Article
Plant Sciences
Rui Xi, Huifang Liu, Yijia Chen, Hongmei Zhuang, Hongwei Han, Hao Wang, Qiang Wang, Ning Li
Summary: This study identified and analyzed the tomato FAD gene family based on bioinformatics analysis methods, revealing their crucial regulatory role in the resistance process of plant biomembranes. The study also explored the expression characteristics and protein interaction network of SlFAD genes, providing a basis for further understanding their functional characteristics.
Article
Microbiology
David Arranz-Solis, David Warschkau, Benedikt T. Fabian, Frank Seeber, Jeroen P. J. Saeij
Summary: Toxoplasma gondii oocysts, shed in feces from infected felines, are highly infectious and can survive in the environment for years. The oocysts have a stable and highly infectious nature, but their ability to resist environmental stressors is not fully understood.
Article
Agronomy
Qiwen Cen, Lihua Kang, Danni Zhou, Xian Zhang, Quanxiang Tian, Xiaoqin Zhang, Wangshu Mou, Cong Dang, Yunxia Fang, Dawei Xue
Summary: This study performed a comprehensive analysis of the RCC1 gene family in rice, identifying 26 OsRCC1 genes distributed across 10 chromosomes. The OsRCC1 family was classified into six groups based on phylogenetic relationship and sequence composition. Gene duplication analysis indicated that segmental duplication was the main contributor to the expansion of the RCC1 gene family in rice. The study also explored the expression patterns of OsRCC1 genes during developmental stages and under abiotic stress conditions, revealing their potential roles in both development and abiotic stress response.
Article
Biochemistry & Molecular Biology
Yanming Ma, Xiangyan Zhou, Ziliang Liu, Bing Wu
Summary: In this study, six StSRO genes were identified and comprehensively analyzed. The distribution of StSRO genes on different chromosomes was irregular, and their promoter sequences contained cis-acting elements related to hormones and stress responses. Through transcriptome analysis and qRT-PCR analysis, it was found that StSRO genes could respond to different abiotic conditions with different expression levels.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Yixiu Yao, Li Jia, Yuan Cheng, Meiying Ruan, Qingjing Ye, Rongqing Wang, Zhuping Yao, Guozhi Zhou, Jia Liu, Jiahong Yu, Peng Zhang, Yuhe Yin, Weiping Diao, Hongjian Wan
Summary: This study identified and analyzed the members of the CCO gene family in pepper and other plants using bioinformatics methods. A total of 158 CCO genes were found, which were further divided into two groups. Results from RNA-seq and qRT-PCR experiments showed that CaCCO genes in pepper responded to H2O2 and other abiotic stresses, indicating their important roles in plant stress responses.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Lili Nian, Xiaoning Zhang, Xingyu Liu, Xiaodan Li, Xuelu Liu, Yingbo Yang, Fasih Ullah Haider, Xiaolin Zhu, Biao Ma, Zixuan Mao, Zongyang Xue
Summary: This study provided a comprehensive analysis of the BBX gene family in Melilotus albus, including gene identification, phylogenetic classification, conservation motif analysis, etc. It was found that these genes exhibited different expression patterns under salt, cold, and dark stresses, suggesting their potential roles in abiotic stress responses.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Genetics & Heredity
Jianbo Song, Hanyi Mao, Jie Cheng, Yong Zhou, Rongrong Chen, Liming Zeng, Hua Li, Yihua Wang
Summary: This study identified 11 MtTPS genes in the genome of Medicago truncatula, divided into two subfamilies, and found that five of them could be induced by drought, salt or cold stresses, providing a foundation for further research on the regulatory function of TPS genes in response to abiotic stresses.
Article
Multidisciplinary Sciences
Wei Dong, Jian Tu, Wei Deng, Jianhua Zhang, Yuran Xu, Anyu Gu, Hua An, Kui Fan, Rui Wang, Jianping Zhang, Limei Kui, Xiaolin Li
Summary: In this study, the OsDUF506 gene family in rice was identified and classified based on phylogenetic relationship. The analysis showed that OsDUF506 genes play important roles in hormone regulation and abiotic stress response, and they are conserved across rice and other monocot species. These findings provide valuable insights for future crop breeding.
Article
Horticulture
Ping Zhou, Huiyan Jiang, Jingwen Li, Qijiang Jin, Yanjie Wang, Yingchun Xu
Summary: The functional study of BZR transcription factors in lotuses is reported for the first time in this study. Gene structure and promoter cis-acting element analysis indicated that the BZR1 gene of the lotus plays an important role in responding to abiotic stress. qRT-PCR results further confirmed the significant role of lotus BZR1 genes in hormone signal response and abiotic stress resistance.
Article
Genetics & Heredity
Weibo Geng, Yanan Wang, Jing Zhang, Zhonghui Liu, Xingyun Chen, Liting Qin, Long Yang, Heng Tang
Summary: This study systematically investigated the NtLEA gene family in tobacco and identified 123 NtLEA genes, which were analyzed in detail. The study found that these genes showed significant induced expression under two different abiotic stresses and exhibited different expression patterns. Additionally, the majority of NtLEA proteins were shown to have the potential function to enhance tobacco resistance to abiotic stress.
Article
Plant Sciences
LiTing Ma, Ting Zhu, HaiRong Wang, Hao Zhou, LeiLei Shao, Qin Ding, DaZhong Zhang, LingJian Ma
Summary: Late embryogenesis-abundant (LEA) proteins, important gene products in plants, play crucial roles in regulating growth, development, and stress responses. In the study on Brachypodium distachyon L., 67 BdLEAs were identified, categorized into six subfamilies, with majority involved in stress response. This research sheds light on the characteristics and evolutionary aspects of BdLEA family, facilitating future functional studies on these proteins in model plant B. distachyon.
FUNCTIONAL PLANT BIOLOGY
(2021)
Article
Plant Sciences
Waqar Khan, Ahmed M. El-Shehawi, Fayaz Ali, Murad Ali, Mohammed Alqurashi, Mohammed M. Althaqafi, Siraj B. Alharthi
Summary: Laccase-like multi-copper oxidases (LMCOs) are enzymes that oxidize various substrates by linking four-electron reduction of O-2 to water. They have practical applications in biology. The study investigated the LMCO gene family (Br-Lac) and identified 18 members located on five chromosomes. Phylogenetic analysis classified the genes into seven groups. Certain genes in the family responded positively to abiotic stresses. The study provides important insights into the functional diversity of LMCO genes in B. rapa.
Article
Biochemistry & Molecular Biology
Zhihui Yin, Fangwei Zhou, Yingnan Chen, Huaitong Wu, Tongming Yin
Summary: In this study, 36 expansin genes were identified in the Populus genome, and their molecular structure, chromosome localization, evolutionary relationships, and tissue specificity were analyzed. The study found that these genes were differentially expressed in different tissues and were closely associated with plant development and responses to phytohormone and abiotic stress. This study provides a basis for future functional research on the expansin gene family in Populus.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
Dongzhu Jiang, Maoqin Xia, Haitao Xing, Min Gong, Yajun Jiang, Huanfang Liu, Hong-Lei Li
Summary: In this study, a total of 25 ZoHSF genes were identified in the ginger genome, which were unevenly distributed across ten chromosomes. The ZoHSF genes were divided into three groups, and more collinear gene pairs were found between ZoHSF and HSF genes from monocots compared to dicots. Additionally, ZoHSF genes showed differential expression across different tissues and responsiveness to heat and drought stress. This study lays the foundation for further investigations into the functional role of ZoHSFs in regulating abiotic stress responses in ginger.
Article
Plant Sciences
Bachar Dahro, Yue Wang, Ahmed Alhag, Chunlong Li, Dayong Guo, Ji-Hong Liu
Summary: Sucrose hydrolysis is important for plant tolerance to abiotic stresses, with INV enzymes playing a key role in this process. The study identified 14 non-redundant PtrINV family members in P. trifoliata, with A/NINV7 being central in response to abiotic stresses. High accumulation of sugars and increased soluble INV enzyme activities were correlated with cold tolerance in citrus plants. This research provides a foundation for future studies on the physiological role of INV genes in abiotic stress responses.
Article
Plant Sciences
Qi Yang, Xue-Min Han, Jin-Ke Gu, Yan-Jing Liu, Mao-Jun Yang, Qing-Yin Zeng
Article
Biochemistry & Molecular Biology
Qi Yang, Yan-Jing Liu, Qing-Yin Zeng
BIOCHEMICAL SYSTEMATICS AND ECOLOGY
(2019)
Article
Plant Sciences
Jie Gao, Zhi-Long Liu, Wei Zhao, Kyle W. Tomlinson, Shang-Wen Xia, Qing-Yin Zeng, Xiao-Ru Wang, Jin Chen
Summary: Understanding the demographic dynamics and environmental heterogeneity effects on genomic variation of forest species is crucial for predicting their ability to adapt to climate change. This study on Quercus acutissima combined a common garden experiment with population genomics analyses, revealing a late Pleistocene divergence, population expansion events, and local adaptation patterns in response to east-west differentiation and environmental factors. The study also showed that environment played a significant role in determining non-neutral and phenotypic variation, alongside geographic factors.
JOURNAL OF SYSTEMATICS AND EVOLUTION
(2021)
Article
Plant Sciences
Peng-Fei Jiang, Hui Xu, Chao-Nan Guan, Xiao-Xia Wang, Ai-Min Wu, Yan-Jing Liu, Qing-Yin Zeng
Summary: This study identified two duplicated genes, MYB158 and MYB189, from Populus tomentosa that originated from a whole genome duplication event. Both genes play a role in negatively regulating secondary cell wall biosynthesis, but MYB158 has a more crucial role in directly regulating the NAC master switch. These findings provide insights into the evolutionary and functional divergence of duplicated genes derived from whole genome duplication.
JOURNAL OF SYSTEMATICS AND EVOLUTION
(2022)
Article
Biochemistry & Molecular Biology
Xue Yang, Zhihai Wu, Jie Gao
Summary: The relative position of domains is crucial for enzymatic properties of tau class glutathione S-transferases, and altering the position of the linker region away from the active center can affect catalytic properties. Key hydrogen bonds and salt bridges were found to play important roles in maintaining the relative position between the domains and linker region within the protein. Mutational studies revealed significant changes in substrate activity and kinetic parameters, highlighting the importance of structural stability in maintaining enzyme function.
PLANT MOLECULAR BIOLOGY
(2021)
Article
Plant Sciences
Ting Lan, Xiaoyu Yang, Jiwei Chen, Peng Tian, Lina Shi, Yu Yu, Lin Liu, Lei Gao, Beixin Mo, Xuemei Chen, Guiliang Tang
Summary: This study provides a comprehensive analysis of the evolution and functions of the MIR2118 family in grasses, revealing a significant expansion of MIR2118 genes and the crucial role of phasiRNAs in regulating male fertility. Phylogenetic and PARE analyses shed light on the evolutionary history of MIR2118 genes and their regulatory mechanisms in rice.
Article
Plant Sciences
Ting Lan, Wei Xiong, Xuemei Chen, Beixin Mo, Guiliang Tang
Summary: Standardized naming systems are crucial for integrating and unifying various research fields and linking data across different kingdoms. Despite not being widely adopted in the plant community, a comprehensive survey of CRPs in Arabidopsis thaliana and rice highlighted the evolution and characteristics of plant CRP genes. This study emphasizes the importance of a standardized framework for sharing knowledge and promoting research development in the plant community.
Article
Biochemistry & Molecular Biology
Chao Sun, Yun-Hui Xie, Zhen Li, Yan-Jing Liu, Xiao-Mei Sun, Jing-Jing Li, Wei-Peng Quan, Qing-Yin Zeng, Yves van de Peer, Shou-Gong Zhang
Summary: By using single-molecule real-time sequencing, researchers obtained a high-quality genome sequence of the Japanese larch and discovered key genes associated with adaptive evolution and wood properties.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Chao Liang, Qiang Cai, Fei Wang, Shaofang Li, Chenjiang You, Chi Xu, Lei Gao, Dechang Cao, Ting Lan, Bailong Zhang, Beixin Mo, Xuemei Chen
Summary: This study identifies RBV, an evolutionarily conserved nuclear WD40 domain protein, as a player in miRNA biogenesis. RBV promotes MIR transcription, pri-miRNA processing, and miRNA loading into AGO1. Additionally, a global splicing defect is observed in the mutant.
NATURE COMMUNICATIONS
(2022)
Article
Plant Sciences
Dongmei Guo, Hanyan Wang, Shumin Zhang, Ting Lan
Summary: This study provides new insights into the classification, origin, and evolutionary history of the type III polyketide synthase (PKS) supergene family through molecular evolutionary analysis and phylogenomics analysis. The results showed strong positive natural selection in the Pinaceae and Fabaceae lineages, and positively selected sites in the proteins might have driven the functional divergence between the two types. The study also revealed the common occurrence of convergent evolution in enzymes involved in plant flavonoid biosynthesis.
Article
Forestry
Jenjira Fungjanthuek, Man-Juan Huang, Alice C. Hughes, Jian-Feng Huang, Huan-Huan Chen, Jie Gao, Yan-Qiong Peng
Summary: This study used the ecological niche model MAXENT to evaluate habitat suitability and predict potential habitats for two fig species in the Xishuangbanna region of China. The results showed that key variables influencing habitat suitability differ for the two species, and suitable distribution areas may decrease in the future. Specific actions are needed to conserve these species.
Article
Plant Sciences
Jie Gao, Kyle W. W. Tomlinson, Wei Zhao, Baosheng Wang, Ralph Sedricke Lapuz, Jing-Xin Liu, Bonifacio O. O. Pasion, Bach T. T. Hai, Souvick Chanthayod, Jin Chen, Xiao-Ru Wang
Summary: Through studying the population genetic structure and diversity of two pine species, it is found that tropical pine species and subtropical pine species have different evolutionary processes and distribution ranges under the influence of past climate change in SEA. The subtropical Pinus yunnanensis shows significant gene flow, while the tropical Pinus kesiya exhibits strong population structure. There is a wide hybrid zone between the two species in southern Yunnan. Predictions indicate that the range of Pinus kesiya will decrease under future climate change. This study highlights the different evolutionary trajectories of pine species in SEA compared to high latitude species, emphasizing the urgent need for conservation efforts in this fragmented landscape.
JOURNAL OF SYSTEMATICS AND EVOLUTION
(2023)
Letter
Biochemistry & Molecular Biology
M. Regina Scarpin, Michael Busche, Ryan E. Martinez, Lisa C. Harper, Leonore Reiser, Dora Szakonyi, Catharina Merchante, Ting Lan, Wei Xiong, Beixin Mo, Guiliang Tang, Xuemei Chen, Julia Bailey-Serres, Karen S. Browning, Jacob O. Brunkard
Review
Entomology
Yiyi Dong, Jie Gao, Jiri Hulcr
Summary: Invasive wood borers pose a threat to global forests and tree-related industries. Reports of damages caused by wood borers on plants planted overseas can help identify potential invaders and speed up risk assessment. However, language barriers, lack of digitization, and limited circulation of literature hinder the availability of this information to the international plant protection community.
ENVIRONMENTAL ENTOMOLOGY
(2023)
Article
Forestry
David Hall, Wei Zhao, Alisa Heuchel, Jie Gao, Ulfstand Wennstro, Xiao-Ru Wang
Summary: A study found that external pollination and fecundity variation can influence the genetic composition and autumn frost hardiness of seed orchards. The study also observed that the origin of parental genotypes affects the freeze damage levels of the seedlings. Therefore, the origin of orchard parents, mating composition, and orchard environment all play a role in the quality and climate adaptation of seed crops.
FOREST ECOLOGY AND MANAGEMENT
(2023)