Article
Plant Sciences
Shiyu Sun, Duoxiang Wang, Jingbin Li, Yaqi Lei, Gang Li, WenGuo Cai, Xiangxiang Zhao, Wanqi Liang, Dabing Zhang
Summary: This study used a transcriptomics approach to identify key genes and regulatory networks affecting pollen maturation in rice anthers in response to different day lengths. A total of 11,726 differentially expressed genes were revealed, with GO enrichment analysis showing enrichment in transport, carbohydrate, and lipid metabolic processes, as well as signaling pathways. Co-expression network analysis identified four modules strongly correlated with photoperiod, with 496 hub genes playing a key role in connecting photoperiod-sensitive genes affecting male fertility.
FRONTIERS IN PLANT SCIENCE
(2021)
Article
Agronomy
Jinming Li, Tingting Zhou, Xiangzhen Zhu, Li Wang, Kaixin Zhang, Dongyang Li, Jichao Ji, Junyu Luo, Jinjie Cui, Xueke Gao
Summary: This study investigated the differences between male and female Lysiphlebia japonica through transcriptome and proteome analysis, identifying 20 abdomen specific proteins. The results provided important molecular resources for further studies on the functional genes of parasitic wasps and the mechanism of parasitoids regulating the growth of aphids.
PEST MANAGEMENT SCIENCE
(2023)
Article
Multidisciplinary Sciences
Eleonora Porcu, Marie C. Sadler, Kaido Lepik, Chiara Auwerx, Andrew R. Wood, Antoine Weihs, Maroun S. Bou Sleiman, Diogo M. Ribeiro, Stefania Bandinelli, Toshiko Tanaka, Matthias Nauck, Uwe Volker, Olivier Delaneau, Andres Metspalu, Alexander Teumer, Timothy Frayling, Federico A. Santoni, Alexandre Reymond, Zoltan Kutalik
Summary: Identification of gene expression changes between healthy and diseased individuals can reveal mechanistic insights and biomarkers. The bi-directional transcriptome-wide Mendelian Randomization approach was proposed to assess causal effects between gene expression and complex traits. Comparing transcript levels between healthy and diseased individuals allows for the identification of differentially expressed genes that may be causes, consequences or mere correlates of the disease under scrutiny.
NATURE COMMUNICATIONS
(2021)
Article
Agriculture, Dairy & Animal Science
Wenqian Jia, Lei Wu, Zhong Zhuang, Minghong Xu, Yijia Lu, Zhixiu Wang, Hao Bai, Guohong Chen, Guobin Chang, Yong Jiang
Summary: This study investigated the molecular mechanism of threonine regulation on breast muscle development in Pekin ducks. The results showed that threonine intake level affected body weight and breast fiber size in Pekin ducks, and regulated the expression of many genes. This study provides new insights into the molecular mechanisms underlying breast muscle development in ducks.
Article
Obstetrics & Gynecology
Ashley W. Tiegs, Shiny Titus, Sameet Mehta, Rolando Garcia-Milian, Emre Seli, Richard T. Scott
Summary: The study found differential gene expression in cumulus cells from monosomy 21 and trisomy 21 embryos compared to euploid cumulus cells, with certain genes implicated in embryo developmental competence being differentially expressed in both conditions. Additionally, ingenuity pathway analysis showed that cell-cell contact function is affected in both monosomy and trisomy 21 cumulus cells, supporting the use of cumulus cell gene expression analysis as a potential tool for evaluating oocyte quality.
REPRODUCTIVE BIOMEDICINE ONLINE
(2021)
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
Horticulture
Quan-Hui Li, Shi-Peng Yang, Ya-Nan Yu, Abid Khan, Peng-Long Feng, Muhammad Ali, Deng-kui Shao, Ya-Yi Wang, Rui-Xing Zhang, Wen-Xian Gai, Rui Han, Xiao Ma, Quan-Gang Hou, Zhen-Hui Gong
Summary: The color formation of red and orange pepper fruits is closely related to the composition and content of carotenoids, with significantly higher levels of zeaxanthin, beta-cryptoxanthin, beta-carotene, and capsanthin found in red peppers compared to orange peppers, and higher levels of lutein in orange peppers compared to red peppers. Differentially expressed genes (DEGs) were identified to be involved in the biosynthesis of carotenoids, phenylpropanoids, flavonoids, and phenylalanine metabolism. Key genes such as CHYB1 and CCS were found to play significant roles in carotenoid biosynthesis during fruit development. Additionally, transcription factors such as F-box protein SKIP23, GATA transcription factor 26, and others may be involved in the regulation of carotenoid metabolism pathway in pepper fruit color formation.
SCIENTIA HORTICULTURAE
(2021)
Article
Plant Sciences
Dong-ru Kang, Yi Zhu, Shuai-lei Li, Peng-hui Ai, Muhammad Ayoub Khan, Hong-xu Ding, Ying Wang, Zi-cheng Wang
Summary: This study investigates the effect of MET1 gene silencing on gene expression profile in Chrysanthemum x morifolium 'Zijingling', revealing significant changes in differentially expressed genes related to essential plant biological processes. While a sufficient number of candidate genes associated with flowering were identified, the overall number of genes with significant differences between transgenic and control lines was relatively low. This study sheds light on the transcriptional level interference of CmMET1 on chrysanthemum growth and development, providing a basis for further research on epigenetic regulation mechanisms in flower induction and development.
PHYSIOLOGY AND MOLECULAR BIOLOGY OF PLANTS
(2021)
Article
Cell Biology
Yongxin Zhang, Wenwei Liu, Wei Feng, Xiaofeng Wang, Tianxiang Lei, Zehong Chen, Wu Song
Summary: This study identified characteristic changes of metabolism-related genes in gastric cancer patients through proteomics and RNA sequencing, providing potential new biomarkers and therapeutic targets for GC. The dysregulation of metabolic genes, including BCAT2, was associated with immune cell infiltration and overall survival time in GC patients. The findings offer comprehensive information to better understand the mechanism underlying GC metastasis and explore potential targets for therapeutic and prognostic purposes.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Medicine, General & Internal
Zhen-Chen Chu, Ting Cong, Jian-Yu Zhao, Jian Zhang, Zhi-Yuan Lou, Yang Gao, Xin Tang
Summary: This study identified three hub genes (HTRA1, P2RY6, and RCAN1) related to osteoarthritis through gene expression analysis and weighted gene co-expression network analysis. The expression levels of these genes were confirmed in osteoarthritis patients. The findings provide new insights for targeted treatment of osteoarthritis.
FRONTIERS IN MEDICINE
(2023)
Article
Plant Sciences
Hua Liu, Yin Jia, Yuhong Chai, Sen Wang, Haixia Chen, Xiumei Zhou, Conglin Huang, Shuang Guo, Dongliang Chen
Summary: In this study, differentially expressed genes between ray and disc florets in chrysanthemum flowers were identified. Important regulatory genes controlling flower development and flowering determination were discovered. Transgenic Arabidopsis thaliana plants with these genes showed earlier flowering time but unaffected petal and stamen development. This study provides insights into the molecular mechanisms of flowering and potential applications in breeding new flower types.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Medicine, Research & Experimental
Guanyi Wang, Yibin Jia, Yuqin Ye, Enming Kang, Huijun Chen, Jiayou Wang, Xiaosheng He
Summary: Through methods like WGCNA analysis, key hub genes for EPN-PF were identified, indicating their involvement in multiple important cellular signaling pathways that may impact patient prognosis.
JOURNAL OF TRANSLATIONAL MEDICINE
(2021)
Article
Biotechnology & Applied Microbiology
Qianyun Ge, Yongbo Guo, Wangshan Zheng, Yuan Cai, Xuebin Qi, Shengguo Zhao
Summary: The study analyzed the lung transcriptomes of yaks living at different altitudes on the Tibetan Plateau, with low-altitude Zaosheng cattle as controls, revealing molecular mechanisms involved in hypoxic adaptation in yaks. Differential gene expression was observed between yaks and cattle, as well as among yaks at different altitudes. Enriched pathways included metabolism, immune response, and genetic information processing, shedding light on the biological functions underlying high-altitude adaptation in yaks and potential implications for hypoxia-related diseases.
Article
Pharmacology & Pharmacy
Xiaoxiao Xue, Jiayu Yu, Cheng Li, Fang Wang, Yatao Guo, Yongwen Li, Huijuan Shi
Summary: This study aimed to explore the genes and pathways involved in the therapeutic effects of oxymatrine on psoriasis. The results showed that oxymatrine can alter the abnormal expression of certain genes and pathways in psoriasis patients, and multi-pathway and multi-target therapy can effectively treat psoriasis.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Parasitology
Xia-lian Bu, Wei-shan Zhao, Wen-xiang Li, Hong Zou, Shan-gong Wu, Ming Li, Gui-tang Wang
Summary: This study describes the morphological features and metabolic characteristics of the mitochondria in the ciliate C. uncinata. Using fluorescence staining and transmission electron microscopy, the researchers observed the morphology of the mitochondria and constructed metabolic pathways based on transcriptome data. They found that the mitochondria in C. uncinata possess enzymes for the tricarboxylic acid cycle, fatty acid metabolism, amino acid metabolism, and cytochrome-based electron transport chain. However, only partial enzymes are involved in iron-sulfur clusters. These findings improve our knowledge of mitochondrial metabolism in C. uncinata and provide molecular data for future studies of this parasite.
PARASITES & VECTORS
(2023)
Article
Marine & Freshwater Biology
Miran Kim, Seung Won Nam, Woongghi Shin, D. Wayne Coats, Myung Gil Park
Biographical-Item
Microbiology
Denis H. Lynn, D. Wayne Coats
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2015)
Article
Microbiology
Jae-Ho Jung, Jung Min Choi, D. Wayne Coats, Young-Ok Kim
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2016)
Article
Microbiology
Eunyoung Moon, Seung Won Nam, Woongghi Shin, Myung Gil Park, D. Wayne Coats
Editorial Material
Microbiology
D. Wayne Coats, Denis H. Lynn
Article
Biotechnology & Applied Microbiology
Tsvetan R. Bachvaroff, Sunju Kim, Laure Guillou, Charles F. Delwiche, D. Wayne Coats
APPLIED AND ENVIRONMENTAL MICROBIOLOGY
(2012)
Article
Ecology
Gabriela W. Smalley, D. Wayne Coats, Diane K. Stoecker
AQUATIC MICROBIAL ECOLOGY
(2012)
Article
Ecology
D. Wayne Coats, Young Ok Kim, Jung Min Choi, Eun Sun Lee
AQUATIC MICROBIAL ECOLOGY
(2014)
Article
Marine & Freshwater Biology
Myung Gil Park, Sunju Kim, Eun-Young Shin, Wonho Yih, D. Wayne Coats
Article
Microbiology
Seung Won Nam, Woongghi Shin, D. Wayne Coats, Jong Woo Park, Wonho Yih
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2012)
Article
Microbiology
D. Wayne Coats, Tsvetan R. Bachvaroff, Charles F. Delwiche
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2012)
Article
Plant Sciences
Miran Kim, Seung Won Nam, Woongghi Shin, D. Wayne Coats, Myung Gil Park
JOURNAL OF PHYCOLOGY
(2012)
Article
Microbiology
John J. Miller, Charles F. Delwiche, D. Wayne Coats
Article
Microbiology
D. Wayne Coats, Eunyoung Moon
Summary: Euduboscquella species differ from most other syndinean dinoflagellates by their mononucleate trophonts, but share similarities with species of Amoebophrya and Sphaeripara in terms of episome-hyposome differentiation and cortical complexity. While the cytology and development of Euduboscquella species have been well characterized, their ultrastructure has been largely unexplored. Transmission electron microscopy revealed previously unrecognized structures in Euduboscquella cachoni trophonts, tomonts, and sporocytes, providing new insights into their cellular organization and life cycle. The study suggests the presence of unique mechanisms for parasite egress and host material ingestion.
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2022)
Article
Microbiology
Jiae Yoo, D. Wayne Coats, Sunju Kim
Summary: This study investigated the morphology, development, and molecular characteristics of intracellular parasites infecting heterotrophic dinoflagellates in coastal waters of Busan, Republic of Korea. Four different Euduboscquella species were found to infect Cucumeridinium coeruleum, Gyrodinium cf. ochraceum, and two unidentified species of Gyrodinium. The genetic distance among Euduboscquella species infecting dinoflagellates was significantly greater than those infecting ciliates, and the placement of the novel parasites in multiple clades indicates the paraphyletic nature of the genus Euduboscquella.
JOURNAL OF EUKARYOTIC MICROBIOLOGY
(2023)