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Revolutionizing Antibody Discovery: An Innovative AI Model for Generating Robust Libraries. 革命性的抗体发现:一种用于生成鲁棒库的创新AI模型。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-06-22 DOI: 10.1016/j.gpb.2023.06.001
Yaojun Wang, Shiwei Sun
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引用次数: 0
Omics Views of Mechanisms for Cell Fate Determination in Early Mammalian Development. Omics 对哺乳动物早期发育中细胞命运决定机制的看法。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-04-17 DOI: 10.1016/j.gpb.2023.03.001
Lin-Fang Ju, Heng-Ji Xu, Yun-Gui Yang, Ying Yang

During mammalian preimplantation development, a totipotent zygote undergoes several cell cleavages and two rounds of cell fate determination, ultimately forming a mature blastocyst. Along with compaction, the establishment of apicobasal cell polarity breaks the symmetry of an embryo and guides subsequent cell fate choice. Although the lineage segregation of the inner cell mass (ICM) and trophectoderm (TE) is the first symbol of cell differentiation, several molecules have been shown to bias the early cell fate through their inter-cellular variations at much earlier stages, including the 2- and 4-cell stages. The underlying mechanisms of early cell fate determination have long been an important research topic. In this review, we summarize the molecular events that occur during early embryogenesis, as well as the current understanding of their regulatory roles in cell fate decisions. Moreover, as powerful tools for early embryogenesis research, single-cell omics techniques have been applied to both mouse and human preimplantation embryos and have contributed to the discovery of cell fate regulators. Here, we summarize their applications in the research of preimplantation embryos, and provide new insights and perspectives on cell fate regulation.

在哺乳动物胚胎植入前的发育过程中,一个全能的合子要经历数次细胞裂解和两轮细胞命运决定,最终形成一个成熟的囊胚。在压实的同时,顶基底细胞极性的建立打破了胚胎的对称性,并指导后续的细胞命运选择。虽然内细胞团(ICM)和滋养外胚层(TE)的细胞系分离是细胞分化的第一个标志,但在更早的阶段,包括 2 细胞和 4 细胞阶段,有几种分子已被证明能通过其细胞间的变化偏向早期细胞命运。长期以来,早期细胞命运决定的内在机制一直是一个重要的研究课题。在这篇综述中,我们总结了早期胚胎发生过程中发生的分子事件,以及目前对它们在细胞命运决定中的调控作用的理解。此外,作为早期胚胎发生研究的有力工具,单细胞全息技术已被应用于小鼠和人类植入前胚胎,并为发现细胞命运调控因子做出了贡献。在此,我们总结了这些技术在植入前胚胎研究中的应用,并为细胞命运调控提供了新的见解和视角。
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引用次数: 0
MicroRNA-disease Network Analysis Repurposes Methotrexate for the Treatment of Abdominal Aortic Aneurysm in Mice. 微RNA-疾病网络分析将甲氨蝶呤重新用于治疗小鼠腹主动脉瘤
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2022-08-24 DOI: 10.1016/j.gpb.2022.08.002
Yicong Shen, Yuanxu Gao, Jiangcheng Shi, Zhou Huang, Rongbo Dai, Yi Fu, Yuan Zhou, Wei Kong, Qinghua Cui

Abdominal aortic aneurysm (AAA) is a permanent dilatation of the abdominal aorta and is highly lethal. The main purpose of the current study is to search for noninvasive medical therapies for AAA, for which there is currently no effective drug therapy. Network medicine represents a cutting-edge technology, as analysis and modeling of disease networks can provide critical clues regarding the etiology of specific diseases and therapeutics that may be effective. Here, we proposed a novel algorithm to quantify disease relations based on a large accumulated microRNA-disease association dataset and then built a disease network covering 15 disease classes and 304 diseases. Analysis revealed some patterns for these diseases. For instance, diseases tended to be clustered and coherent in the network. Surprisingly, we found that AAA showed the strongest similarity with rheumatoid arthritis and systemic lupus erythematosus, both of which are autoimmune diseases, suggesting that AAA could be one type of autoimmune diseases in etiology. Based on this observation, we further hypothesized that drugs for autoimmune diseases could be repurposed for the prevention and therapy of AAA. Finally, animal experiments confirmed that methotrexate, a drug for autoimmune diseases, was able to alleviate the formation and development of AAA.

腹主动脉瘤(AAA)是腹主动脉的永久性扩张,致死率极高。目前这项研究的主要目的是寻找治疗 AAA 的非侵入性医疗方法,因为目前还没有有效的药物疗法。网络医学是一项前沿技术,因为对疾病网络的分析和建模可以为特定疾病的病因学以及哪些疗法可能有效提供重要线索。在这里,我们提出了一种基于大量累积的 microRNA-疾病关联数据集的量化疾病关系的新型算法,然后构建了一个涵盖 15 种疾病类别和 304 种疾病的疾病网络。分析揭示了这些疾病的一些模式。例如,疾病在网络中趋于集群和一致。令人惊讶的是,我们发现 AAA 与类风湿性关节炎和系统性红斑狼疮的相似性最强,而这两种疾病都是自身免疫性疾病,这表明 AAA 在病因学上可能是自身免疫性疾病的一种。基于这一观察结果,我们进一步假设,治疗自身免疫性疾病的药物可以重新用于预防和治疗 AAA。最后,动物实验证实,治疗自身免疫性疾病的药物甲氨蝶呤能够缓解 AAA 的形成和发展。
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引用次数: 0
Patient Assessment and Therapy Planning Based on Homologous Recombination Repair Deficiency. 基于同源重组修复缺陷的患者评估和治疗计划
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-02-14 DOI: 10.1016/j.gpb.2023.02.004
Wenbin Li, Lin Gao, Xin Yi, Shuangfeng Shi, Jie Huang, Leming Shi, Xiaoyan Zhou, Lingying Wu, Jianming Ying

Defects in genes involved in the DNA damage response cause homologous recombination repair deficiency (HRD). HRD is found in a subgroup of cancer patients for several tumor types, and it has a clinical relevance to cancer prevention and therapies. Accumulating evidence has identified HRD as a biomarker for assessing the therapeutic response of tumor cells to poly(ADP-ribose) polymerase inhibitors and platinum-based chemotherapies. Nevertheless, the biology of HRD is complex, and its applications and the benefits of different HRD biomarker assays are controversial. This is primarily due to inconsistencies in HRD assessments and definitions (gene-level tests, genomic scars, mutational signatures, or a combination of these methods) and difficulties in assessing the contribution of each genomic event. Therefore, we aim to review the biological rationale and clinical evidence of HRD as a biomarker. This review provides a blueprint for the standardization and harmonization of HRD assessments.

参与 DNA 损伤反应的基因缺陷会导致同源重组修复缺陷(HRD)。HRD在多种肿瘤类型的癌症患者中都有发现,在癌症预防和治疗中具有临床意义。越来越多的证据表明,HRD 是评估肿瘤细胞对聚(ADP 核糖)聚合酶抑制剂和铂类化疗药物治疗反应的生物标志物。然而,HRD 的生物学特性十分复杂,其应用和不同 HRD 生物标志物检测方法的益处也存在争议。这主要是由于 HRD 评估和定义(基因水平测试、基因组疤痕、突变特征或这些方法的组合)不一致,以及难以评估每个基因组事件的贡献。因此,我们旨在回顾将 HRD 作为生物标记物的生物学原理和临床证据。这篇综述为 HRD 评估的标准化和统一化提供了一个蓝图。
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引用次数: 0
AB-Gen: Antibody Library Design with Generative Pre-trained Transformer and Deep Reinforcement Learning. AB-Gen:利用生成式预训练变换器和深度强化学习设计抗体库。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-06-24 DOI: 10.1016/j.gpb.2023.03.004
Xiaopeng Xu, Tiantian Xu, Juexiao Zhou, Xingyu Liao, Ruochi Zhang, Yu Wang, Lu Zhang, Xin Gao

Antibody leads must fulfill multiple desirable properties to be clinical candidates. Primarily due to the low throughput in the experimental procedure, the need for such multi-property optimization causes the bottleneck in preclinical antibody discovery and development, because addressing one issue usually causes another. We developed a reinforcement learning (RL) method, named AB-Gen, for antibody library design using a generative pre-trained transformer (GPT) as the policy network of the RL agent. We showed that this model can learn the antibody space of heavy chain complementarity determining region 3 (CDRH3) and generate sequences with similar property distributions. Besides, when using human epidermal growth factor receptor-2 (HER2) as the target, the agent model of AB-Gen was able to generate novel CDRH3 sequences that fulfill multi-property constraints. Totally, 509 generated sequences were able to pass all property filters, and three highly conserved residues were identified. The importance of these residues was further demonstrated by molecular dynamics simulations, consolidating that the agent model was capable of grasping important information in this complex optimization task. Overall, the AB-Gen method is able to design novel antibody sequences with an improved success rate than the traditional propose-then-filter approach. It has the potential to be used in practical antibody design, thus empowering the antibody discovery and development process. The source code of AB-Gen is freely available at Zenodo (https://doi.org/10.5281/zenodo.7657016) and BioCode (https://ngdc.cncb.ac.cn/biocode/tools/BT007341).

抗体先导物必须满足多种理想特性才能成为临床候选物。主要由于实验过程的吞吐量较低,这种多属性优化的需求造成了临床前抗体发现和开发的瓶颈,因为解决一个问题通常会引发另一个问题。我们开发了一种用于抗体库设计的强化学习(RL)方法,命名为 AB-Gen,使用生成式预训练变换器(GPT)作为 RL 代理的策略网络。我们的研究表明,该模型可以学习重链互补决定区 3(CDRH3)的抗体空间,并生成具有相似性质分布的序列。此外,当使用人表皮生长因子受体-2(HER2)作为靶点时,AB-Gen 的代理模型能够生成满足多属性约束的新型 CDRH3 序列。总共有 509 个生成的序列能够通过所有属性筛选,并确定了三个高度保守的残基。分子动力学模拟进一步证明了这些残基的重要性,从而巩固了代理模型能够在这项复杂的优化任务中掌握重要信息。总之,与传统的 "提出-然后过滤 "方法相比,AB-Gen 方法能够提高设计新型抗体序列的成功率。它有望用于实际的抗体设计,从而促进抗体的发现和开发过程。AB-Gen 的源代码可在 Zenodo (https://doi.org/10.5281/zenodo.7657016) 和 BioCode (https://ngdc.cncb.ac.cn/biocode/tools/BT007341) 免费获取。
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引用次数: 0
Protein Structure Prediction: Challenges, Advances, and the Shift of Research Paradigms. 蛋白质结构预测:挑战、进展和研究范式的转变。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-03-30 DOI: 10.1016/j.gpb.2022.11.014
Bin Huang, Lupeng Kong, Chao Wang, Fusong Ju, Qi Zhang, Jianwei Zhu, Tiansu Gong, Haicang Zhang, Chungong Yu, Wei-Mou Zheng, Dongbo Bu

Protein structure prediction is an interdisciplinary research topic that has attracted researchers from multiple fields, including biochemistry, medicine, physics, mathematics, and computer science. These researchers adopt various research paradigms to attack the same structure prediction problem: biochemists and physicists attempt to reveal the principles governing protein folding; mathematicians, especially statisticians, usually start from assuming a probability distribution of protein structures given a target sequence and then find the most likely structure, while computer scientists formulate protein structure prediction as an optimization problem - finding the structural conformation with the lowest energy or minimizing the difference between predicted structure and native structure. These research paradigms fall into the two statistical modeling cultures proposed by Leo Breiman, namely, data modeling and algorithmic modeling. Recently, we have also witnessed the great success of deep learning in protein structure prediction. In this review, we present a survey of the efforts for protein structure prediction. We compare the research paradigms adopted by researchers from different fields, with an emphasis on the shift of research paradigms in the era of deep learning. In short, the algorithmic modeling techniques, especially deep neural networks, have considerably improved the accuracy of protein structure prediction; however, theories interpreting the neural networks and knowledge on protein folding are still highly desired.

蛋白质结构预测是一个跨学科研究课题,吸引了来自生物化学、医学、物理学、数学和计算机科学等多个领域的研究人员。这些研究人员采用不同的研究范式来解决相同的结构预测问题:生物化学家和物理学家试图揭示蛋白质折叠的原理;数学家,尤其是统计学家,通常从假设目标序列中蛋白质结构的概率分布出发,然后找出最可能的结构;而计算机科学家则将蛋白质结构预测表述为一个优化问题--寻找能量最低的结构构象,或将预测结构与原生结构之间的差异最小化。这些研究范式属于 L. Breiman 提出的两种统计建模文化,即数据建模和算法建模。最近,我们也见证了深度学习在蛋白质结构预测方面的巨大成功。在这篇综述中,我们对蛋白质结构预测方面的工作进行了调查。我们比较了不同领域研究人员所采用的研究范式,重点关注深度学习时代研究范式的转变。总之,算法建模技术,尤其是深度神经网络,大大提高了蛋白质结构预测的准确性;然而,解释神经网络的理论和蛋白质折叠方面的知识仍是亟待解决的问题。
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引用次数: 0
Database Commons: A Catalog of Worldwide Biological Databases. 共享数据库:全球生物数据库目录。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2022-12-23 DOI: 10.1016/j.gpb.2022.12.004
Lina Ma, Dong Zou, Lin Liu, Huma Shireen, Amir A Abbasi, Alex Bateman, Jingfa Xiao, Wenming Zhao, Yiming Bao, Zhang Zhang

Biological databases serve as a global fundamental infrastructure for the worldwide scientific community, which dramatically aid the transformation of big data into knowledge discovery and drive significant innovations in a wide range of research fields. Given the rapid data production, biological databases continue to increase in size and importance. To build a catalog of worldwide biological databases, we curate a total of 5825 biological databases from 8931 publications, which are geographically distributed in 72 countries/regions and developed by 1975 institutions (as of September 20, 2022). We further devise a z-index, a novel index to characterize the scientific impact of a database, and rank all these biological databases as well as their hosting institutions and countries in terms of citation and z-index. Consequently, we present a series of statistics and trends of worldwide biological databases, yielding a global perspective to better understand their status and impact for life and health sciences. An up-to-date catalog of worldwide biological databases, as well as their curated meta-information and derived statistics, is publicly available at Database Commons (https://ngdc.cncb.ac.cn/databasecommons/).

生物数据库是全球科学界的全球性基础架构,它极大地帮助了将大数据转化为知识发现,并推动了众多研究领域的重大创新。随着数据生产的迅速发展,生物数据库的规模和重要性也在不断增加。因此,为了建立全球生物数据库目录,我们从 8931 篇出版物中整理出共计 5825 个生物数据库,这些数据库分布在 72 个国家/地区,由 1975 个机构开发(截至 2022 年 9 月 20 日)。我们还进一步设计了一个 z 指数(一种表征数据库科学影响力的新指数),并根据引文和 z 指数对所有这些生物数据库及其主办机构和国家进行了排名。因此,我们提供了全球生物数据库的一系列统计数据和趋势,从全球视角更好地了解它们在生命科学和健康科学领域的地位和影响。全球生物数据库的最新目录及其经过编辑的元信息和衍生统计数据可在 Database Commons(https://ngdc.cncb.ac.cn/databasecommons/)上公开获取。
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引用次数: 0
Differential Transcriptomic Landscapes of SARS-CoV-2 Variants in Multiple Organs from Infected Rhesus Macaques. 受感染猕猴多个器官中 SARS-CoV-2 变异体的转录组差异景观
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-10-01 Epub Date: 2023-07-13 DOI: 10.1016/j.gpb.2023.06.002
Tingfu Du, Chunchun Gao, Shuaiyao Lu, Qianlan Liu, Yun Yang, Wenhai Yu, Wenjie Li, Yong Qiao Sun, Cong Tang, Junbin Wang, Jiahong Gao, Yong Zhang, Fangyu Luo, Ying Yang, Yun-Gui Yang, Xiaozhong Peng

Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) caused the persistent coronavirus disease 2019 (COVID-19) pandemic, which has resulted in millions of deaths worldwide and brought an enormous public health and global economic burden. The recurring global wave of infections has been exacerbated by growing variants of SARS-CoV-2. In this study, the virological characteristics of the original SARS-CoV-2 strain and its variants of concern (VOCs; including Alpha, Beta, and Delta) in vitro, as well as differential transcriptomic landscapes in multiple organs (lung, right ventricle, blood, cerebral cortex, and cerebellum) from the infected rhesus macaques, were elucidated. The original strain of SARS-CoV-2 caused a stronger innate immune response in host cells, and its VOCs markedly increased the levels of subgenomic RNAs, such as N, Orf9b, Orf6, and Orf7ab, which are known as the innate immune antagonists and the inhibitors of antiviral factors. Intriguingly, the original SARS-CoV-2 strain and Alpha variant induced larger alteration of RNA abundance in tissues of rhesus monkeys than Beta and Delta variants did. Moreover, a hyperinflammatory state and active immune response were shown in the right ventricles of rhesus monkeys by the up-regulation of inflammation- and immune-related RNAs. Furthermore, peripheral blood may mediate signaling transmission among tissues to coordinate the molecular changes in the infected individuals. Collectively, these data provide insights into the pathogenesis of COVID-19 at the early stage of infection by the original SARS-CoV-2 strain and its VOCs.

严重急性呼吸系统综合征冠状病毒 2(SARS-CoV-2)导致了 2019 年冠状病毒病(COVID-19)的持续大流行,造成全球数百万人死亡,并带来了巨大的公共卫生和全球经济负担。SARS-CoV-2的变种不断增多,加剧了全球反复出现的感染浪潮。本研究阐明了 SARS-CoV-2 原始株及其相关变异株(VOCs,包括 Alpha、Beta 和 Delta)在体外的病毒学特征,以及受感染猕猴多个器官(肺、右心室、血液、大脑皮层和小脑)的不同转录组景观。SARS-CoV-2 原始毒株会引起宿主细胞更强的先天性免疫反应,其 VOCs 会显著增加亚基因组 RNA 的水平,如 N、Orf9b、Orf6 和 Orf7ab,这些 RNA 被称为先天性免疫拮抗剂和抗病毒因子抑制剂。有趣的是,SARS-CoV-2 原始菌株和 Alpha 菌株在恒河猴组织中诱导的 RNA 丰度变化比 Beta 和 Delta 变体更大。此外,右心室中炎症和免疫相关 RNA 的上调显示了高炎症状态和活跃的免疫反应。此外,外周血可能介导组织间的信号传递,以协调受感染个体的分子变化。总之,这些数据为了解 SARS-CoV-2 原始菌株及其 VOCs 在感染早期的发病机理提供了重要信息。
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引用次数: 0
Identifying RNA Modifications by Direct RNA Sequencing Reveals Complexity of Epitranscriptomic Dynamics in Rice. 通过直接RNA测序鉴定RNA修饰揭示水稻表观转录组动力学的复杂性。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-08-01 Epub Date: 2023-02-11 DOI: 10.1016/j.gpb.2023.02.002
Feng Yu, Huanhuan Qi, Li Gao, Sen Luo, Rebecca Njeri Damaris, Yinggen Ke, Wenhua Wu, Pingfang Yang

Transcriptome analysis based on high-throughput sequencing of a cDNA library has been widely applied to functional genomic studies. However, the cDNA dependence of most RNA sequencing techniques constrains their ability to detect base modifications on RNA, which is an important element for the post-transcriptional regulation of gene expression. To comprehensively profile the N6-methyladenosine (m6A) and N5-methylcytosine (m5C) modifications on RNA, direct RNA sequencing (DRS) using the latest Oxford Nanopore Technology was applied to analyze the transcriptome of six tissues in rice. Approximately 94 million reads were generated, with an average length ranging from 619 nt to 1013 nt, and a total of 45,707 transcripts across 34,763 genes were detected. Expression profiles of transcripts at the isoform level were quantified among tissues. Transcriptome-wide mapping of m6A and m5C demonstrated that both modifications exhibited tissue-specific characteristics. The transcripts with m6A modifications tended to be modified by m5C, and the transcripts with modifications presented higher expression levels along with shorter poly(A) tails than transcripts without modifications, suggesting the complexity of gene expression regulation. Gene Ontology analysis demonstrated that m6A- and m5C-modified transcripts were involved in central metabolic pathways related to the life cycle, with modifications on the target genes selected in a tissue-specific manner. Furthermore, most modified sites were located within quantitative trait loci that control important agronomic traits, highlighting the value of cloning functional loci. The results provide new insights into the expression regulation complexity and data resource of the transcriptome and epitranscriptome, improving our understanding of the rice genome.

基于cDNA文库高通量测序的转录组分析已广泛应用于功能基因组研究。然而,大多数RNA测序技术对cDNA的依赖限制了它们检测RNA上的碱基修饰的能力,而RNA修饰是基因转录后调控的重要元素。为了全面分析n6 -甲基腺苷(m6A)和n5 -甲基胞嘧啶(m5C)在RNA上的修饰,采用最新的牛津纳米孔技术(Oxford Nanopore Technology)对水稻6个组织的转录组进行了直接RNA测序(DRS)分析。共生成了约9400万个reads,平均长度为619 ~ 1013 nt,共检测到34,763个基因的45707个转录本。在同工型水平上定量组织间转录本的表达谱。m6A和m5C的转录组图谱显示,这两种修饰都具有组织特异性。m6A修饰的转录本更容易被m5C修饰,修饰后的转录本比未修饰的转录本表达量更高,多A尾更短,表明基因表达调控的复杂性。基因本体分析表明,m6A和m5c修饰的转录本参与了与生命周期相关的中枢代谢途径,并以组织特异性的方式选择了靶基因的修饰。此外,大多数修饰位点位于控制重要农艺性状的数量性状位点内,这突出了克隆功能位点的价值。研究结果对水稻转录组和表转录组的表达调控复杂性和数据来源提供了新的认识,提高了我们对水稻基因组的认识。
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引用次数: 0
Multi-omics of Circular RNAs and Their Responses to Hormones in Moso Bamboo (Phyllostachys edulis). 毛竹环状rna的多组学研究及其对激素的响应。
IF 11.5 2区 生物学 Q1 GENETICS & HEREDITY Pub Date : 2023-08-01 Epub Date: 2023-02-16 DOI: 10.1016/j.gpb.2023.01.007
Yongsheng Wang, Huihui Wang, Huiyuan Wang, Ruifan Zhou, Ji Wu, Zekun Zhang, Yandong Jin, Tao Li, Markus V Kohnen, Xuqing Liu, Wentao Wei, Kai Chen, Yubang Gao, Jiazhi Ding, Hangxiao Zhang, Bo Liu, Chentao Lin, Lianfeng Gu

Circular RNAs (circRNAs) are endogenous non-coding RNAs with covalently closed structures, which have important functions in plants. However, their biogenesis, degradation, and function upon treatment with gibberellins (GAs) and auxins (1-naphthaleneacetic acid, NAA) remain unknown. Here, we systematically identified and characterized the expression patterns, evolutionary conservation, genomic features, and internal structures of circRNAs using RNase R-treated libraries from moso bamboo (Phyllostachys edulis) seedlings. Moreover, we investigated the biogenesis of circRNAs dependent on both cis- and trans-regulation. We explored the function of circRNAs, including their roles in regulating microRNA (miRNA)-related genes and modulating the alternative splicing of their linear counterparts. Importantly, we developed a customized degradome sequencing approach to detect miRNA-mediated cleavage of circRNAs. Finally, we presented a comprehensive view of the participation of circRNAs in the regulation of hormone metabolism upon treatment of bamboo seedlings with GA and NAA. Collectively, our study provides insights into the biogenesis, function, and miRNA-mediated degradation of circRNAs in moso bamboo.

环状rna (circRNAs)是一种具有共价封闭结构的内源性非编码rna,在植物中具有重要的功能。然而,它们的生物发生、降解和在赤霉素(GAs)和生长素(1-萘乙酸,NAA)处理下的功能仍然未知。本研究利用RNase r处理的毛竹幼苗文库,系统地鉴定和表征了环状rna的表达模式、进化保守性、基因组特征和内部结构。此外,我们还研究了依赖于顺式和反式调控的环状rna的生物发生。我们探索了环状rna的功能,包括它们在调节microRNA (miRNA)相关基因和调节其线性对应物的选择性剪接中的作用。重要的是,我们开发了一种定制的降解组测序方法来检测mirna介导的环状rna切割。最后,我们全面介绍了在GA和NAA处理竹幼苗后,circrna参与调节激素代谢的情况。总的来说,我们的研究深入了解了毛竹中环状rna的生物发生、功能和mirna介导的降解。
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引用次数: 0
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Genomics, Proteomics & Bioinformatics
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