aBIOTECH最新文献_第4页

Revealing the specific regulations of nitric oxide on the postharvest ripening and senescence of bitter melon fruit 揭示一氧化氮对苦瓜果实采后成熟和衰老的特殊调节作用

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-21 DOI: 10.1007/s42994-023-00110-y

Hongwei Wang, Ling Li, Lili Ma, Alisdair R. Fernie, Anzhen Fu, Chunmei Bai, Zhaoze Sang, Susu Guo, Fan Zhang, Qing Wang, Yanyan Zheng, Jinhua Zuo

{"title":"Revealing the specific regulations of nitric oxide on the postharvest ripening and senescence of bitter melon fruit","authors":"Hongwei Wang, Ling Li, Lili Ma, Alisdair R. Fernie, Anzhen Fu, Chunmei Bai, Zhaoze Sang, Susu Guo, Fan Zhang, Qing Wang, Yanyan Zheng, Jinhua Zuo","doi":"10.1007/s42994-023-00110-y","DOIUrl":"10.1007/s42994-023-00110-y","url":null,"abstract":"<div><p>Bitter melon fruit is susceptible to yellowing, softening, and rotting under room-temperature storage conditions, resulting in reduced commercial value. Nitric oxide (NO) is an important signaling molecule and plays a crucial role in regulating the fruit postharvest quality. In this study, we investigated the effects of NO treatment on changes in sensory and firmness of bitter melon fruit during postharvest storage. Moreover, transcriptomic, metabolomic, and proteomic analyses were performed to elucidate the regulatory mechanisms through which NO treatment delays the ripening and senescence of bitter melon fruit. Our results show that differentially expressed genes (DEGs) were involved in fruit texture (<i>CSLE</i>, <i>β-Gal</i>, and <i>PME</i>), plant hormone signal transduction (<i>ACS</i>, <i>JAR4</i>, and <i>AUX28</i>), and fruit flavor and aroma (<i>SUS2</i>, <i>LOX</i>, and <i>GDH2</i>). In addition, proteins differentially abundant were associated with fruit texture (PLY, PME, and PGA) and plant hormone signal transduction (PBL15, JAR1, and PYL9). Moreover, NO significantly increased the abundance of key enzymes involved in the phenylpropanoid biosynthetic pathway, thus enhancing the disease resistance and alleviating softening of bitter melon fruit. Finally, differential metabolites mainly included phenolic acids, terpenoids, and flavonoids. These results provide a theoretical basis for further studies on the physiological changes associated with postharvest ripening and senescence of bitter melon fruit.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00110-y.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140221401","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

Fusion of a rice endogenous N-methylpurine DNA glycosylase to a plant adenine base transition editor ABE8e enables A-to-K base editing in rice plants 将水稻内源 N-甲基嘌呤 DNA 糖基化酶与植物腺嘌呤碱基转换编辑器 ABE8e 融合，可在水稻植株中进行 A-K 碱基编辑

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-21 DOI: 10.1007/s42994-024-00138-8

Yucai Li, Shaoya Li, Chenfei Li, Chen Zhang, Lei Yan, Jingying Li, Yubing He, Yan Guo, Lanqin Xia

{"title":"Fusion of a rice endogenous N-methylpurine DNA glycosylase to a plant adenine base transition editor ABE8e enables A-to-K base editing in rice plants","authors":"Yucai Li, Shaoya Li, Chenfei Li, Chen Zhang, Lei Yan, Jingying Li, Yubing He, Yan Guo, Lanqin Xia","doi":"10.1007/s42994-024-00138-8","DOIUrl":"10.1007/s42994-024-00138-8","url":null,"abstract":"<div><p>Engineering of a new type of plant base editor for simultaneous adenine transition and transversion within the editing window will greatly expand the scope and potential of base editing in directed evolution and crop improvement. Here, we isolated a rice endogenous hypoxanthine excision protein, N-methylpurine DNA glycosylase (OsMPG), and engineered two plant A-to-K (K = G or T) base editors, rAKBE01 and rAKBE02, for simultaneous adenine transition and transversion base editing in rice by fusing OsMPG or its mutant mOsMPG to a plant adenine transition base editor, ABE8e. We further coupled either OsMPG or mOsMPG with a transactivation factor VP64 to generate rAKBE03 and rAKBE04, respectively. Testing these four rAKBEs, at five endogenous loci in rice protoplasts, indicated that rAKBE03 and rAKBE04 enabled higher levels of A-to-G base transitions when compared to ABE8e and ABE8e-VP64. Furthermore, whereas rAKBE01 only enabled A-to-C/T editing at one endogenous locus, in comparison with rAKBE02 and rAKBE03, rAKBE04 could significantly improve the A-to-C/T base transversion efficiencies by up to 6.57- and 1.75-fold in the rice protoplasts, respectively. Moreover, although no stable lines with A-to-C transversion were induced by rAKBE01 and rAKBE04, rAKBE04 could enable simultaneous A-to-G and A-to-T transition and transversion base editing, at all the five target loci, with the efficiencies of A-to-G transition and A-to-T transversion editing ranging from 70.97 to 92.31% and 1.67 to 4.84% in rice stable lines, respectively. Together, these rAKBEs enable different portfolios of editing products and, thus, now expands the potential of base editing in diverse application scenario for crop improvement.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-024-00138-8.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140222282","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

A sensitive one-pot ROA assay for rapid miRNA detection 用于快速检测 miRNA 的灵敏的一次性 ROA 分析法

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-18 DOI: 10.1007/s42994-024-00140-0

Zhihao Hou, Wenpeng Deng, Alun Li, Ya Zhang, Jianye Chang, Xinyue Guan, Yuxiao Chang, Kaile Wang, Xinjie Wang, Jue Ruan

{"title":"A sensitive one-pot ROA assay for rapid miRNA detection","authors":"Zhihao Hou, Wenpeng Deng, Alun Li, Ya Zhang, Jianye Chang, Xinyue Guan, Yuxiao Chang, Kaile Wang, Xinjie Wang, Jue Ruan","doi":"10.1007/s42994-024-00140-0","DOIUrl":"10.1007/s42994-024-00140-0","url":null,"abstract":"<div><p>MicroRNAs (miRNAs) and short RNA fragments (18–25 nt) are crucial biomarkers in biological research and disease diagnostics. However, their accurate and rapid detection remains a challenge, largely due to their low abundance, short length, and sequence similarities. In this study, we report on a highly sensitive, one-step RNA O-circle amplification (ROA) assay for rapid and accurate miRNA detection. The ROA assay commences with the hybridization of a circular probe with the test RNA, followed by a linear rolling circle amplification (RCA) using dUTP. This amplification process is facilitated by U-nick reactions, which lead to an exponential amplification for readout. Under optimized conditions, assays can be completed within an hour, producing an amplification yield up to the microgram level, with a detection limit as low as 0.15 fmol (6 pM). Notably, the ROA assay requires only one step, and the results can be easily read visually, making it user-friendly. This ROA assay has proven effective in detecting various miRNAs and phage ssRNA. Overall, the ROA assay offers a user-friendly, rapid, and accurate solution for miRNA detection.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-024-00140-0.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140233780","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 RUBY reporter for visual selection in soybean genome editing 用于大豆基因组编辑视觉选择的 RUBY 报告器

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-18 DOI: 10.1007/s42994-024-00148-6

Li Chen, Yupeng Cai, Xiaoqian Liu, Weiwei Yao, Shuiqing Wu, Wensheng Hou

{"title":"The RUBY reporter for visual selection in soybean genome editing","authors":"Li Chen, Yupeng Cai, Xiaoqian Liu, Weiwei Yao, Shuiqing Wu, Wensheng Hou","doi":"10.1007/s42994-024-00148-6","DOIUrl":"10.1007/s42994-024-00148-6","url":null,"abstract":"<div><p>Current systems to screen for transgenic soybeans (<i>Glycine max</i>) involve laborious molecular assays or the expression of fluorescent markers that are difficult to see in soybean plants. Therefore, a visual system for early screening of transgenic plants would increase the efficiency of crop improvement by genome editing. The <i>RUBY</i> reporter system, which consists of three genes encoding betalain biosynthetic enzymes, leading to the accumulation of purple pigment in transgenic tissue, has been employed in some plants and dikaryon fungi. Here, we assessed the <i>RUBY</i> reporter for visual verification during soybean transformation. We show that <i>RUBY</i> can be expressed in soybean, allowing for visual confirmation of transgenic events without the need for specialized equipment. Plants with visible accumulation of purple pigment in any tissue were successfully transformed, confirming the accuracy of the <i>RUBY</i> system as a visual indicator. We also assessed the genetic stability of the transgene across generations, which can be performed very early, using the cotyledons of the progeny. Transgene-free seedlings have a distinct green color, facilitating the selection of genome-edited but transgene-free soybean seedlings for harvest. Using the <i>RUBY</i> system, we quickly identified a transgene-free <i>Gmwaxy</i> mutant in the T1 generation. This system thus provides an efficient and convenient tool for soybean genome editing.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140231507","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"农林科学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Impact of acute heat stress on mitochondrial function, ultrastructure and cardiolipin distribution in Arabidopsis 急性热胁迫对拟南芥线粒体功能、超微结构和心磷脂分布的影响

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-15 DOI: 10.1007/s42994-024-00151-x

Yukang Wang, Ronghui Pan, Jianping Hu

{"title":"Impact of acute heat stress on mitochondrial function, ultrastructure and cardiolipin distribution in Arabidopsis","authors":"Yukang Wang, Ronghui Pan, Jianping Hu","doi":"10.1007/s42994-024-00151-x","DOIUrl":"10.1007/s42994-024-00151-x","url":null,"abstract":"<div><p>Besides providing energy to sustain life, mitochondria also play crucial roles in stress response and programmed cell death. The mitochondrial hallmark lipid, cardiolipin (CL), is essential to the maintenance of mitochondrial structure and function. However, how mitochondria and CL are involved in stress response is not as well defined in plants as in animal and yeast cells. We previously revealed a role for CL in mitochondrial fission and in heat stress response in <i>Arabidopsis</i>. To further determine the involvement of mitochondria and CL in plant heat response, here we treated <i>Arabidopsis</i> seedlings with varied lengths of acute heat stress. These treatments resulted in decreases in mitochondrial membrane potential, disruption of mitochondrial ultrastructure, accumulation of mitochondrial reactive-oxygen species (ROS), and redistribution of CL to the outer mitochondrial membrane and to a novel type of vesicle. The level of the observed changes correlated with the severeness of the heat stress, indicating the strong relevance of these processes to stress response. Our findings provide the basis for studying mechanisms underpinning the role of mitochondria and CL in plant stress response.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-024-00151-x.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140237712","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 maize ZmCPK39-ZmKnox2 module regulates plant height 玉米 ZmCPK39-ZmKnox2 模块调控植株高度

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-03-15 DOI: 10.1007/s42994-024-00150-y

Mang Zhu, Chenyu Guo, Xiaohui Zhang, Yulin Liu, Xiaohui Jiang, Limei Chen, Mingliang Xu

{"title":"The maize ZmCPK39-ZmKnox2 module regulates plant height","authors":"Mang Zhu, Chenyu Guo, Xiaohui Zhang, Yulin Liu, Xiaohui Jiang, Limei Chen, Mingliang Xu","doi":"10.1007/s42994-024-00150-y","DOIUrl":"10.1007/s42994-024-00150-y","url":null,"abstract":"<div><p>Plant height is an important agronomic trait that affects high-density tolerance and lodging resistance. However, the regulators and their underlying molecular mechanisms controlling plant height in maize remain understudied. Here, we report that knockout mutants of the calcium-dependent protein kinase gene <i>ZmCPK39</i> (<i>ZmCPK39</i>-KO) exhibit dramatically reduced plant height, characterized by shorter internodes and a slight decrease in node numbers. Furthermore, we identified a ZmCPK39-interacting protein, the knotted-related homeobox (ZmKnox2), and observed that plant height was also significantly reduced in a <i>mutator</i> transposon-inserted mutant of <i>ZmKnox2</i> (<i>ZmKnox2</i>-Mu). Combined analysis of transcriptomic and metabonomic data indicates that multiple phytohormone signaling and photosynthesis pathways are disrupted in both <i>ZmCPK39</i>-KO and <i>ZmKnox2</i>-Mu mutants. Taken together, these results provide new insights into the function of <i>ZmCPK39</i> and identify potential targets for breeding lodging-resistant and high-density tolerant maize cultivars.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-03-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-024-00150-y.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140239168","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

Integrating machine learning and genome editing for crop improvement 将机器学习与基因组编辑相结合，促进作物改良

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-02-29 DOI: 10.1007/s42994-023-00133-5

Long Chen, Guanqing Liu, Tao Zhang

引用次数: 0

Innovative computational tools provide new insights into the polyploid wheat genome 创新计算工具为多倍体小麦基因组提供了新见解

IF 3.6 4区农林科学

aBIOTECH Pub Date : 2024-02-07 DOI: 10.1007/s42994-023-00131-7

Yongming Chen, Wenxi Wang, Zhengzhao Yang, Huiru Peng, Z. Ni, Qixin Sun, Weilong Guo

引用次数: 0

Innovative computational tools provide new insights into the polyploid wheat genome 创新计算工具为多倍体小麦基因组提供了新见解

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-02-07 DOI: 10.1007/s42994-023-00131-7

Yongming Chen, Wenxi Wang, Zhengzhao Yang, Huiru Peng, Zhongfu Ni, Qixin Sun, Weilong Guo

{"title":"Innovative computational tools provide new insights into the polyploid wheat genome","authors":"Yongming Chen, Wenxi Wang, Zhengzhao Yang, Huiru Peng, Zhongfu Ni, Qixin Sun, Weilong Guo","doi":"10.1007/s42994-023-00131-7","DOIUrl":"10.1007/s42994-023-00131-7","url":null,"abstract":"<div><p>Bread wheat (<i>Triticum aestivum</i>) is an important crop and serves as a significant source of protein and calories for humans, worldwide. Nevertheless, its large and allopolyploid genome poses constraints on genetic improvement. The complex reticulate evolutionary history and the intricacy of genomic resources make the deciphering of the functional genome considerably more challenging. Recently, we have developed a comprehensive list of versatile computational tools with the integration of statistical models for dissecting the polyploid wheat genome. Here, we summarize the methodological innovations and applications of these tools and databases. A series of step-by-step examples illustrates how these tools can be utilized for dissecting wheat germplasm resources and unveiling functional genes associated with important agronomic traits. Furthermore, we outline future perspectives on new advanced tools and databases, taking into consideration the unique features of bread wheat, to accelerate genomic-assisted wheat breeding.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":null,"pages":null},"PeriodicalIF":4.6,"publicationDate":"2024-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00131-7.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139795134","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

DGS1 improves rice disease resistance by elevating pathogen-associated molecular pattern-triggered immunity DGS1 通过提高病原体相关分子模式触发的免疫力来提高水稻的抗病性

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-02-06 DOI: 10.1007/s42994-024-00137-9

Yu Wang, Chuan Zheng, You-liang Peng, Qian Chen

引用次数: 0