Journal of Genetics and Genomics最新文献_第5页

Genetic and molecular mechanisms underlying nitrogen use efficiency in maize. 玉米氮利用效率的遗传和分子机制。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 Epub Date: 2024-11-06 DOI: 10.1016/j.jgg.2024.10.007

Jianfang Li, Huairong Cao, Shuxin Li, Xiaonan Dong, Zheng Zhao, Zhongtao Jia, Lixing Yuan

{"title":"Genetic and molecular mechanisms underlying nitrogen use efficiency in maize.","authors":"Jianfang Li, Huairong Cao, Shuxin Li, Xiaonan Dong, Zheng Zhao, Zhongtao Jia, Lixing Yuan","doi":"10.1016/j.jgg.2024.10.007","DOIUrl":"10.1016/j.jgg.2024.10.007","url":null,"abstract":"Nitrogen (N) is vital for crop growth and yield, impacting food quality. However, excessive use of N fertilizers leads to high agricultural costs and environmental challenges. This review offers a thorough synthesis of the genetic and molecular regulation of N uptake, assimilation, and remobilization in maize, emphasizing the role of key genes and metabolic pathways in enhancing N use efficiency (NUE). We summarize the genetic regulators of N transports for nitrate (NO3-) and ammonium (NH4+) that contribute to efficient N uptake and transportation. We further discuss the molecular mechanisms by which root system development adapts to N distribution and how N influences root system development and growth. Given the advancements in high-throughput microbiome studies, we delve into the impact of rhizosphere microorganisms on NUE and the complex plant-microbe interactions that regulate maize NUE. Additionally, we conclude with intricate regulatory mechanisms of N assimilation and remobilization in maize, involving key enzymes, transcription factors, and amino acid transporters. We also scrutinize the known N signaling perception and transduction mechanisms in maize. This review underscores the challenges in improving maize NUE and advocates for an integrative research approach that leverages genetic diversity and synthetic biology, paving the way for sustainable agriculture.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":"276-286"},"PeriodicalIF":6.6,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142632867","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

PPR21 is involved in the splicing of nad2 introns via interacting with PPR-SMR1 and SPR2 and is essential to maize seed development. PPR21 通过与 PPR-SMR1 和 SPR2 相互作用参与 nad2 内含子的剪接，对玉米种子的发育至关重要。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 Epub Date: 2024-09-04 DOI: 10.1016/j.jgg.2024.08.010

Yan-Zhuo Yang, Xin-Yuan Liu, Song Gao, Shu-Guang Zhang, Bao-Cai Tan

{"title":"PPR21 is involved in the splicing of nad2 introns via interacting with PPR-SMR1 and SPR2 and is essential to maize seed development.","authors":"Yan-Zhuo Yang, Xin-Yuan Liu, Song Gao, Shu-Guang Zhang, Bao-Cai Tan","doi":"10.1016/j.jgg.2024.08.010","DOIUrl":"10.1016/j.jgg.2024.08.010","url":null,"abstract":"Pentatricopeptide repeat (PPR) proteins are a large group of eukaryote-specific RNA-binding proteins that play pivotal roles in plant organelle gene expression. Here, we report the function of PPR21 in mitochondrial intron splicing and its role in maize kernel development. PPR21 is a typical P-type PPR protein targeted to mitochondria. The ppr21 mutants are arrested in embryogenesis and endosperm development, leading to embryo lethality. Null mutations of PPR21 reduce the splicing efficiency of nad2 intron 1, 2, and 4 and impair the assembly and activity of mitochondrial complex I. Previous studies show that the P-type PPR protein EMP12 is required for the splicing of identical introns. However, our protein interaction analyses reveal that PPR21 does not interact with EMP12. Instead, both PPR21 and EMP12 interact with the small MutS-related (SMR) domain-containing PPR protein 1 (PPR-SMR1) and the short P-type PPR protein 2 (SPR2). PPR-SMR1 interacts with SPR2, and both proteins are required for the splicing of many introns in mitochondria, including nad2 intron 1, 2, and 4. These results suggest that a PPR21-(PPR-SMR1/SPR2)-EMP12 complex is involved in the splicing of nad2 introns in maize mitochondria.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":"379-387"},"PeriodicalIF":6.6,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142146845","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Mycorrhizal fungi enhance plant resistance to environmental stresses: from mechanisms to applications.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 DOI: 10.1016/j.jgg.2025.01.013

Jing Wang, Mengwei Wei, Ertao Wang

引用次数: 0

Genome-wide analysis of Q binding reveals a regulatory network that coordinates wheat grain yield and grain protein content.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 DOI: 10.1016/j.jgg.2025.02.011

Jing Zhu, Qing Chen, Zhenru Guo, Yan Wang, Qingcheng Li, Yang Li, Lu Lei, Caihong Liu, Yue Li, Rui Tang, Jie Tang, Ziyi Zhang, Shijing Peng, Mi Zhang, Zhongxu Chen, Li Kong, Mei Deng, Qiang Xu, Yazhou Zhang, Qiantao Jiang, Jirui Wang, Guoyue Chen, Yunfeng Jiang, Yuming Wei, Youliang Zheng, Pengfei Qi

{"title":"Genome-wide analysis of Q binding reveals a regulatory network that coordinates wheat grain yield and grain protein content.","authors":"Jing Zhu, Qing Chen, Zhenru Guo, Yan Wang, Qingcheng Li, Yang Li, Lu Lei, Caihong Liu, Yue Li, Rui Tang, Jie Tang, Ziyi Zhang, Shijing Peng, Mi Zhang, Zhongxu Chen, Li Kong, Mei Deng, Qiang Xu, Yazhou Zhang, Qiantao Jiang, Jirui Wang, Guoyue Chen, Yunfeng Jiang, Yuming Wei, Youliang Zheng, Pengfei Qi","doi":"10.1016/j.jgg.2025.02.011","DOIUrl":"https://doi.org/10.1016/j.jgg.2025.02.011","url":null,"abstract":"Wheat is an important cereal crop used to produce diverse and popular food worldwide because of its high grain yield (GY) and grain protein content (GPC). However, GY and GPC are usually negatively correlated. We previously reported that favorable alleles of the wheat domestication gene Q can synchronously increase GY and GPC, but the underlying mechanisms remain largely unknown. In this study, we investigated the regulatory network involving Q associated with GY and GPC in young grains through DNA affinity purification sequencing and transcriptome sequencing analyses, electrophoretic mobility shift and dual-luciferase assays, and transgenic approaches. Three Q-binding motifs, namely TTAAGG, AAACA[A/T]A, and GTAC[T/G]A, were identified. Notably, genes related to photosynthesis or carbon and nitrogen metabolism were enriched and regulated by Q. Moreover, Q was revealed to bind directly to its own gene and the glutamine synthetase gene TaGSr-4D to increase expression, thereby influencing nitrogen assimilation during the grain filling stage and increasing GPC. Considered together, our study findings provide molecular evidence of the positive regulatory effects of Q on wheat GY and GPC.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143544502","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Maize plastid terminal oxidase (ZmPTOX) regulates the color formation of leaf and kernel by modulating plastid development. 玉米质体末端氧化酶（ZmPTOX）通过调节质体发育来调控叶色和籽粒颜色的形成。

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 Epub Date: 2024-05-29 DOI: 10.1016/j.jgg.2024.05.008

Qiang Huang, Zhuofan Zhao, Xiaowei Liu, Xin Yuan, Ruiqing Zhao, Qunkai Niu, Chuan Li, Yusheng Liu, Danfeng Wang, Tao Yu, Hongyang Yi, Chengming Yang, Tingzhao Rong, Moju Cao

引用次数: 0

Maize transcription factor ZmEREB167 negatively regulates starch accumulation and kernel size.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-03-01 Epub Date: 2025-01-25 DOI: 10.1016/j.jgg.2025.01.011

Xiangyu Qing, Jianrui Li, Zhen Lin, Wei Wang, Fei Yi, Jian Chen, Qiujie Liu, Weibin Song, Jinsheng Lai, Baojian Chen, Haiming Zhao, Zhijia Yang

{"title":"Maize transcription factor ZmEREB167 negatively regulates starch accumulation and kernel size.","authors":"Xiangyu Qing, Jianrui Li, Zhen Lin, Wei Wang, Fei Yi, Jian Chen, Qiujie Liu, Weibin Song, Jinsheng Lai, Baojian Chen, Haiming Zhao, Zhijia Yang","doi":"10.1016/j.jgg.2025.01.011","DOIUrl":"10.1016/j.jgg.2025.01.011","url":null,"abstract":"Transcription factors play critical roles in the regulation of gene expression during maize kernel development. The maize endosperm, a large storage organ, accounting for nearly 90% of the dry weight of mature kernels, serves as the primary site for starch storage. In this study, we identify an endosperm-specific EREB gene, ZmEREB167, which encodes a nucleus-localized EREB protein. Knockout of ZmEREB167 significantly increases kernel size and weight, as well as starch and protein content, compared with the wild type. In situ hybridization experiments show that ZmEREB167 is highly expressed in the BETL as well as PED regions of maize kernels. Dual-luciferase assays show that ZmEREB167 exhibits transcriptionally repressor activity in maize protoplasts. Transcriptome analysis reveals that a large number of genes are up-regulated in the Zmereb167-C1 mutant compared with the wild type, including key genetic factors such as ZmMRP-1 and ZmMN1, as well as multiple transporters involved in maize endosperm development. Integration of RNA-seq and ChIP-seq results identify 68 target genes modulated by ZmEREB167. We find that ZmEREB167 directly targets OPAQUE2, ZmNRT1.1, ZmIAA12, ZmIAA19, and ZmbZIP20, repressing their expressions. Our study demonstrates that ZmEREB167 functions as a negative regulator in maize endosperm development and affects starch accumulation and kernel size.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":"411-421"},"PeriodicalIF":6.6,"publicationDate":"2025-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143054351","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

GLGW10 controls grain size associated with the lignin content in rice.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-02-26 DOI: 10.1016/j.jgg.2025.02.009

Haolin Liu, Jinlong Ni, Yuhan Zhang, Yue Chen, Yanmin Luo, Yi Wang, Fei Shang, Yuke Yang, Rongfang Xu, Liyong Cao, Lilan Hong, Juan Xu, Yuanzhu Yang, Ming Zhou

{"title":"GLGW10 controls grain size associated with the lignin content in rice.","authors":"Haolin Liu, Jinlong Ni, Yuhan Zhang, Yue Chen, Yanmin Luo, Yi Wang, Fei Shang, Yuke Yang, Rongfang Xu, Liyong Cao, Lilan Hong, Juan Xu, Yuanzhu Yang, Ming Zhou","doi":"10.1016/j.jgg.2025.02.009","DOIUrl":"https://doi.org/10.1016/j.jgg.2025.02.009","url":null,"abstract":"Grain size, which encompasses length, width, and thickness, is a critical agricultural trait that influences both grain yield and quality in rice. Although numerous grain size regulators have been identified, the molecular mechanisms governing grain size and the lignin content remain largely elusive. In this study, we cloned and characterized GRAIN LENGTH AND GRAIN WIDTH 10 (GLGW10), a novel regulator of grain size in rice. Loss-of-function mutations in GLGW10 result in reduced grain size. GLGW10 encodes an evolutionarily conserved protein, the function of which has not been previously characterized in higher plants. Biochemical assays reveal that GLGW10 may interact with the transcription factor OsMYB108, which acts as a negative regulator of the lignin content. Knockout of OsMYB108 leads to longer and slender grain size, accompanied by increased lignin content, indicating that OsMYB108 negatively regulates both grain size and the lignin content. Analysis of natural variations and haplotypes in GLGW10 reveals an association with grain size, suggesting an artificial selection on GLGW10 during rice domestication. In summary, our findings identify novel regulators of grain size and elucidate potential mechanisms linking grain size and lignin metabolism in rice, thereby providing essential insights for improving crop yields.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2025-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143532225","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Monochoria genome provides insights into the molecular mechanisms underlying floral heteranthery.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-02-26 DOI: 10.1016/j.jgg.2025.02.008

Jingshan Yang, Jinming Chen, Xiangyan He, Guangxi Wang, Spencer C H Barrett, Zhizhong Li

{"title":"The Monochoria genome provides insights into the molecular mechanisms underlying floral heteranthery.","authors":"Jingshan Yang, Jinming Chen, Xiangyan He, Guangxi Wang, Spencer C H Barrett, Zhizhong Li","doi":"10.1016/j.jgg.2025.02.008","DOIUrl":"https://doi.org/10.1016/j.jgg.2025.02.008","url":null,"abstract":"Heteranthery, the occurrence of functionally and structurally distinct stamens within a flower, represents a striking example of convergent evolution among diverse animal-pollinated lineages. Although the ecological basis of this somatic polymorphism is understood, the developmental and molecular mechanisms are largely unknown. To address this knowledge gap, we selected Monochoria elata (Pontederiaceae) as our study system due to its typical heterantherous floral structure. We constructed a chromosome-level genome assembly of M. elata, conducted transcriptomic analyses and target phytohormone metabolome analysis to explore gene networks and hormones associated with heteranthery. We focused on three key stamen characteristics-colour, spatial patterning, and filament elongation-selected for their significant roles in stamen differentiation and their relevance to the functional diversity observed in heterantherous species. Our analyses suggest that gene networks involving MelLEAFY3, MADS-box, and TCP genes regulate stamen identity, with anthocyanin influencing colour, and lignin contributing to filament elongation. Additionally, variation in jasmonic acid and abscisic acid concentration between feeding and pollinating anthers appears to contribute to their morphological divergence. Our findings highlight gene networks and hormones associated with intra-floral stamen differentiation and indicate that whole genome duplications have likely facilitated the evolution of heternathery during divergence from other Pontederiaceae without heteranthery.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2025-02-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143532227","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Amyloid-β oligomers drive amyloid deposit and cascaded tau pathology of Alzheimer's disease in aged brains of non-human primates.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-02-25 DOI: 10.1016/j.jgg.2025.02.007

Zhengxiao He, Wenchang Zhang, Ping Chen, Siyao Li, Min Tao, Feng Yue, Wei Hong, Su Feng, Naihe Jing

{"title":"Amyloid-β oligomers drive amyloid deposit and cascaded tau pathology of Alzheimer's disease in aged brains of non-human primates.","authors":"Zhengxiao He, Wenchang Zhang, Ping Chen, Siyao Li, Min Tao, Feng Yue, Wei Hong, Su Feng, Naihe Jing","doi":"10.1016/j.jgg.2025.02.007","DOIUrl":"10.1016/j.jgg.2025.02.007","url":null,"abstract":"Alzheimer's disease (AD), the most prevalent form of dementia, disproportionately affects the elderly population. While aging is widely recognized as a major risk factor for AD, the precise mechanisms by which aging contributes to the pathogenesis of AD remain poorly understood. In our previous work, the neuropathological changes in the brains of aged cynomolgus monkeys (≥18 years old) following parenchymal cerebral injection of amyloid-β oligomers (AβOs) have been characterized. Here, we extend our investigation to middle-aged cynomolgus monkeys (≤15 years old) to establish an AD model. Surprisingly, immunohistochemical analysis reveals no detectable AD-related pathology in the brains of middle-aged monkeys, even after AβOs injection. In a comprehensive pathological analysis of 38 monkeys, we observe that the amyloid-β (Aβ) burden increases significantly with advancing age. Notably, the density of Aβ plaques is markedly higher in the ventral regions compared to the dorsal regions of aged monkey brains. Furthermore, we demonstrate that tau phosphorylation coincides with the accumulation of extensive Aβ plaques and exhibits a positive correlation with Aβ burden in aged monkeys. Collectively, these findings underscore the critical role of the aged brain in providing the necessary conditions for AβO-induced AD pathologies in cynomolgus monkeys.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2025-02-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143524645","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Resolving the spatial and cellular architecture of intra-tumor heterogeneity by multi-region dissection of lung adenocarcinoma.

IF 6.6 2区生物学

Journal of Genetics and Genomics Pub Date : 2025-02-22 DOI: 10.1016/j.jgg.2025.02.006

Song Mei, Xiaolei Wang, Mengmeng Zhao, Qing Huang, Yixuan Huang, Mingming Su, Xinlei Zhang, Xu Wang, Xueyu Hao, Tianning Wang, Yanhua Wu, Yuanhui Ma, Jingnan Wang, Peng Zhang, Yan Zheng

{"title":"Resolving the spatial and cellular architecture of intra-tumor heterogeneity by multi-region dissection of lung adenocarcinoma.","authors":"Song Mei, Xiaolei Wang, Mengmeng Zhao, Qing Huang, Yixuan Huang, Mingming Su, Xinlei Zhang, Xu Wang, Xueyu Hao, Tianning Wang, Yanhua Wu, Yuanhui Ma, Jingnan Wang, Peng Zhang, Yan Zheng","doi":"10.1016/j.jgg.2025.02.006","DOIUrl":"https://doi.org/10.1016/j.jgg.2025.02.006","url":null,"abstract":"Although the spatial characteristics within the tumor microenvironment (TME) of lung adenocarcinoma (LUAD) have been identified, the mechanisms by which these factors promote LUAD progression and immune evasion remain unclear. Using spatial transcriptomics (ST) and single-cell RNA-sequencing (scRNA-seq) data from multi-regional LUAD biopsies, consisting of tumor core, tumor edge and normal area, we sought to delineate the spatial heterogeneity and driving factors of cell co-localization. Two cancer cell sub-clusters (Cancer_c1 and Cancer_c2), associated with LUAD initiation and metastasis respectively, exhibit distinct spatial distributions and immune cell colocalizations. In particular, Cancer_c1, enriched within the tumor core, could directly interact with B cells or indirectly recruit B cells through macrophages. Conversely, Cancer_c2 enriched within the tumor edge exhibits co-localization with CD8+ T cells. Collectively, our work elucidates the spatial distribution of cancer cell subtypes and their interaction with immune cells in the core and edge of LUAD, providing insights for developing therapeutic strategies for cancer intervention.","PeriodicalId":54825,"journal":{"name":"Journal of Genetics and Genomics","volume":" ","pages":""},"PeriodicalIF":6.6,"publicationDate":"2025-02-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143494945","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0