Article
Plant Sciences
Weihuang Wu, Sheng Zhu, Lin Xu, Liming Zhu, Dandan Wang, Yang Liu, Siqin Liu, Zhaodong Hao, Ye Lu, Liming Yang, Jisen Shi, Jinhui Chen
Summary: This study conducted a genome-wide analysis of the WRKY gene family in Liriodendron chinense and found that several WRKY genes respond to cold, heat, or drought stress. The LchiWRKY gene family was divided into three phylogenetic groups, and group II was further divided into five subgroups. The WRKY genes were evenly distributed across 15 chromosomes and showed evidence of tandem duplication. The genes mainly underwent purifying selection and were enriched in certain biological processes and molecular functions. Promoter cis-element analysis revealed their role in environmental adaptability. The study provides important insights into the abiotic stress response of L. chinense and can inform afforestation efforts in China.
Article
Plant Sciences
Xiao Sun, Liming Zhu, Zhaodong Hao, Weihuang Wu, Lin Xu, Yun Yang, Jiaji Zhang, Ye Lu, Jisen Shi, Jinhui Chen
Summary: Liriodendron chinense, a tree species used for landscaping and timber production, is affected by temperature and drought stress. This study identified 5 genes responsible for regulating cytokinin levels in L. chinense, and found that these genes respond to environmental stress. These findings provide a foundation for breeding resistant varieties of this rare and endangered tree species.
Article
Plant Sciences
Mingyue Li, Delight Hwarari, Yang Li, Baseer Ahmad, Tian Min, Wenting Zhang, Jinyan Wang, Liming Yang
Summary: In this study, a comprehensive genome-wide analysis of the bZIP transcription factor family in Liriodendron chinense was conducted. The study identified 45 bZIP transcription factors, classified them into different subgroups, and analyzed their evolutionary relationships. The study also investigated the gene expression patterns and functions of LchibZIP genes in response to cold stress.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Delight Hwarari, Yasmina Radani, Yuanlin Guan, Jinhui Chen, Yang Liming
Summary: The endangered Liriodendron chinense has socio-economic and ecological benefits. GATA transcription factors play a significant role in acclimatization to abiotic stresses in L. chinense. The study identified 18 GATA genes in L. chinense and explored their functions.
Article
Plant Sciences
Guoxia Xue, Lingfeng Hu, Liming Zhu, Ya Chen, Chen Qiu, Ruifang Fan, Xiaoxiao Ma, Zijian Cao, Jinhui Chen, Jisen Shi, Zhaodong Hao
Summary: This study conducted a genome-wide analysis of the CCO gene family in the rare and endangered woody plant Liriodendron chinense and investigated their expression patterns during different developmental processes and in response to abiotic stresses. The results showed that the LcNCED3b gene played a crucial role in somatic embryogenesis and in response to heat, cold, and drought stresses in L. chinense. This study provides valuable information for understanding somatic embryogenesis and improving stress resistance in L. chinense.
Article
Forestry
Ya Chen, Hua Wu, Zhaodong Hao, Liming Zhu, Lu Lu, Jisen Shi, Jinhui Chen
Summary: This study systematically identified and analyzed the SOD gene family of woody plant Liriodendron chinense, and investigated the transcriptional responses of LcSOD genes to abiotic stresses. A total of eight SOD genes were identified and divided into two subgroups. The gene expression analysis revealed the response of LcSOD genes to abiotic stresses, providing potential targets for improving stress tolerance in L. chinense.
Article
Plant Sciences
Yuhao Weng, Xinying Chen, Zhaodong Hao, Lu Lu, Xinru Wu, Jiaji Zhang, Jingxiang Wu, Jisen Shi, Jinhui Chen
Summary: The GRAS gene family in Liriodendron chinense was studied and 49 LcGRAS genes were identified. The expression of LcGRAS genes was mainly observed after the heart-stage embryo development, suggesting their potential role in somatic embryogenesis. Furthermore, the PAT subfamily genes were found to be activated under stress treatment, indicating their involvement in plant adaptation to stress.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Forestry
Rongxue Li, Baseer Ahmad, Delight Hwarari, Dong'ao Li, Ye Lu, Min Gao, Jinhui Chen, Liming Yang
Summary: In this study, a genome-wide survey of bHLH transcription factors in Liriodendron chinense was conducted, and 91 LcbHLH family members were identified. Further analysis revealed that LcbHLH genes may play a role in cold-responsive processes in L. chinense. These findings provide fundamental information on the regulatory mechanisms of plant development and cold stress response.
Article
Plant Sciences
Shilei Luo, Guobin Zhang, Zeyu Zhang, Zilong Wan, Zeci Liu, Jian Lv, Jihua Yu
Summary: In this study, six members of the CsBZR gene family were identified in the cucumber genome. It was found that CsBZR genes are involved in regulating cucumber growth and development, especially in hormone response and response to abiotic stress.
Article
Biochemistry & Molecular Biology
Yu-Jie Ke, Qing-Dong Zheng, Ya-He Yao, Yue Ou, Jia-Yi Chen, Meng-Jie Wang, Hui-Ping Lai, Lu Yan, Zhong-Jian Liu, Ye Ai
Summary: This study identified a total of 136 CeMYB transcription factors from C. ensifolium, which belong to different subfamilies and are distributed on 18 chromosomes. The analysis showed that CeMYBs may have various biological functions and play a role in flower color variation. Further investigations are needed to understand the potential function of CeMYB genes in anthocyanin biosynthesis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Junpeng Wu, Yaxian Zong, Zhonghua Tu, Lichun Yang, Wei li, Zhengkun Cui, Ziyuan Hao, Huogen Li
Summary: This study identified XTH genes in L. chinense, with 6 genes significantly responding to drought stress, especially LcXTH21. Functional analysis showed that LcXTH21 may play a role in drought resistance by promoting root development. These findings provide new insights into the roles of XTH genes in the drought stress response.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Chen Qiu, Jinhui Chen, Weihuang Wu, Bojun Liao, Xueyan Zheng, Yong Li, Jing Huang, Jisen Shi, Zhaodong Hao
Summary: The COBRA gene in the rare and endangered woody plant Liriodendron chinense was found to encode a plant-specific glycosylphosphatidylinositol (GPI)-anchored protein (GAP) that plays a crucial role in cellulose deposition in the cell wall. The study identified 7 COBRA-like (COBL) genes in the plant's genome, which were divided into two subfamilies, SF I and SF II. The expression patterns of these genes showed tissue-specific expression, with LcCOBL5 highly expressed in the phloem and xylem, indicating its potential role in cellulose biosynthesis. Furthermore, three LcCOBL genes (LcCOBL3, LcCOBL4, and LcCOBL5) were found to respond to abiotic stresses such as cold, drought, and heat stress, suggesting their involvement in stress responses.
Article
Plant Sciences
Xinru Wu, Junjie Zhu, Xinying Chen, Jiaji Zhang, Lu Lu, Zhaodong Hao, Jisen Shi, Jinhui Chen
Summary: This study identifies five members of the PYL gene family in the endangered tree species Liriodendron chinense. These genes are found to play important roles in response to various abiotic and biotic stresses, as demonstrated by transcriptome data and qPCR analysis. The subcellular localization of these stress-responsive genes is also determined. These findings provide insights into the function of PYL genes in this elite tree species and the molecular mechanism of Liriodendron hybrid in coping with stresses.
Article
Plant Sciences
Dina Liu, Chunsun Gu, Zekai Fu, Zhiquan Wang
Summary: In this study, 204 MYB proteins were identified in the Hibiscus hamabo genome and analyzed based on their genomic sequence and transcriptomic data. These MYB proteins were divided into 28 subfamilies based on their phylogenetic relationships and motif patterns. Expression analysis suggested that most HhMYBs are differentially regulated under drought and salt stresses, indicating their potential roles in stress responses and hormone regulation.
Review
Biochemistry & Molecular Biology
Xiaopei Wang, Yanli Niu, Yuan Zheng
Summary: Plants face a more volatile environment due to their immobility, prompting the development of efficient mechanisms to adapt to stress. MYB transcription factors, a widespread family in plants, play critical roles in plant development and responses to stresses. Multiple studies have shown that MYB proteins are involved in diverse roles in responses to abiotic stresses, but their regulatory mechanism is still not well understood.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Plant Sciences
Weihuang Wu, Sheng Zhu, Lin Xu, Liming Zhu, Dandan Wang, Yang Liu, Siqin Liu, Zhaodong Hao, Ye Lu, Liming Yang, Jisen Shi, Jinhui Chen
Summary: This study conducted a genome-wide analysis of the WRKY gene family in Liriodendron chinense and found that several WRKY genes respond to cold, heat, or drought stress. The LchiWRKY gene family was divided into three phylogenetic groups, and group II was further divided into five subgroups. The WRKY genes were evenly distributed across 15 chromosomes and showed evidence of tandem duplication. The genes mainly underwent purifying selection and were enriched in certain biological processes and molecular functions. Promoter cis-element analysis revealed their role in environmental adaptability. The study provides important insights into the abiotic stress response of L. chinense and can inform afforestation efforts in China.
Review
Biochemistry & Molecular Biology
Delight Hwarari, Yuanlin Guan, Baseer Ahmad, Ali Movahedi, Tian Min, Zhaodong Hao, Ye Lu, Jinhui Chen, Liming Yang
Summary: Plants have evolved complex mechanisms to adapt to cold stress, regulated by the ICE-CBF-COR signaling pathway. This pathway regulates the expression of transcription factors and proteins, enhancing cold stress tolerance in plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Biochemistry & Molecular Biology
Lingfeng Hu, Ruifang Fan, Pengkai Wang, Zhaodong Hao, Dingjie Yang, Ye Lu, Jisen Shi, Jinhui Chen
Summary: In this study, 52 AAAP genes were identified and classified in the L. chinense genome. These genes play a role in the development of the plant, nectary, and somatic embryogenesis. The LcAAAP gene family is also involved in the resistance to low temperature, drought, and heat stresses. These findings provide valuable insights into the biological role of LcAAAP genes and the improvement of stress resistance in Liriodendron.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Entomology
Xuanyu He, Zhaodong Hao, Hui Li, Tian Xu, Ruixu Chen, Xiaohong Xia, Shouyin Li, Dejun Hao
Summary: Understanding the mechanisms of insect resistance to plant chemical defenses can shed light on plant-insect interactions. The study investigated the fumigant toxicity of various monoterpenes on Monochamus alternatus larvae, finding that (+)-alpha-pinene had the highest toxicity. Transcriptome analysis revealed differentially expressed genes related to detoxification, energy, and protein metabolism.
JOURNAL OF APPLIED ENTOMOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hui Wei, Ali Movahedi, Songzhi Xu, Yanyan Zhang, Guoyuan Liu, Soheila Aghaei-Dargiri, Mostafa Ghaderi Zefrehei, Sheng Zhu, Chunmei Yu, Yanhong Chen, Fei Zhong, Jian Zhang
Summary: This study provides a comprehensive analysis of the profiles and functions of the PtFAD gene family in poplar. PtFAD genes play vital roles in plant growth, development, and response to environmental stresses. Specifically, the PtFAD3/7/8 genes are key regulators in the conversion of linoleic and linolenic acids under osmotic stress.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Forestry
Liwei Yang, Sheng Zhu
Summary: The concentration gradient distribution of auxin in the stems of woody species plays a crucial role in cambial cell development. This study used exogenous IAA treatments to investigate the mechanism of this gradient distribution and identified the regulatory network involving genes and hormones.
Article
Biochemistry & Molecular Biology
Lu Meng, Siyuan Chen, Dawei Li, Minren Huang, Sheng Zhu
Summary: The NAC gene family plays an important role in poplar, but there have been few studies on this topic. In this study, 170 NAC genes were identified in the poplar genome and divided into 20 subgroups. It was found that the expansion of NAC genes in poplar was mainly due to gene duplication events. In addition, 10 drought-related NAC genes were also identified. These findings provide genomic information for further research on poplar NAC genes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Dandan Wang, Xiaoxiao Ma, Zhaodong Hao, Xiaofei Long, Jisen Shi, Jinhui Chen
Summary: In this study, it is reported that overexpression of the WOX5 gene from Liriodendron hybrid (LhWOX5) in Arabidopsis leads to significant morphological changes in both the aerial and subterranean organs. Overexpression of LhWOX5 results in the production of ectopic floral meristems and leaves in the aerial parts, and alters root apical meristem morphology in the root. The abnormal phenotypes caused by LhWOX5 overexpression mimic the phenotypes observed when overexpressing AtWUS and AtWOX5 in Arabidopsis.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Zhaodong Hao, Hua Wu, Renhua Zheng, Rui Li, Zeli Zhu, Ya Chen, Ye Lu, Tielong Cheng, Jisen Shi, Jinhui Chen
Summary: The plant peptide hormone PSK can significantly improve the efficiency of somatic embryogenesis and induce this process in recalcitrant genotypes. It helps to maintain ROS homeostasis by decreasing the activity of peroxidases, thus promoting the expression of SE-related genes. Moreover, overexpression of the PSK gene in Arabidopsis enhances somatic embryogenesis and resistance to H2O2 stress.
Article
Biochemistry & Molecular Biology
Xueli Zhang, Haoran Wang, Ying Chen, Minren Huang, Sheng Zhu
Summary: In this study, 210 R2R3-MYB genes were identified in the Populus trichocarpa genome, which were unevenly distributed across all 19 chromosomes. Evolutionary analysis revealed rapid expansion of these genes, with whole-genome duplication events as the main factor. Subcellular localization assays showed that poplar R2R3-MYB TFs mainly functioned in the nucleus. The study provides valuable insights for further understanding of drought-responsive R2R3-MYB genes in poplar and supports the development of drought-tolerant poplar genotypes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Lu Lu, Anna Holt, Xinying Chen, Yang Liu, Steffen Knauer, Elise J. J. Tucker, Ananda Kumar Sarkar, Zhaodong Hao, Farshad Roodbarkelari, Jisen Shi, Jinhui Chen, Thomas Laux
Summary: Many plant species have the ability to produce embryos from somatic cells with hormone treatment, showing the developmental plasticity of differentiated plant cells. However, the reasons why some species are unable to form somatic embryos remains unknown, which is a challenge for agriculture where somatic embryogenesis is used for propagating desired genotypes. The micro-RNA394 (miR394) enhances somatic embryogenesis in Arabidopsis thaliana by silencing the target gene LEAF CURLING RESPONSIVENESS (LCR).
Article
Biochemistry & Molecular Biology
Yaolin Wang, Heng Zhang, Sheng Zhu, Tengfei Shen, Huixin Pan, Meng Xu
Summary: This study performed genomic resequencing on 64 24-year-old hybrid poplar trees and conducted association analyses to uncover the genetic architecture underlying growth and woody traits. A total of 1342 significantly associated SNPs were identified, with 673 located in the regulatory regions of protein-encoding genes. Additionally, a transcriptional regulation network of secondary cell wall biosynthesis was constructed, providing insights into poplar timber formation mechanism and molecular-assisted breeding.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Xueli Zhang, Haoran Wang, Ying Chen, Minren Huang, Sheng Zhu
Summary: The R2R3-MYB genes in plants have a vital role in the drought-responsive signaling pathway. While many R2R3-MYB S21 and S22 subgroup genes in Arabidopsis have been studied in relation to dehydration, little is known about the role of these genes in poplar under drought conditions. This study selected the PdMYB2R089 and PdMYB2R151 genes, belonging to the S21 and S22 subgroups of NL895, and examined their functions in plant responses to drought stress through genetic transformation of Arabidopsis thaliana. The results suggest that PdMYB2R089 and PdMYB2R151 genes might have the potential to enhance drought adaptability in plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Forestry
Sheng Zhu, Heng Zhang, Siyuan Chen, Lei Zhang, Minren Huang
Summary: This study presents an automatic image-based workflow to accurately estimate leaf morphological characteristics from a large dataset of plant images. The study found that certain image segmentation methods outperformed others in terms of efficiency and accuracy. This research highlights the importance of high-quality and high-throughput image-based phenotyping, and provides guidance for the practical application of suitable image-based technologies in biological and ecological research.
Article
Biochemistry & Molecular Biology
Yaolin Wang, Zesen Wang, Sheng Zhu, Huixin Pan, Changjun Ding, Meng Xu
Summary: In this study, longitudinal genetic analysis on height and diameter at breast height (DBH) in eleven-year poplar clones was conducted using ultra-deep sequencing datasets. Four S-shaped growth models were compared, and the best-fitting growth model (Richard) was constructed. This study provides some scientific clues for temporal variation of longitudinal growth traits in Populus species.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)