Article
Horticulture
Hao Li, Zhongtian Gao, Chuxuan Tan, Haolang Chen, Mingxi Guo, Simu Liu, Lin Liu, Yu Yu, Jie Cui, Beixin Mo, Lei Gao
Summary: RNA sequencing (RNA-seq) technique is important in analyzing gene expression profiling, transcript variation, and non-coding sequence function. In the field of Capsicum annuum (chili pepper) research, RNA-seq technique has been widely used, resulting in a large number of RNA-seq libraries. To address the challenges faced by researchers in accessing and utilizing these data, an online database called CRS was developed to host 467 publicly available RNA-seq libraries of C. annuum, integrating gene expression, tissue specificity, Gene Ontology terms, and KEGG Orthology information. CRS is expected to facilitate more convenient and efficient exploration of pepper RNA-seq data and enhance our understanding of the pepper genome.
SCIENTIA HORTICULTURAE
(2023)
Article
Biochemistry & Molecular Biology
Daizha Salazar-Gutierrez, Abraham Cruz-Mendivil, Claudia Villicana, Jose Basilio Heredia, Luis Alberto Lightbourn-Rojas, Josefina Leon-Felix
Summary: This study analyzed the transcriptome data of pepper roots under low-phosphorus stress, identifying phosphorus starvation-responsive genes and their relationship with metabolic pathways and functions. Results showed that pepper plants adopt various strategies to cope with low-phosphorus conditions, including remobilization of internal phosphorus, alternative energy metabolism pathways, and regulation of root development.
Article
Biotechnology & Applied Microbiology
Vahid Fallahzadeh-Mamaghani, Samaneh Golchin, Akbar Shirzad, Hamid Mohammadi, Farhad Mohamadivand
Summary: Strain N179, identified as Paenibacillus polymyxa, exhibits strong antagonistic activity against various plant pathogens and can promote the growth of bean, cucumber, wheat, and corn seedlings. Additionally, it has the ability to increase wheat yield and suppress certain phytopathogens in field conditions.
BIOLOGICAL CONTROL
(2021)
Article
Microbiology
Shanyu Lin, Xiaohang Chen, Ling Xie, Yan Zhang, Fenghua Zeng, Yanyan Long, Liyun Ren, Xiuling Qi, Jiguang Wei
Summary: In this study, a bacterial strain AF01 identified as Paenibacillus polymyxa was found to have significant antifungal effects against N. dimidiatum and other pitaya fungal pathogens, making it a potential biocontrol agent for pitaya canker.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Plant Sciences
Alan Flores-Diaz, Christian Escoto-Sandoval, Felipe Cervantes-Hernandez, Jose J. Ordaz-Ortiz, Corina Hayano-Kanashiro, Humberto Reyes-Valdes, Ana Garces-Claver, Neftali Ochoa-Alejo, Octavio Martinez
Summary: Gene co-expression networks are powerful tools for understanding functional interactions between genes. We present an algorithm to construct gene functional networks for genes annotated in a given biological process or other aspects of interest. The algorithm is based on the correlation of time expression profiles and ensures robustness by repeatedly finding gene expression relations in independent genotypes. Additionally, we propose an algorithm to identify transcription factor candidates for regulating hub genes within the network.
Article
Biochemistry & Molecular Biology
Yeonhwa Jo, Hoseong Choi, Jeong Hun Lee, Sang Hyun Moh, Won Kyong Cho
Summary: This study provides a comprehensive overview of viromes in 15 major pepper cultivars through RNA sequencing. Bean broad wilt virus 2 (BBWV2) and cucumber mosaic virus (CMV) were identified as the major viruses infecting pepper plants, with different cultivars showing variations in virus infection and symptoms.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Agronomy
Jinyoung Byun, Tae-Gun Kim, Joung-Ho Lee, Ning Li, Soyoung Jung, Byoung-Cheorl Kang
Summary: This study identified CaAN3 as a regulator of fruit-specific anthocyanin biosynthesis and validated it through molecular mapping and functional experiments.
THEORETICAL AND APPLIED GENETICS
(2022)
Article
Microbiology
Dongying Zhao, Hui Li, Yanru Cui, Shengyue Tang, Chengqiang Wang, Binghai Du, Yanqin Ding
Summary: This study elucidates the transcriptional regulatory mechanisms of the multiple-sugar metabolism regulator MsmR1 in Paenibacillus polymyxa, and reveals its role in regulating processes such as polymyxin synthesis, biofilm formation, and motility.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Plant Sciences
Xuefeng Gong, Yi Xu, Hong Li, Xin Chen, Zhanfeng Song
Summary: The study found that tolerant pepper cultivars did not show significant reduction in growth rate after 5 days of flooding. Physiological data indicated that chlorophyll concentration was not significantly affected by flooding, but stomatal conductance and net photosynthesis rate were altered considerably. Root activity of tolerant varieties was substantially higher after 10 days of flooding, implicating changes in the root environment influencing photosynthesis. The findings suggest that genes related to antioxidase, cell wall synthesis, calcium ion regulation, lignin synthesis, ROS regulation, and stress resistance play a role in waterlogging tolerance in peppers.
Article
Environmental Sciences
Yajie Han, Shengxue Liu, Fulong Chen, Xiaolin Deng, Zhuang Miao, Zhansheng Wu, Bang-Ce Ye
Summary: The strain SCP-7, identified as Pseudomonas sp., was isolated from saline soil in a cotton field and shown to be capable of dissolving mineral tri-calcium phosphate and tri-magnesium phosphate. The strain utilizes organic acids and alkaline phosphatase to solubilize phosphorus, demonstrating potential for enhancing soil phosphorus release and increasing crop yield.
ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH
(2021)
Article
Horticulture
Fumiya Kondo, Yui Kumanomido, Kazuhiro Nemoto, Kenichi Matsushima
Summary: By studying the fruit of the sweet chili pepper 'Shishito', we identified several differentially expressed genes (DEGs) with putative transcriptional regulatory roles that may be involved in the biosynthesis of capsaicinoids, and the expression levels of these DEGs may contribute to the fluctuation of chili pepper pungency.
SCIENTIA HORTICULTURAE
(2022)
Article
Plant Sciences
Tongda Li, Ross Mann, Jatinder Kaur, German Spangenberg, Timothy Sawbridge
Summary: This study used dual RNA-seq analyses to investigate early-stage interactions between barley seedlings and three novel bacterial strains isolated from the perennial ryegrass seed microbiome. The results suggested that the bacterial strains improved stress response, signal transduction, and nutrient uptake and metabolism of barley seedlings. Additionally, potential improvements in seedling root growth and identification of key differences between bacterial strains of the same species in their responses to plants were also observed.
Article
Biotechnology & Applied Microbiology
Na Zhao, Li Yi, Sanguo Ren, Qin Yin, Wei Xiang, Xu Zhang, Bo Xie
Summary: A newly discovered gram-positive algicidal bacterial strain, Paenibacillus polymyxa MEZ6, exhibits high lytic activity towards several algal species. The study investigates the algicidal mechanisms of this strain through genomic and proteomic analyses, revealing the involvement of polysaccharides degradation and antimicrobial secondary metabolite biosynthesis.
JOURNAL OF APPLIED MICROBIOLOGY
(2022)
Article
Agronomy
Sha Yang, Zhuqing Zhang, Wenchao Chen, Xuefeng Li, Shudong Zhou, Chengliang Liang, Xin Li, Bozhi Yang, Xuexiao Zou, Feng Liu, Lijun Ou, Yanqing Ma
Summary: This study utilizes mRNA-miRNA integrated analysis to explore the regulation of key genes by specific miRNAs, shedding light on how heterosis affects traits in Capsicum annuum, such as crop production and fruit characteristics.
GM CROPS & FOOD-BIOTECHNOLOGY IN AGRICULTURE AND THE FOOD CHAIN
(2021)
Article
Biotechnology & Applied Microbiology
Guang Li, Xiaofen Li, Tongfang Zhang, Jia Yu, Hongxiao Hou, Lanhua Yi
Summary: In this study, an antagonist B. amyloliquefaciens S917 was screened and showed good antibacterial activity against P. carotovorum. It also performed well in controlling soft rot of chili pepper.
BIOLOGICAL CONTROL
(2023)
Article
Biotechnology & Applied Microbiology
Jinjin Ma, Chengqiang Wang, Haide Wang, Kai Liu, Tongrui Zhang, Liangtong Yao, Zhou Zhao, Binghai Du, Yanqin Ding
BIOMED RESEARCH INTERNATIONAL
(2018)
Article
Biotechnology & Applied Microbiology
Chengqiang Wang, Yun Wang, Jinjin Ma, Qihui Hou, Kai Liu, Yanqin Ding, Binghai Du
BIOMED RESEARCH INTERNATIONAL
(2018)
Article
Biotechnology & Applied Microbiology
Yuhui Du, Jinjin Ma, Zhiqiu Yin, Kai Liu, Gan Yao, Wenfeng Xu, Lingchao Fan, Binghai Du, Yanqin Ding, Chengqiang Wang
Article
Biotechnology & Applied Microbiology
Hui Li, Yanqin Ding, Jianzhi Zhao, Ruofei Ge, Benhua Qiu, Xiaoli Yang, Liangtong Yao, Kai Liu, Chengqiang Wang, Binghai Du
JOURNAL OF BIOTECHNOLOGY
(2019)
Article
Biotechnology & Applied Microbiology
Fayin Zhu, Chengqiang Wang, Ka-Yiu San, George N. Bennett
JOURNAL OF INDUSTRIAL MICROBIOLOGY & BIOTECHNOLOGY
(2020)
Article
Microbiology
Chengqiang Wang, Dongying Zhao, Guozhen Qi, Zhiquan Mao, Xiuna Hu, Binghai Du, Kai Liu, Yanqin Ding
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Microbiology
Hu Liu, Jun Wang, Huimin Sun, Xiaobin Han, Yulong Peng, Jing Liu, Kai Liu, Yanqin Ding, Chengqiang Wang, Binghai Du
FRONTIERS IN MICROBIOLOGY
(2020)
Article
Microbiology
Zhiqiu Yin, Xin Wang, Yujie Hu, Jikun Zhang, Hui Li, Yanru Cui, Dongying Zhao, Xusheng Dong, Xiaohang Zhang, Kai Liu, Binghai Du, Yanqin Ding, Chengqiang Wang
Summary: A novel PGPR strain BY2G20 was isolated from saline-alkaline soil in Dongying, China. It showed the ability to grow in a wide range of salt concentration and pH, and can inhibit the growth of Ralstonia solanacearum. Comparative genomic analysis revealed its evolutionary plasticity and adaptation to saline-alkaline environment. Maize inoculated with BY2G20 exhibited enhanced growth under salt stress.
Review
Microbiology
Dongying Zhao, Yanqin Ding, Yanru Cui, Yanan Zhang, Kai Liu, Liangtong Yao, Xiaobin Han, Yulong Peng, Jianyu Gou, Binghai Du, Chengqiang Wang
Summary: Bacillus altitudinis GQYP101, a plant growth-promoting bacterium, was found to solubilize phosphorus and enhance the growth of corn. The application of GQYP101 significantly increased the nitrogen and phosphorus contents of corn seedlings, as well as the availability of phosphorus in the rhizosphere soil. Whole genome sequence analysis identified key genes related to phosphate solubilization, alkaline phosphatase, chemotaxis, and motility. These findings provide a theoretical basis for using strain GQYP101 as microbial fertilizer to improve crop yield.
CURRENT MICROBIOLOGY
(2022)
Article
Microbiology
Dewei Du, Wenbo Jiang, Lei Feng, Yu Zhang, Peng Chen, Chengqiang Wang, Zhiyong Hu
Summary: The study investigated the effect of adding Saccharomyces cerevisiae culture on heat-stressed cows. It was found that the addition of S. cerevisiae culture can improve rumen microbial composition, function, and metabolites in heat-stressed cows, thereby enhancing rumen cellulolytic capacity.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Microbiology
Jing Li, Lin Zhang, Gan Yao, Lixiang Zhu, Jingling Lin, Chengqiang Wang, Binghai Du, Yanqin Ding, Xiangui Mei
Summary: This study explored the effects of co-culture and monoculture of rhizosphere Streptomyces on plant growth promotion and disease prevention. The results showed that co-culture had a synergistic enhancement effect, and the co-cultures of Streptomyces albireticuli and Streptomyces alboflavus had potential in crop growth promotion and disease prevention.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Dandan Zhou, Zhiqiu Yin, Xujian Li, Yanru Cui, Qi Cheng, Binghai Du, Kai Liu, Chengqiang Wang, Yanqin Ding
MOLECULAR PLANT-MICROBE INTERACTIONS
(2022)
Article
Biotechnology & Applied Microbiology
Huimin Sun, Jikun Zhang, Wenteng Liu, Wenhui E, Xin Wang, Hui Li, Yanru Cui, Dongying Zhao, Kai Liu, Binghai Du, Yanqin Ding, Chengqiang Wang
Summary: By identifying key genes involved in IAA synthesis in P. polymyxa SC2 and its mutant strain SC2-M1, and utilizing a novel strong promoter P-04420, the study successfully increased the IAA yield by 138% in the engineered strain SC2-M1. These results contribute to a better understanding and potential improvement of IAA synthesis pathways in P. polymyxa.
BIOTECHNOLOGY FOR BIOFUELS AND BIOPRODUCTS
(2022)
Article
Microbiology
Jian Zhao, Hu Liu, Kai Liu, Hao Li, Yulong Peng, Jing Liu, Xiaobin Han, Xin Liu, Liangtong Yao, Qihui Hou, Chengqiang Wang, Yanqin Ding, Binghai Du
MICROBIOLOGY RESOURCE ANNOUNCEMENTS
(2019)