosome separation and nucleosome dynamics. Moreover, haploidization appeared to obscure homologous expression divergence due to changes in the trans environment, leading to a decreased amount of homoeolog expression bias (HEB). While significant associations were detected between nonadditive patterns of total homoeolog expression, HEB, and cis-trans regulatory categories, no apparent differences in these association patterns were observed among the F1 hybrid, tetraploids, and haploids. These findings provide a more detailed view of the transcriptomic consequences of allopolyploidization in cotton, offering insight into the temporal dynamics of gene expression evolution and the underlying regulatory mechanisms.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 2","pages":"100019"},"PeriodicalIF":8.5,"publicationDate":"2025-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973400/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624767","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Deep learning-driven protein binder design for crop improvement. 用于作物改良的深度学习驱动的蛋白质粘合剂设计。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-13 eCollection Date: 2026-03-01 DOI: 10.1016/j.abiote.2025.100018

Muhammad Salman Iqbal, Revocatus Bahitwa, Abdul Ali Azam, Hui Xu, Hai Wang

{"title":"Deep learning-driven protein binder design for crop improvement.","authors":"Muhammad Salman Iqbal, Revocatus Bahitwa, Abdul Ali Azam, Hui Xu, Hai Wang","doi":"10.1016/j.abiote.2025.100018","DOIUrl":"10.1016/j.abiote.2025.100018","url":null,"abstract":"Deep learning (DL) now enables the end-to-end design of protein binders-proteins that bind to specific targets-to precisely modulate protein-protein interactions (PPIs). Models and tools such as BindCraft, AlphaFold, RoseTTAFold, RFdiffusion, and ProteinMPNN predict the structures of these binders and their targets, generate binder sequences, and refine their binding interfaces with increasing accuracy. Most progress so far has been in the therapeutics field, where de novo protein binders are now common targets for design and testing. In plant biology, however, applications remain early and scattered, and clear, crop-focused guidance that links design choices to practical testing is limited. This review explores the potential of protein binders by outlining an end-to-end pipeline for DL-driven protein binder design in plants. The pipeline covers target selection in key pathways for disease resistance, stress tolerance, and plant development; protein binder generation using current DL tools; and tiered in silico screening of the best binders using interface quality and stability metrics. We connect these steps to laboratory practice, including initial binding assays, production in suitable systems, and early in planta evaluation before stable transformation. Current constraints are also discussed, including uncertainty in affinity prediction and the limited structural information available for many plant proteins, as well as practical approaches to mitigate risk during target selection. Together, this plant-focused synthesis illustrates how DL-driven protein binder design can be applied to crop engineering and highlights the work still required to move from early demonstrations of success cases to robust agricultural use.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100018"},"PeriodicalIF":8.5,"publicationDate":"2025-12-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973395/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624731","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Improved efficiency of genetic transformation for the development of elite germplasm using CRISPR/Cas12i3 in maize. 利用CRISPR/Cas12i3提高玉米优质种质的遗传转化效率

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-12 eCollection Date: 2026-03-01 DOI: 10.1016/j.abiote.2025.100017

Yao Wang, Lu Zhang, Mengyuan Liu, Miaoyi Zhou, Xinxiang Liu, Ziheng Song, Xiaoxu Li, Yue Fu, Hao Chen, Ya Liu, Ronghuan Wang, Jiuran Zhao

{"title":"Improved efficiency of genetic transformation for the development of elite germplasm using CRISPR/Cas12i3 in maize.","authors":"Yao Wang, Lu Zhang, Mengyuan Liu, Miaoyi Zhou, Xinxiang Liu, Ziheng Song, Xiaoxu Li, Yue Fu, Hao Chen, Ya Liu, Ronghuan Wang, Jiuran Zhao","doi":"10.1016/j.abiote.2025.100017","DOIUrl":"10.1016/j.abiote.2025.100017","url":null,"abstract":"Genetic transformation and gene-editing technologies have driven progress in molecular design breeding. Jing 724, an elite founder inbred line from the X heterotic group in maize, was previously recalcitrant to genetic transformation owing to genotype-dependent restrictions. Here, we established a stable and efficient genetic transformation system for Jing 724 using the morphogenic genes Baby boom (Bbm) and Wuschel (Wus2) and the selection marker 6-phosphomannose isomerase (PMI). Under identical Bbm/Wus2-regulation conditions, the efficiencies of callus induction, regeneration, and transformation were significantly higher (30 %) with PMI (mannose) selection than with bar (bialaphos) selection. By optimizing callus induction and regeneration time, we reduced the transformation period for Jing 724 from 90 days to 60 days and increased the transformation efficiency by 20 %. We then combined this transformation system with the clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated nuclease 12i3 (Cas12i3) system to edit the Sugary1 (Su1) and Waxy (Wx) genes, thereby developing elite germplasms with common sweet, waxy, and combined sweet-waxy traits in the Jing 724 background. We obtained mutation efficiencies of 29.41 % (homozygous), 41.18 % (heterozygous), and 35.29 % (simultaneous). Additionally, concentrations of sucrose, water-soluble polysaccharides, and starch in the endosperms of T1 homozygous kernels were confirmed to differ significantly from those in wild-type kernels. Thus, we have established a highly efficient molecular breeding system that integrates genetic transformation, gene editing, and germplasm development.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100017"},"PeriodicalIF":8.5,"publicationDate":"2025-12-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973389/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624709","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Double-fluorescent proteins enable robust maternal haploid identification in wheat. 双荧光蛋白使小麦母系单倍体的识别更加可靠。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-11 eCollection Date: 2026-03-01 DOI: 10.1016/j.abiote.2025.100016

Yang Li, Le Dong, Shaoshuai Liu, Guoliang Sun, Zhongyin Deng, Yuqing Che, Dada Cui, Guoliang Chen, Xinyu Zou, Wanxin Xu, Xingchen Kong, Jianhui Ma, Long Mao, Aili Li, Chuanxiao Xie, Shuaifeng Geng

{"title":"Double-fluorescent proteins enable robust maternal haploid identification in wheat.","authors":"Yang Li, Le Dong, Shaoshuai Liu, Guoliang Sun, Zhongyin Deng, Yuqing Che, Dada Cui, Guoliang Chen, Xinyu Zou, Wanxin Xu, Xingchen Kong, Jianhui Ma, Long Mao, Aili Li, Chuanxiao Xie, Shuaifeng Geng","doi":"10.1016/j.abiote.2025.100016","DOIUrl":"10.1016/j.abiote.2025.100016","url":null,"abstract":"Doubled haploid (DH) technology is crucial for accelerating crop breeding. While the functional conservation of MATRILINEAL (MTL) in cereals enables haploid induction (HI) in wheat (Triticum aestivum), distinguishing haploid from diploid seeds remains a major bottleneck. Here, we developed an efficient haploid identification (HID) system for wheat by seamlessly integrating a two-fluorescent protein-based HID toolbox with an MTL mutant HI wheat line. This system enables efficient HI and utilizes dual-fluorescence screening, offering high accuracy while being independent of the genetic background of the recipient material. Our work demonstrates that engineered intraspecific HI is achievable in self-pollinating crops such as wheat, paving the way for applications that shorten the breeding cycle, facilitate quantitative genetic studies, and accelerate the fixation of desirable alleles. With further optimization and development, this system holds promise as a commercially viable pipeline for haploid production to facilitate wheat breeding.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100016"},"PeriodicalIF":8.5,"publicationDate":"2025-12-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973401/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624726","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The root's hidden ally: How the rhizosheath microbiome fortifies crops against drought. 根的隐藏盟友：根鞘微生物群如何加强作物抵御干旱。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-07 eCollection Date: 2026-03-01 DOI: 10.1016/j.abiote.2025.100015

Hassan Etesami, Amir Hosein Yadegari, Umarov Otabek, Bafayeva Zahro, Nafetdinov Shavakatullo, Avezov Tolqinjon

{"title":"The root's hidden ally: How the rhizosheath microbiome fortifies crops against drought.","authors":"Hassan Etesami, Amir Hosein Yadegari, Umarov Otabek, Bafayeva Zahro, Nafetdinov Shavakatullo, Avezov Tolqinjon","doi":"10.1016/j.abiote.2025.100015","DOIUrl":"10.1016/j.abiote.2025.100015","url":null,"abstract":"Drought stress poses a significant threat to global agriculture, necessitating innovative strategies to enhance plant resilience. This review highlights the rhizosheath-the soil layer tightly bound to roots by mucilage and microbial biofilms-as a critical but underexplored microbial niche for sustainable drought mitigation. Unlike the vulnerable rhizosphere, the rhizosheath has a cohesive structure that acts as a protective \"mini-oasis,\" preserving moisture and sustaining microbial activity when water is scarce. We synthesize evidence showing that resident rhizosheath bacteria, including genera such as Bacillus, Pseudomonas, and Azospirillum, enhance plant drought tolerance through multiple mechanisms: improving soil structure and water retention, modulating phytohormone levels, facilitating nutrient acquisition, and activating antioxidant and genetic defense pathways in the plant. Despite promising laboratory findings, there has been little field-scale validation of these effects. Here, we critically assess translational challenges and outline future research priorities, such as understanding plant-microbe specificity and optimizing synthetic microbial consortia. Addressing these questions will enable manipulation of the rhizosheath microbiome for development of climate-resilient crops and securing food production in water-limited environments.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100015"},"PeriodicalIF":8.5,"publicationDate":"2025-12-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973410/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624745","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Artificial intelligence-driven discovery of bioactive peptides: Computational approaches and future perspectives. 人工智能驱动的生物活性肽发现：计算方法和未来展望。

IF 8.5 4区农林科学

aBIOTECH Pub Date : 2025-12-03 eCollection Date: 2026-03-01 DOI: 10.1016/j.abiote.2025.100014

Xu Liu, Feifei Guan, Huiying Luo, Bin Yao, Jian Tian

{"title":"Artificial intelligence-driven discovery of bioactive peptides: Computational approaches and future perspectives.","authors":"Xu Liu, Feifei Guan, Huiying Luo, Bin Yao, Jian Tian","doi":"10.1016/j.abiote.2025.100014","DOIUrl":"10.1016/j.abiote.2025.100014","url":null,"abstract":"Bioactive peptides, defined as amino acid chains exhibiting diverse biological functions such as antimicrobial, antioxidant, and anti-inflammatory activities, are primarily generated through protein digestion methods including enzymatic hydrolysis, physical processing techniques and controlled microbial fermentation. Conventional discovery techniques that rely on multi-stage separation processes, such as enzymatic digestion, ultrafiltration, ion-exchange chromatography, gel filtration chromatography, and reverse-phase high-performance liquid chromatography (RP-HPLC) inherently demand substantial laboratory resources and extended timeframes. To address these limitations, artificial intelligence (AI)-driven approaches have emerged as transformative discovery platforms. These computational pipelines systematically execute six critical phases: comprehensive data acquisition and curation, advanced feature engineering utilizing physicochemical descriptors, machine learning model construction using algorithms, iterative model training incorporating hyperparameter optimization, rigorous validation against benchmark datasets, and high-throughput bioactive peptide prediction. This comprehensive review critically evaluates recent AI applications across four key bioactive peptide categories including antimicrobial peptides, antioxidant peptides, anti-inflammatory peptides, and multifunctional variants. Furthermore, it proposes integrated enhancement strategies such as classifying peptides via their functional mechanism or using database-independent modeling approaches. Additionally, based on AI methods, scenario-specific peptide customization and prediction of bioactivity in digested proteomes are anticipated to be achieved in the future.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100014"},"PeriodicalIF":8.5,"publicationDate":"2025-12-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12973402/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147624717","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Deciphering the dynamics of active autonomous terminal inverted repeat transposons in the plant kingdom 解析植物界主动自主末端倒置重复转座子的动力学

4区农林科学

aBIOTECH Pub Date : 2025-12-02 DOI: 10.1016/j.abiote.2025.100009

Ziye Huang, Bicong Shi, Li Huang, Damon Lisch, Xinyan Zhang

{"title":"Deciphering the dynamics of active autonomous terminal inverted repeat transposons in the plant kingdom","authors":"Ziye Huang, Bicong Shi, Li Huang, Damon Lisch, Xinyan Zhang","doi":"10.1016/j.abiote.2025.100009","DOIUrl":"https://doi.org/10.1016/j.abiote.2025.100009","url":null,"abstract":"Terminal inverted repeat (TIR) transposons are powerful drivers of genome evolution. However, a comprehensive understanding of their recent, lineage-specific activity across the plant kingdom has remained elusive. In this study, we developed a data-distillation pipeline to systematically identify recently active autonomous TIR transposons in 1007 plant genomes. Our analysis identified 3203 active clusters. The vast majority (93.3 %) of these clusters are maintained at low copy numbers, which suggests that robust host-mediated regulation restricts excessive proliferation. These TIR transposons exhibit striking heterogeneity and predominantly lineage-restricted diversification, with functional extinction being a common fate of TIR transposons across the plant kingdom. Among the identified active clusters, the Mutator-like element ( MULE ) superfamily was the most prevalent, accounting for 57.6 % of all TIR clusters. Furthermore, we uncovered extensive, previously uncharacterized intraspecific diversity through a genome analysis of four crop species, suggesting that single reference genomes substantially underestimate transposon dynamics. When we examined the molecular innovations that enable transposon success, we observed that MULE -encoded transposases possessed hypervariable termini that interact with accessory proteins. Using the hyperactive maize ( Zea mays ) MuDR element as a model, we obtained direct in vivo and in vitro evidence of an interaction between the transposase MURA and the accessory protein MURB, mapping the critical binding site to the N terminus of MURA. This atlas offers critical insights into transposon–host coevolution and provides a rich, species-specific toolkit for plant biotechnology.","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"7 1","pages":"100009-100009"},"PeriodicalIF":0.0,"publicationDate":"2025-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147330337","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0