Article
Plant Sciences
Shuzhen Jiao, Fanwei Zeng, Yaping Huang, Libing Zhang, Juan Mao, Baihong Chen
Summary: The study found that grafting onto 1103P enhanced drought tolerance in grape by improving water content, photosynthesis, and antioxidant defense capacity, providing valuable information for understanding the mechanisms of drought tolerance regulated by grafting plants.
Article
Plant Sciences
Xiuming Zhang, Jiahui Ma, Shijin Yang, Wenkong Yao, Ningbo Zhang, Xinyi Hao, Weirong Xu
Summary: This study identified and analyzed the GATA gene family in grapevine. It revealed the distribution and regulation of VviGATA genes on grapevine chromosomes and their response to environmental stimuli and hormones. Additionally, the study investigated the function of heterologously expressed GATA genes in cold-resistant grapevine.
Article
Plant Sciences
Xu Lu, Lei Ma, Congcong Zhang, Haokai Yan, Jinyu Bao, Meishuang Gong, Wenhui Wang, Sheng Li, Shaoying Ma, Baihong Chen
Summary: Our study found that alkali stress had more adverse effects on grapevine leaves, chloroplast structure, ion balance, and photosynthesis than salt stress. The transcriptional and metabolic profiling revealed significant differences in the effects of salt stress and alkali stress on key gene expression and metabolite abundance in grapevine plants.
Article
Biochemistry & Molecular Biology
Dongwon Baek, Hyun Min Cho, Ye Jin Cha, Byung Jun Jin, Su Hyeon Lee, Mi Suk Park, Hyun Jin Chun, Min Chul Kim
Summary: The calmodulin-binding transcription activators (CAMTAs) play important roles in the regulation of development and stress responses in plants. In this study, we investigated the expression patterns of 15 GmCAMTA genes in response to abiotic stresses in soybean. Our results showed that the GmCAMTA genes were regulated by circadian rhythms and exhibited different expression patterns under salt, drought, and cold stresses. We also found that GmCAMTA2 and GmCAMTA8 function as negative regulators in development and drought stress responses.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Lucas Borges dos Santos, Alexandre Hild Aono, Felipe Roberto Francisco, Carla Cristina da Silva, Livia Moura Souza, Anete Pereira de Souza
Summary: In this study, the researchers identified and characterized the protein kinase (PK) superfamily in the Hevea genome, providing insights into the cell regulation mechanisms under various conditions. The study revealed that there are 2,842 PK genes in the Hevea genome, classified into 20 groups and 122 families. Through the investigation of gene duplication, transposable elements, gene expression patterns, and coexpression events, the researchers gained understanding of the cell regulation mechanisms in response to different conditions, which is important for rubber yield.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Xinna Liu, Haiyang Chen, Shenchang Li, David Lecourieux, Wei Duan, Peige Fan, Zhenchang Liang, Lijun Wang
Summary: Heat stress limits the growth and development of crops, including grapevine. Two heat stress transcription factors, VdHSFA2 and VvHSFA2, were identified and characterized. VdHSFA2 confers higher thermotolerance and can regulate more target genes than VvHSFA2, making it a potential candidate for molecular breeding in grape thermotolerance.
HORTICULTURE RESEARCH
(2023)
Article
Endocrinology & Metabolism
Ping Zou, Matthew A. Scoggins, Yimei Li, Melissa Jones, Kathleen J. Helton, Robert J. Ogg
Summary: The study found that resting cerebral blood flow decreases exponentially with age, while the absolute and fractional cerebral blood flow and BOLD signals during visual stimulation increase with age. This suggests that neural hemodynamic coupling in the visual cortex remains stable after age six, but age-related changes in BOLD signals continue through adolescence due to changes in resting cerebral blood flow.
JOURNAL OF CEREBRAL BLOOD FLOW AND METABOLISM
(2021)
Article
Plant Sciences
Takashi Asaeda, Mizanur Rahman, Liping Xia, Jonas Schoelynck
Summary: This study investigates the response of submerged plants to high light and iron stress through experiments and observations. The concentration of hydrogen peroxide is found to be a good indicator of environmental stressors and can be used instead of long-term growth monitoring in macrophyte management.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Silvia Dal Santo, Emanuele De Paoli, Chiara Pagliarani, Alessandra Amato, Mirko Celii, Paolo Boccacci, Sara Zenoni, Giorgio Gambino, Irene Perrone
Summary: Genetic and epigenetic factors play critical roles in somatic embryogenesis (SE) in grapevine, with upregulation of epigenetic-related transcripts and short interfering RNAs associated with DNA hypermethylation observed during embryonic callus formation. Additionally, genotype-specific transcriptomic differences and stress response genes may influence SE competence and provide insights for biotechnological applications in fruit crop breeding.
Article
Plant Sciences
Na Ding, Raul Huertas, Ivone Torres-Jerez, Wei Liu, Bonnie Watson, Wolf-Rudiger Scheible, Michael Udvardi
Summary: This study found that switchgrass responds to phosphorus limitation by affecting overall plant growth, root/shoot ratio, root branching and gene transcription, with stress-induced genes involved in transcriptional regulation, metabolism, and transport processes associated with phosphorus acquisition and homeostasis. Metabolite profiling also revealed changes in levels of sugars, organic acids and amino acids under different levels of phosphorus stress.
PLANT CELL AND ENVIRONMENT
(2021)
Review
Plant Sciences
Maryam Foroozani, Matthew P. Vandal, Aaron P. Smith
Summary: The H3K4me3 histone mark in plants plays a crucial role in regulating gene expression and transcriptional memory, affecting various developmental processes and stress responses.
Article
Environmental Sciences
Yuxian Yang, Xiang Fang, Mengxia Chen, Lingyu Wang, Jiaxin Xia, Zicheng Wang, Jinggui Fang, Lam -Son Phan Tran, Lingfei Shangguan
Summary: This study found that aminolevulinic acid (ALA) can alleviate stress response in grapevines under copper stress by regulating copper ion absorption, chlorophyll metabolism, and antioxidant pathways. Changes in gene expression also play a vital role in these processes. Moreover, ALA reduces the content of abscisic acid, further confirming its alleviative effect.
ENVIRONMENTAL POLLUTION
(2022)
Article
Plant Sciences
Magda Grabsztunowicz, Marjaana Rantala, Aiste Ivanauskaite, Tiina Blomster, Minna M. Koskela, Katariina Vuorinen, Esa Tyystjarvi, Meike Burow, Kirk Overmyer, Ari P. Mahonen, Paula Mulo
Summary: The study reveals the distinct expression patterns and accumulation locations of RFNR1 and RFNR2 in response to different stresses in Arabidopsis, indicating their essential roles in plant development and survival. Although the functions of RFNR1 and RFNR2 are partially redundant, both proteins are crucial for plant growth and adaptation to environmental challenges.
PLANT CELL AND ENVIRONMENT
(2021)
Article
Plant Sciences
Pingyin Guan, Wenjing Shi, Michael Riemann, Peter Nick
Summary: The study found that plant microtubules cooperate with the plasma membrane to sense and process abiotic stress signals. Experimental results with grapevine cell lines showed that membrane rigidifiers can trigger defense responses by causing microtubule bundling, while membrane fluidizers enhance gene expression. The data supports a model that deploys specific responses to pathogen-derived signals.
HORTICULTURE RESEARCH
(2021)
Article
Agronomy
Luis Henrique Bassoi, Agnaldo Rodrigues de Melo Chaves, Rafael Pombo Teixeira
Summary: The study found that deficit irrigation strategies can save water resources while also having a certain impact on the physiological and yield responses of grapevines.
AGRICULTURAL WATER MANAGEMENT
(2021)
Editorial Material
Plant Sciences
Kaikai Zhu, Yajin Ye
Article
Horticulture
Zhenghai Mo, Yu Chen, Min Zhai, Kaikai Zhu, Jiping Xuan, Longjiao Hu
Summary: A virus-induced gene silencing (VIGS) system based on tobacco rattle virus (TRV) was constructed and optimized for functional genomics studies in pecan. The optimized conditions included the use of a TRV-based vector with a 300 bp target sequence, syringe infiltration method, inoculation of 'Pawnee' or 'Shaoxing' seedlings, and exposure to a temperature cycle of 24 degrees C (day, 12 h)/16 degrees C (night, 12 h). The established VIGS system was successfully used for reverse genetic studies in pecan.
SCIENTIA HORTICULTURAE
(2023)
Article
Forestry
Zhuangzhuang Liu, Pengpeng Tan, Youwang Liang, Yangjuan Shang, Kaikai Zhu, Fangren Peng, Yongrong Li
Summary: This study investigated the potential involvement of DNA methylation in rootstock-induced growth changes in pecan grafts. Whole-genome bisulfite sequencing revealed extensive methylation alterations in the scions, with differentially methylated regions found in different contexts. Several genes with methylation alterations were identified as potentially important for graft growth regulation, particularly in hormone response.
Article
Multidisciplinary Sciences
Miaomiao Li, Tao Yao, Wanru Lin, Will E. E. Hinckley, Mary Galli, Wellington Muchero, Andrea Gallavotti, Jin-Gui Chen, Shao-shan Carol Huang
Summary: This study presents a new method to investigate how proteins interact to regulate gene activity. It reveals that certain proteins can expand their ability to recognize specific DNA sequences when they form complexes, leading to the regulation of a broader range of genes.
NATURE COMMUNICATIONS
(2023)
Article
Forestry
Kaikai Zhu, Lu Wei, Wenjuan Ma, Xiaoli Hu, Juan Zhao, Pengpeng Tan, Hui Liu, Gang Feng, Pinghua Fan, Fangren Peng
Summary: This study analyzed the transcriptome data of pecan trees under drought stress and identified thousands of differentially expressed genes (DEGs) involved in the response to drought. The study also provided insights into the functions of these drought-responsive genes and the molecular basis of pecan's drought stress response.
Article
Plant Sciences
Nathan Bryant, Jin Zhang, Kai Feng, Mengjun Shu, Raphael Ployet, Jin-Gui Chen, Wellington Muchero, Chang Geun Yoo, Timothy J. Tschaplinski, Yunqiao Pu, Arthur J. Ragauskas
Summary: By characterizing a population of 409 naturally varying Populus trichocarpa genotypes, a genome-wide association study identified 756 genes significantly associated with lignin phenotypes, providing insights into the molecular mechanisms of lignin biosynthesis and new targets for genetic improvement in poplar.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Nathan Bryant, Wellington Muchero, Rachel A. Weber, Jaime Barros, Jin-Gui Chen, Timothy J. Tschaplinski, Yunqiao Pu, Arthur J. Ragauskas
Summary: The study found that the lignin content in the cell wall of Populus was significantly increased in the region infected by Septoria, and the composition of lignin in the infected region was also different. These results provide important insights into the wood characteristic changes of Populus during Septoria infection.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Tao Yao, Guoliang Yuan, Haiwei Lu, Yang Liu, Jin Zhang, Gerald A. Tuskan, Wellington Muchero, Jin-Gui Chen, Xiaohan Yang
Summary: The genus Populus is widely used for various purposes and has become a desirable crop for biofuel production and research. Modern biotechnologies, including CRISPR/Cas9, have been applied to improve its genetic and genomic traits. In this study, CRISPRa and CBE technologies were successfully used for gene expression regulation and precise gene engineering in two Populus species.
HORTICULTURE RESEARCH
(2023)
Article
Cell Biology
Him Shrestha, Tao Yao, Zhenzhen Qiao, Wellington Muchero, Robert L. L. Hettich, Jin-Gui Chen, Paul E. E. Abraham
Summary: PtLecRLK1 acts as a susceptibility factor in facilitating root colonization by Laccaria bicolor. It modifies multiple signaling pathways including plant defense, MAPK signaling, phytohormone signaling, ROS balance, endocytosis, cytoskeleton movement, and proteasomal degradation to establish and maintain L. bicolor colonization. Additionally, a cGMP-dependent protein kinase may be implicated as a substrate of PtLecRLK1.
Article
Plant Sciences
Guoliang Yuan, Yang Liu, Tao Yao, Wellington Muchero, Jin-Gui Chen, Gerald A. Tuskan, Xiaohan Yang
Summary: Although CRISPR/Cas-based genome editing has been widely used in plant genetic engineering, its application in tree genetic improvement is limited due to challenges in Agrobacterium-mediated transformation. In this study, the researchers optimized the transformation protocol for eastern cottonwood and successfully applied a UV-visible reporter for non-invasive identification of transgenic events. They also examined the efficacy of CRISPR-based genome editing in poplar protoplasts and found high mutation efficiency in hybrid poplar clone, but no editing events in the eastern cottonwood clone. These findings highlight the potential of the eYGFPuv-assisted transformation and genome editing approach in poplar breeding and the need for further CRISPR research in the eastern cottonwood.
Article
Engineering, Environmental
Jingui Chen, Jinxiu Zhao, Rui Feng, Hongmin Ma, Huan Wang, Xiang Ren, Qin Wei, Huangxian Ju
Summary: A photoelectrochemical aptamer sensor with a Fe2O3/g-C3N4 heterojunction substrate was developed for sensitive detection of Pb2+. The sensor showed good linearity, low detection limit, and stable performance, indicating its potential for the detection of Pb2+.
JOURNAL OF HAZARDOUS MATERIALS
(2023)
Article
Plant Sciences
Tao Yao, Jin Zhang, Timothy B. Yates, Him K. Shrestha, Nancy L. Engle, Raphael Ployet, Cai John, Kai Feng, William Patrick Bewg, Margot S. S. Chen, Haiwei Lu, Scott A. Harding, Zhenzhen Qiao, Sara S. Jawdy, Mengjun Shu, Wenya Yuan, Khadijeh Mozaffari, Anne E. Harman-Ware, Renee M. Happs, Larry M. York, Brad M. Binder, Yuko Yoshinaga, Christopher Daum, Timothy J. Tschaplinski, Paul E. Abraham, Chung-Jui Tsai, Kerrie Barry, Anna Lipzen, Jeremy Schmutz, Gerald A. Tuskan, Jin-Gui Chen, Wellington Muchero
Summary: This study identified PtrXB38 as an expression quantitative trait loci (eQTL) hotspot, with predicted target genes involved in plant hormone responses and root development. Overexpression of PtrXB38 led to increased callusing and the formation of stem-born and base-born adventitious roots in Populus. Omics studies revealed the involvement of genes and proteins controlling auxin transport and signaling in PtrXB38-mediated root formation. Protein-protein interaction assays indicated that PtrXB38 interacts with components of the endocytosis pathway.
Article
Biochemistry & Molecular Biology
Avinash Sreedasyam, Christopher Plott, Md Shakhawat Hossain, John T. Lovell, Jane Grimwood, Jerry W. Jenkins, Christopher Daum, Kerrie Barry, Joseph Carlson, Shengqiang Shu, Jeremy Phillips, Mojgan Amirebrahimi, Matthew Zane, Mei Wang, David Goodstein, Fabian B. Haas, Manuel Hiss, Pierre-Francois Perroud, Sara S. Jawdy, Yongil Yang, Rongbin Hu, Jenifer Johnson, Janette Kropat, Sean D. Gallaher, Anna Lipzen, Eugene Shakirov, Xiaoyu Weng, Ivone Torres-Jerez, Brock Weers, Daniel Conde, Marilia R. Pappas, Lifeng Liu, Andrew Muchlinski, Hui Jiang, Christine Shyu, Pu Huang, Jose Sebastian, Carol Laiben, Alyssa Medlin, Sankalpi Carey, Alyssa A. Carrell, Jin-Gui Chen, Mariano Perales, Kankshita Swaminathan, Isabel Allona, Dario Grattapaglia, Elizabeth A. Cooper, Dorothea Tholl, John P. Vogel, David J. Weston, Xiaohan Yang, Thomas P. Brutnell, Elizabeth A. Kellogg, Ivan Baxter, Michael Udvardi, Yuhong Tang, Todd C. Mockler, Thomas E. Juenger, John Mullet, Stefan A. Rensing, Gerald A. Tuskan, Sabeeha S. Merchant, Gary Stacey, Jeremy Schmutz
Summary: Gene functional descriptions are important for identifying candidate genes involved in trait variation, and plant responses to environmental cues can provide molecular targets for plant improvement. However, many genes across the plant phylogeny lack functional annotations. The Joint Genome Institute (JGI) Plant Gene Atlas is a valuable resource that integrates transcript abundance data from 18 diverse species to identify expression profiles and discover previously undocumented gene functions. The Gene Atlas is accessible through the JGI Plant Gene Atlas and Phytozome websites, allowing users to access differential gene expression, track orthologs, and visualize gene ontology and pathway enrichments.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Plant Sciences
Patricia M. B. Saint-Vincent, Anna Furches, Stephanie Galanie, Erica Teixeira Prates, Jessa L. L. Aldridge, Audrey Labbe, Nan Zhao, Madhavi Z. Z. Martin, Priya Ranjan, Piet Jones, David Kainer, Udaya C. C. Kalluri, Jin-Gui Chen, Wellington Muchero, Daniel A. A. Jacobson, Timothy J. J. Tschaplinski
Summary: Metabolite genome-wide association studies (mGWASs) are important in plant genetics and metabolomics, but there is a lack of experimental validation. This study presents a functional genomics workflow for validating mGWAS-predicted enzyme-substrate relationships. Through high-throughput enzyme activity testing and metabolite screening, the study provides evidence for the role of UGTs in P. trichocarpa and identifies potential implications for sustainable biomass crop production.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Brennan Hyden, Dana L. Carper, Paul E. Abraham, Guoliang Yuan, Tao Yao, Leo Baumgart, Yu Zhang, Cindy Chen, Ronan O'Malley, Jin-Gui Chen, Xiaohan Yang, Robert L. Hettich, Gerald A. Tuskan, Lawrence B. Smart
Summary: In this study, Arabidopsis was used to investigate the sex determination genes and gender dimorphism genes in Salix purpurea. The results suggest that ARR17 and GATA15 may serve as master regulator genes for sex determination in S. purpurea, and two transcription factors may play a role in the downstream regulation of gender dimorphism.