aBIOTECH最新文献_第5页

Correction: Integration of light and hormone signaling pathways in the regulation of plant shade avoidance syndrome 更正：光和激素信号途径在植物避阴综合征调控中的整合

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2024-01-22 DOI: 10.1007/s42994-023-00136-2

Yang Liu, Fereshteh Jafari, Haiyang Wang

引用次数: 0

Regulation of gene-edited plants in Europe: from the valley of tears into the shining sun? 欧洲对基因编辑植物的监管：从泪谷走向艳阳天？

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-12-28 DOI: 10.1007/s42994-023-00130-8

Holger Puchta

{"title":"Regulation of gene-edited plants in Europe: from the valley of tears into the shining sun?","authors":"Holger Puchta","doi":"10.1007/s42994-023-00130-8","DOIUrl":"10.1007/s42994-023-00130-8","url":null,"abstract":"<div><p>Some 20 years ago, the EU introduced complex regulatory rules for the growth of transgenic crops, which resulted in a de facto ban to grow these plants in fields within most European countries. With the rise of novel genome editing technologies, it has become possible to improve crops genetically in a directed way without the need for incorporation of foreign genes. Unfortunately, in 2018, the European Court of Justice ruled that such gene-edited plants are to be regulated like transgenic plants. Since then, European scientists and breeders have challenged this decision and requested a revision of this outdated law. Finally, after 5 years, the European Commission has now published a proposal on how, in the future, to regulate crops produced by new breeding technologies. The proposal tries to find a balance between the different interest groups in Europe. On one side, genetically modified plants, which cannot be discerned from their natural counterparts, will exclusively be used for food and feed and are—besides a registration step—not to be regulated at all. On the other side, plants expressing herbicide resistance are to be excluded from this regulation, a concession to the strong environmental associations and NGOs in Europe. Moreover, edited crops are to be excluded from organic farming to protect the business interests of the strong organic sector in Europe. Nevertheless, if this law passes European parliament and council, unchanged, it will present a big step forward toward establishing a more sustainable European agricultural system. Thus, it might soon be possible to develop and grow crops that are more adapted to global warming and whose cultivation will require lower amounts of pesticides. However, there is still a long way to go until the law is passed. Too often, the storm of arguments raised by the opponents, based on irrational fears of mutations and a naive understanding of nature, has fallen on fruitful ground in Europe.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"5 2","pages":"231 - 238"},"PeriodicalIF":4.6,"publicationDate":"2023-12-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00130-8.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139150558","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

Two H3K36 methyltransferases differentially associate with transcriptional activity and enrichment of facultative heterochromatin in rice blast fungus 两种 H3K36 甲基转移酶与稻瘟病真菌的转录活性和变异异染色质的富集有不同关系

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-12-18 DOI: 10.1007/s42994-023-00127-3

Mengting Xu, Ziyue Sun, Huanbin Shi, Jiangnan Yue, Xiaohui Xiong, Zhongling Wu, Yanjun Kou, Zeng Tao

{"title":"Two H3K36 methyltransferases differentially associate with transcriptional activity and enrichment of facultative heterochromatin in rice blast fungus","authors":"Mengting Xu, Ziyue Sun, Huanbin Shi, Jiangnan Yue, Xiaohui Xiong, Zhongling Wu, Yanjun Kou, Zeng Tao","doi":"10.1007/s42994-023-00127-3","DOIUrl":"10.1007/s42994-023-00127-3","url":null,"abstract":"<div><p>Di- and tri-methylation of lysine 36 on histone H3 (H3K36me2/3) is catalysed by histone methyltransferase Set2, which plays an essential role in transcriptional regulation. Although there is a single H3K36 methyltransferase in yeast and higher eukaryotes, two H3K36 methyltransferases, Ash1 and Set2, were present in many filamentous fungi. However, their roles in H3K36 methylation and transcriptional regulation remained unclear. Combined with methods of RNA-seq and ChIP-seq, we revealed that both Ash1 and Set2 are redundantly required for the full H3K36me2/3 activity in <i>Magnaporthe oryzae</i>, which causes the devastating worldwide rice blast disease. Ash1 and Set2 distinguish genomic H3K36me2/3-marked regions and are differentially associated with repressed and activated transcription, respectively. Furthermore, Ash1-catalysed H3K36me2 was co-localized with H3K27me3 at the chromatin, and Ash1 was required for the enrichment and transcriptional silencing of H3K27me3-occupied genes. With the different roles of Ash1 and Set2, in H3K36me2/3 enrichment and transcriptional regulation on the stress-responsive genes, they differentially respond to various stresses in <i>M. oryzae</i>. Overall, we reveal a novel mechanism by which two H3K36 methyltransferases catalyze H3K36me2/3 that differentially associate with transcriptional activities and contribute to enrichment of facultative heterochromatin in eukaryotes.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"5 1","pages":"1 - 16"},"PeriodicalIF":4.6,"publicationDate":"2023-12-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00127-3.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139174061","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

Publisher Correction: The RNA-binding domain of DCL3 is required for long-distance RNAi signaling 勘误：出版商更正：DCL3 的 RNA 结合结构域是长距离 RNAi 信号传导所必需的。

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-12-15 DOI: 10.1007/s42994-023-00128-2

Jie Li, Bo-Sen Zhang, Hua-Wei Wu, Cheng-Lan Liu, Hui-Shan Guo, Jian-Hua Zhao

引用次数: 0

Mining salt stress-related genes in Spartina alterniflora via analyzing co-evolution signal across 365 plant species using phylogenetic profiling 利用系统发育图谱分析 365 个植物物种的共同进化信号，挖掘互花叶斯巴达盐胁迫相关基因

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-12-07 DOI: 10.1007/s42994-023-00125-5

Shang Gao, Shoukun Chen, Maogeng Yang, Jinran Wu, Shihua Chen, Huihui Li

{"title":"Mining salt stress-related genes in Spartina alterniflora via analyzing co-evolution signal across 365 plant species using phylogenetic profiling","authors":"Shang Gao, Shoukun Chen, Maogeng Yang, Jinran Wu, Shihua Chen, Huihui Li","doi":"10.1007/s42994-023-00125-5","DOIUrl":"10.1007/s42994-023-00125-5","url":null,"abstract":"<div><p>With the increasing number of sequenced species, phylogenetic profiling (PP) has become a powerful method to predict functional genes based on co-evolutionary information. However, its potential in plant genomics has not yet been fully explored. In this context, we combined the power of machine learning and PP to identify salt stress-related genes in a halophytic grass, <i>Spartina alterniflora</i>, using evolutionary information generated from 365 plant species. Our results showed that the genes highly co-evolved with known salt stress-related genes are enriched in biological processes of ion transport, detoxification and metabolic pathways. For ion transport, five identified genes coding two sodium and three potassium transporters were validated to be able to uptake Na<sup>+</sup>. In addition, we identified two orthologs of trichome-related AtR3-MYB genes, <i>SaCPC1</i> and <i>SaCPC2</i>, which may be involved in salinity responses. Genes co-evolved with <i>SaCPCs</i> were enriched in functions related to the circadian rhythm and abiotic stress responses. Overall, this work demonstrates the feasibility of mining salt stress-related genes using evolutionary information, highlighting the potential of PP as a valuable tool for plant functional genomics.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"4 4","pages":"291 - 302"},"PeriodicalIF":4.6,"publicationDate":"2023-12-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00125-5.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138593356","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

Predicting rice diseases using advanced technologies at different scales: present status and future perspectives 利用不同规模的先进技术预测水稻病害：现状与未来展望。

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-11-29 DOI: 10.1007/s42994-023-00126-4

Ruyue Li, Sishi Chen, Haruna Matsumoto, Mostafa Gouda, Yusufjon Gafforov, Mengcen Wang, Yufei Liu

引用次数: 0

The RNA-binding domain of DCL3 is required for long-distance RNAi signaling DCL3的RNA结合域是长距离RNAi信号传导所必需的。

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-11-28 DOI: 10.1007/s42994-023-00124-6

Jie Li, Bo-Sen Zhang, Hua-Wei Wu, Cheng-Lan Liu, Hui-Shan Guo, Jian-Hua Zhao

{"title":"The RNA-binding domain of DCL3 is required for long-distance RNAi signaling","authors":"Jie Li, Bo-Sen Zhang, Hua-Wei Wu, Cheng-Lan Liu, Hui-Shan Guo, Jian-Hua Zhao","doi":"10.1007/s42994-023-00124-6","DOIUrl":"10.1007/s42994-023-00124-6","url":null,"abstract":"<div><p>Small RNA (sRNA)-mediated RNA silencing (also known as RNA interference, or RNAi) is a conserved mechanism in eukaryotes that includes RNA degradation, DNA methylation, heterochromatin formation and protein translation repression. In plants, sRNAs can move either cell-to-cell or systemically, thereby acting as mobile silencing signals to trigger noncell autonomous silencing. However, whether and what proteins are also involved in noncell autonomous silencing have not been elucidated. In this study, we utilized a previously reported inducible RNAi plant, <i>PDSi</i>, which can induce systemic silencing of the endogenous <i>PDS</i> gene, and we demonstrated that DCL3 is involved in systemic <i>PDS</i> silencing through its RNA binding activity. We confirmed that the C-terminus of DCL3, including the predicted RNA-binding domain, is capable of binding short RNAs. Mutations affecting RNA binding, but not processing activity, reduced systemic <i>PDS</i> silencing, indicating that DCL3 binding to RNAs is required for the induction of systemic silencing. Cucumber mosaic virus infection assays showed that the RNA-binding activity of DCL3 is required for antiviral RNAi in systemically noninoculated leaves. Our findings demonstrate that DCL3 acts as a signaling agent involved in noncell autonomous silencing and an antiviral effect in addition to its previously known function in the generation of 24-nucleotide sRNAs.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"5 1","pages":"17 - 28"},"PeriodicalIF":4.6,"publicationDate":"2023-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10987413/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140871337","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

Regulation of seed traits in soybean 大豆种子性状的调控

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-11-27 DOI: 10.1007/s42994-023-00122-8

Yang Hu, Yue Liu, Jun-Jie Wei, Wan-Ke Zhang, Shou-Yi Chen, Jin-Song Zhang

引用次数: 0

Regulation of regeneration in Arabidopsis thaliana 拟南芥的再生调节。

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-11-22 DOI: 10.1007/s42994-023-00121-9

Md Khairul Islam, Sai Teja Mummadi, Sanzhen Liu, Hairong Wei

{"title":"Regulation of regeneration in Arabidopsis thaliana","authors":"Md Khairul Islam, Sai Teja Mummadi, Sanzhen Liu, Hairong Wei","doi":"10.1007/s42994-023-00121-9","DOIUrl":"10.1007/s42994-023-00121-9","url":null,"abstract":"<div><p>We employed several algorithms with high efficacy to analyze the public transcriptomic data, aiming to identify key transcription factors (TFs) that regulate regeneration in <i>Arabidopsis thaliana</i>. Initially, we utilized CollaborativeNet, also known as TF-Cluster, to construct a collaborative network of all TFs, which was subsequently decomposed into many subnetworks using the Triple-Link and Compound Spring Embedder (CoSE) algorithms. Functional analysis of these subnetworks led to the identification of nine subnetworks closely associated with regeneration. We further applied principal component analysis and gene ontology (GO) enrichment analysis to reduce the subnetworks from nine to three, namely subnetworks 1, 12, and 17. Searching for TF-binding sites in the promoters of the co-expressed and co-regulated (CCGs) genes of all TFs in these three subnetworks and Triple-Gene Mutual Interaction analysis of TFs in these three subnetworks with the CCGs involved in regeneration enabled us to rank the TFs in each subnetwork. Finally, six potential candidate TFs—WOX9A, LEC2, PGA37, WIP5, PEI1, and AIL1 from subnetwork 1—were identified, and their roles in somatic embryogenesis (GO:0010262) and regeneration (GO:0031099) were discussed, so were the TFs in Subnetwork 12 and 17 associated with regeneration. The TFs identified were also assessed using the CIS-BP database and Expression Atlas. Our analyses suggest some novel TFs that may have regulatory roles in regeneration and embryogenesis and provide valuable data and insights into the regulatory mechanisms related to regeneration. The tools and the procedures used here are instrumental for analyzing high-throughput transcriptomic data and advancing our understanding of the regulation of various biological processes of interest.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"4 4","pages":"332 - 351"},"PeriodicalIF":4.6,"publicationDate":"2023-11-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10721781/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"138795330","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

Staying hungry: a roadmap to harnessing central regulators of symbiotic nitrogen fixation under fluctuating nitrogen availability 保持饥饿：在氮供应波动条件下利用共生固氮中心调节器的路线图

IF 4.6 4区农林科学

aBIOTECH Pub Date : 2023-11-18 DOI: 10.1007/s42994-023-00123-7

Lijin Qiao, Jieshun Lin, Takuya Suzaki, Pengbo Liang

{"title":"Staying hungry: a roadmap to harnessing central regulators of symbiotic nitrogen fixation under fluctuating nitrogen availability","authors":"Lijin Qiao, Jieshun Lin, Takuya Suzaki, Pengbo Liang","doi":"10.1007/s42994-023-00123-7","DOIUrl":"10.1007/s42994-023-00123-7","url":null,"abstract":"<div><p>Legumes have evolved specific inventions to enhance nitrogen (N) acquisition by establishing symbiotic interactions with N-fixing rhizobial bacteria. Because symbiotic N fixation is energetically costly, legumes have developed sophisticated mechanisms to ensure carbon–nitrogen balance, in a variable environment, both locally and at the whole plant level, by monitoring nodule number, nodule development, and nodular nitrogenase activity, as well as controlling nodule senescence. Studies of the autoregulation of nodulation and regulation of nodulation by nodule inception (NIN) and NIN-LIKE PROTEINs (NLPs) have provided great insights into the genetic mechanisms underlying the nitrate-induced regulation of root nodulation for adapting to N availability in the rhizosphere. However, many aspects of N-induced pleiotropic regulation remain to be fully explained, such as N-triggered senescence in mature nodules. Wang et al. determined that this process is governed by a transcriptional network regulated by NAC-type transcription factors. Characterization and dissection of these soybean nitrogen-associated NAPs (SNAPs) transcription factor-mastered networks have yielded a roadmap for exploring how legumes rewire nodule functions across a range of N levels, laying the foundation for enhancing the growth of N-deprived crops in agricultural settings.</p></div>","PeriodicalId":53135,"journal":{"name":"aBIOTECH","volume":"5 1","pages":"107 - 113"},"PeriodicalIF":4.6,"publicationDate":"2023-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://link.springer.com/content/pdf/10.1007/s42994-023-00123-7.pdf","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139261479","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