Letter
Oncology
Michal Grzmil, Paul Boersema, Ashish Sharma, Alain Blanc, Stefan Imobersteg, Martin Pruschy, Paola Picotti, Roger Schibli, Martin Behe
Summary: Our study compares the cellular responses to external beam radiation therapy (EBRT) and internal targeted radionuclide therapy (TRT). We found that TRT robustly activates signaling pathways in cancer cells, including EGFR, MAPKs, and integrin receptor. Inhibiting these pathways increases the sensitivity of cancer cells to radiolabeled minigastrin. In vivo experiments showed that EGFR inhibitor erlotinib enhances therapeutic response and prolongs the survival of nude mice.
JOURNAL OF HEMATOLOGY & ONCOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Ze-Xiang Wang, Liang Che, Rui-Si Hu, Xiao-Lin Sun
Summary: ToxoDB#9 (PYS) strain of T. gondii displays significant differences in phosphopeptide abundance between sporulated oocysts and tachyzoites, potentially offering insights into stage-specific variations in PTMs and shedding light on regulatory mechanisms contributing to the development and infectivity of T. gondii.
Article
Cell Biology
Yongjie Xu, Qiu Han, Chaofeng Ma, Yaling Wang, Pengpeng Zhang, Cencen Li, Xiaofang Cheng, Haixia Xu
Summary: Comprehensive proteomics analysis of sperm from Yorkshire and Duroc boars revealed differential expression of proteins and phosphorylated proteins related to crucial physiological functions such as sperm development, motility, and energy metabolism. Proteins involved in axonemal dynein complex assembly and sperm-egg recognition were found to be significantly higher in Duroc spermatozoa, indicating potential differences in sperm function between the two boar breeds.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Article
Agronomy
Xiangkun Meng, Daojie Guan, Nan Zhang, Heng Jiang, Chengyun Jiang, Huichen Ge, Jiaping Wei, Jianjun Wang, Kun Qian
Summary: This study explores the potential phosphorylation modification regulation mechanisms in Chilo suppressalis in response to sublethal chlorantraniliprole exposure using comparative and quantitative phosphoproteomics. The results reveal significant changes in the transcription and phosphorylation levels of genes/proteins associated with carbohydrate and lipid metabolism, cytoskeleton, signal transduction, transcription, translation, and post-translational modification in C. suppressalis due to sublethal chlorantraniliprole exposure. The identified protein kinases, including MAPKs, CDKs, CaMK II, PKA, PKC, and CK II, may play a direct role in the phosphoproteomics response of C. suppressalis to chlorantraniliprole treatment.
PEST MANAGEMENT SCIENCE
(2023)
Article
Biochemical Research Methods
Pavneet Kaur, Apeksha Anand, Adil Bhat, Jaswinder Singh Maras, Neena Goyal
Summary: The study identified LdMAPK1 target proteins in Leishmania through proteomics, revealing its role in regulating diverse biological processes such as metabolism, signal transduction, replication, transcription, translation, transporters and cytoskeleton/motor proteins. This implies the potential of LdMAPK1 as a therapeutic drug target for treating visceral leishmaniasis.
JOURNAL OF PROTEOMICS
(2021)
Article
Biochemistry & Molecular Biology
Gagan Deep Jhingan, Maria Manich, Jean-Christophe Olivo-Marin, Nancy Guillen
Summary: Entamoeba histolytica is a protozoan parasite that causes amoebiasis in humans. It utilizes its actin-rich cytoskeleton to invade human tissues, kill and phagocytose human cells. The parasite has developed sophisticated systems to integrate internal and external signals, coordinate cell shape changes, and facilitate motility. Phosphorylation events and related signalling mechanisms are important in this process, as inhibition of phosphatidylinositol 3-kinases leads to changes in motility, morphology, and actin-rich adhesive structures.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Evolutionary Biology
Jacob D. Gardner, Chris L. Organ
Summary: Phylogenetic comparative methods are often used to study evolution and adaptation, but commonly used models may incorrectly detect correlated evolution for discrete traits. Simulation studies show that small evolutionary sample sizes can lead to poor rate parameter estimation, affecting the model selection process. The study provides recommendations for researchers to improve study designs, evaluate evolutionary models, and consider evidence from diverse fields when studying correlated evolution hypotheses.
SYSTEMATIC BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Dayea Kim, Yeon Suk Jo, Han-Seul Jo, Sungwon Bae, Yang Woo Kwon, Yong-Seok Oh, Jong Hyuk Yoon
Summary: Insulin in the brain plays a critical role in neuro-development and regulation of adult neurogenesis in the hippocampus. Abnormal brain insulin signaling is associated with aging and altered brain plasticity, which may promote neurodegeneration in late-stage Alzheimer's disease (AD). However, the precise molecular mechanism linking insulin resistance and AD remains unclear. In this study, phosphoproteomics was used to identify molecular features of insulin resistance in Neuro2a (N2a) cells under two relevant conditions: inflammation and dyslipidemia. Despite differences in phosphoproteome profiles, common molecular signatures and biological pathways were found between the two insulin-resistant conditions, including the integrin and adenosine monophosphate-activated protein kinase pathways. These findings provide new insights into insulin resistance in N2a cells and its potential links to AD.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Genetics & Heredity
Shangge Lv, Yu Jiang, Yuzheng Li, Ruilin Huang, Lingyu Peng, Zhaoyin Ma, Nan Lu, Xiaoying Lin, Jie Yan
Summary: This study constructs phylogenetic trees of RIPK1-7 and paralogues to investigate their evolutionary relationships and potential functions. The results reveal that RIPK6 and RIPK7 are distinct from RIPK1-5 and paralogues in the Ensembl database are inaccurate. The study also suggests that the loss of RIPK3 may be associated with ischemia-reperfusion injury and high metabolic rate, while RIPK4 and RIPK5 have negligible expression in immune cells and RIPK6 and RIPK7 play important roles in innate immunity.
FRONTIERS IN GENETICS
(2022)
Article
Infectious Diseases
Mar de Pablo-Miro, Sergi Pujol-Ruiz, Simona Iftimie, Maria del Mar Arenas-Miras, Inmaculada Lopez-Montesinos, Xavier Duran-Jorda, Albert Angles, Santiago Grau, Juan P. Horcajada
Summary: Dalbavancin, a new antibiotic effective against Gram-positive microorganisms, offers the possibility of weekly IV therapy in outpatient setting. A case-control study showed that Dalbavancin treatment reduced hospital stay and improved 30-day efficacy compared to other antibiotics.
Article
Telecommunications
Enmin Zhu, Jianjie Zhang, Jijie Yan, Kongyang Chen, Chongzhi Gao
Summary: This paper introduces an n-gram MalGAN method which obtains feature vectors directly from hexadecimals of executable files, making adversarial attacks easier and more convenient, with a high evasion rate of at least 88.58% against different machine learning algorithms.
DIGITAL COMMUNICATIONS AND NETWORKS
(2022)
Article
Telecommunications
Enmin Zhu, Jianjie Zhang, Jijie Yan, Kongyang Chen, Chongzhi Gao
Summary: The paper introduces an n-gram MalGAN method to address the challenges of complicated deployment and long running time faced by existing adversarial malware solutions. By utilizing the concept of n-gram from the Natural Language Processing field, n-gram MalGAN expands the feature sources for adversarial malware examples, making it easier to implement and more convenient without the need for specialized tools.
DIGITAL COMMUNICATIONS AND NETWORKS
(2022)
Article
Biochemistry & Molecular Biology
Zhen Gao, Baozhen Sun, Zhengwen Chen, Heng Zhai, Yuxin Yao, Yuanpeng Du
Summary: The study found that 194 phosphoproteins were significantly regulated after ozone treatment, affecting biological pathways related to transport. The phosphorylation of VvKEG in grape decreases after ozone treatment, enhancing ozone tolerance by regulating the ABA signaling pathway.
Article
Biochemical Research Methods
Vincent Danna, Hugh Mitchell, Lindsey Anderson, Iobani Godinez, Sara J. C. Gosline, Justin Teeguarden, Jason E. McDermott
Summary: The goal of high-throughput data studies is to identify functional mechanisms underlying biological phenomena, which requires time-consuming evaluation of various statistical methods. The leapR package allows rapid assessment of biological pathway activity, facilitating integration of multisource data.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Liping Yan, Wentian Xu, Dong Zhang, Junqing Li
Summary: Flesh flies play vital roles in ecosystem, economic, forensic, and evolutionary studies due to their diverse habits as larvae. Phylogenetic studies have reached convergence, offering the opportunity to elucidate the evolution of these fast-evolving insects from the perspective of mitochondrial genome.
INTERNATIONAL JOURNAL OF BIOLOGICAL MACROMOLECULES
(2021)
Article
Biochemistry & Molecular Biology
Dharani Dhar Burra, Marit Lenman, Fredrik Levander, Svante Resjo, Erik Andreasson
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2018)
Article
Plant Sciences
Kibrom B. Abreha, Asa Lankinen, Laura Masini, Sofia Hydbom, Erik Andreasson
Article
Evolutionary Biology
Ramesh R. Vetukuri, Sucheta Tripathy, Mathu C. Malar, Arijit Panda, Sandeep K. Kushwaha, Aakash Chawade, Erik Andreasson, Laura J. Grenville-Briggs, Stephen C. Whisson
GENOME BIOLOGY AND EVOLUTION
(2018)
Article
Agronomy
Tewodros Mulugeta, Bayeh Mulatu, Habte Tekie, Mohammed Yesuf, Erik Andreasson, Erik Alexandersson
PEST MANAGEMENT SCIENCE
(2019)
Article
Multidisciplinary Sciences
Asa Lankinen, Kibrom B. Abreha, Laura Masini, Ashfaq Ali, Svante Resjo, Erik Andreasson
Article
Cardiac & Cardiovascular Systems
Itziar Frades, Ben Readhead, Letizia Amadori, Simon Koplev, Husain A. Talukdar, Heidi M. Crane, Paul K. Crane, Jason C. Kovacic, Joel T. Dudley, Chiara Giannarelli, Johan L. M. Bjorkegren, Inga Peter
CIRCULATION-GENOMIC AND PRECISION MEDICINE
(2019)
Article
Biochemistry & Molecular Biology
Svante Resjo, Muhammad Awais Zahid, Dharani Dhar Burra, Marit Lenman, Fredrik Levander, Erik Andreasson
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2019)
Article
Plant Sciences
Erik Alexandersson, Sandeep Kushwaha, Aastha Subedi, Deborah Weighill, Sharlee Climer, Daniel Jacobson, Erik Andreasson
Article
Plant Sciences
Erland Liljeroth, Asa Lankinen, Erik Andreasson, Erik Alexandersson
Article
Plant Sciences
Eu Sheng Wang, Nam Phuong Kieu, Marit Lenman, Erik Andreasson
Article
Biochemistry & Molecular Biology
Sophie M. Brouwer, Firuz Odilbekov, Dharani Dhar Burra, Marit Lenman, Pete E. Hedley, Laura Grenville-Briggs, Erik Alexandersson, Erland Liljeroth, Erik Andreasson
PLANT MOLECULAR BIOLOGY
(2020)
Article
Entomology
Mudassir Iqbal, Maha Jamshaid, Muhammad Awais Zahid, Erik Andreasson, Ramesh R. Vetukuri, Johan A. Stenberg
Summary: The study demonstrated that Aureobasidium pullulans is an effective biocontrol agent to control strawberry diseases caused by fungal pathogens, and can be an effective alternative to chemical-based fungicides.
Article
Biochemical Research Methods
Muhammad Awais Zahid, Murilo Sandroni, Ramesh Raju Vetukuri, Erik Andreasson
Summary: The researchers developed a fast and nondestructive method using near-infrared scanning to analyze leaf injuries, which was compared to the traditional trypan blue staining method. The new protocol was found to be time-efficient, nondestructive, chemical-free, and suitable for high-throughput studies.
Article
Biochemistry & Molecular Biology
Kibrom B. Abreha, Erik Alexandersson, Svante Resjo, Asa Lankinen, Daniela Sueldo, Farnusch Kaschani, Markus Kaiser, Renier A. L. van der Hoorn, Fredrik Levander, Erik Andreasson
Summary: The study investigated the composition of apoplastic proteomes of potato cultivar Bintje grown under field conditions, showing differential regulation of certain proteins in response to environmental or developmental factors. Proteins such as peroxidases, class II chitinases, pectinesterases, and osmotins were found to be more abundant later in the growing season. Results also indicated a decrease in activity of serine hydrolases and beta-glycosidases related to biotic stress tolerance as the season progressed. The generated proteomics data could help in understanding molecular plant physiology mechanisms in agricultural fields and in mitigating biotic and abiotic stresses effectively.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biotechnology & Applied Microbiology
Kevin Schneider, Jesus Barreiro-Hurle, Jack Vossen, Henk J. Schouten, Geert Kessel, Erik Andreasson, Nam Phuong Kieu, Joern Strassemeyer, Jordan Hristov, Emilio Rodriguez-Cerezo
Summary: Significant efforts should be made to minimize crop losses caused by pests and diseases, as this could help alleviate the global food supply constraints. This review focuses on conventional plant breeding, cisgenesis, pesticide-based disease management, economic implications of cultivating cisgenic crops, and potential environmental impacts. Specific attention is given to potatoes and apples, with resistances to Phytophthora infestans and Venturia inaequalis, respectively. Adopting cisgenic varieties can reduce pesticide usage, benefit farmers, and contribute to the European Green Deal target.
TRENDS IN BIOTECHNOLOGY
(2023)