Article
Multidisciplinary Sciences
Min Chen, Jer-Young Lin, Xiaomeng Wu, Nestor R. Apuya, Kelli F. Henry, Brandon H. Le, Anhthu Q. Bui, Julie M. Pelletier, Shawn Cokus, Matteo Pellegrini, John J. Harada, Robert B. Goldberg
Summary: In this study, the transcriptomes of embryo proper and suspensor regions from different plant species were compared, revealing that genes involved in hormone synthesis and transport are mainly active in the giant scarlet runner bean and common bean suspensors, while genes controlling transcriptional regulation and cell division are primarily active in the embryo proper. Additionally, a set of suspensor- and embryo proper-specific transcription factors were identified, suggesting their involvement in early differentiation processes common to all plants.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Engineering, Environmental
Yuxin Qiao, Ran Hu, Dongwei Chen, Li Wang, Zhiyi Wang, Haiyan Yu, Ye Fu, Chunli Li, Zhiyang Dong, Yun-Xuan Weng, Wenbin Du
Summary: A high-throughput screening pipeline was developed to identify PET-degrading microorganisms or enzymes, successfully isolating species capable of degrading PET from environmental samples and genetically deriving and validating two putative PETases. The FADS pipeline shows promise for discovering new plastic-degrading microorganisms and enzymes, potentially aiding in the directed evolution of degrading enzymes through synthetic biology.
JOURNAL OF HAZARDOUS MATERIALS
(2022)
Review
Biotechnology & Applied Microbiology
Jingjie Jiang, Guangyu Yang, Fuqiang Ma
Summary: Fluorescence-activated droplet sorting (FADS) is a powerful tool for high-throughput screening of enzymes, metabolites, and antibodies. Fluorescence coupling strategies (FCSs) play a key role in developing new FADS methods by linking analyte properties to fluorescence signals. This review highlights recent advances in FCS for different analyte types and discusses successful FADS applications.
BIOTECHNOLOGY ADVANCES
(2023)
Article
Food Science & Technology
Wen-Juan Song, Pei -Pei Liu, Zi-Qing Meng, Yan-Yan Zheng, Guang-Hong Zhou, Hui-Xia Li, Shi-Jie Ding
Summary: Cultured fat, an essential component in cultured meat production, shows promising similarity in fatty acid composition with authentic adipose tissue. Adipose progenitor cells (APCs) are identified as a potential candidate for cultured fat production, demonstrating high efficiency proliferation and differentiation characteristics.
FOOD RESEARCH INTERNATIONAL
(2022)
Article
Biochemistry & Molecular Biology
Francisco Ortigosa, Concepcion avila, Lourdes Rubio, Lucia Alvarez-Garrido, Jose A. Carreira, Rafael A. Canas, Francisco M. Canovas
Summary: By analyzing the transcriptome of Spanish fir, this study revealed the correlation between needle color variation and physiological and molecular characteristics, which can guide the conservation and management of this tree species.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Review
Immunology
Chenjie Fei, Li Nie, Jianhua Zhang, Jiong Chen
Summary: Teleost fish possess a complex assortment of highly specialized immune cells capable of unleashing immune responses, including memory lymphocytes. Specific roles of fish immune cells depend on precise separation of cell types, which may require monoclonal antibodies. Emerging technologies such as fluorescence-activated cell sorting and droplet-based microfluidics show potential in identifying antigen-specific B lymphocytes for fish immunology studies.
FRONTIERS IN IMMUNOLOGY
(2021)
Article
Food Science & Technology
Ji Zhang, Yang He, Jing Zhou, Ting Shen, Weicheng Hu
Summary: This comprehensive transcriptional study on wheat bran extracted arabinoxylan (AX) revealed significant impact on immune-related genes and pathways, providing valuable information for further research on the complex molecular mechanisms associated with AX. The study identified 2325 differentially expressed genes (DEGs), mainly enriched in immune-related processes, with top pathways including NF-kappa B and TNF signaling pathways. Additionally, AX treatment led to dynamic changes in mRNA levels of immune-related genes and up-regulation of NF-kappa B nuclear translocation and upstream target proteins.
FOOD RESEARCH INTERNATIONAL
(2021)
Article
Engineering, Chemical
Genzhuang Li, Bern Klein, Chunbao Sun, Jue Kou
Summary: This study analyzed the reliability of X-Ray Fluorescence technology in bulk ore sorting applications, identifying errors from instrumental, heterogeneity, and sampling sources. Heterogeneity error was found to have the greatest impact on sorting results and economics. The study concluded that the linear regression approach is suitable for XRF in bulk ore sorting if sufficient analysis interval time can be ensured.
MINERALS ENGINEERING
(2021)
Article
Biochemical Research Methods
Sadat Hasan, Maximilian E. Blaha, Sebastian K. Piendl, Anish Das, David Geissler, Detlev Belder
Summary: This research introduces a label-free detection technique using time-resolved two-photon excitation (TPE) fluorescence detection at 532 nm in droplet microfluidics. A polydimethylsiloxane-fused silica (FS) hybrid chip was developed to provide high optical transparency in the deep-UV range and suitable surface properties for droplet microfluidics. The system incorporating a 532-nm picosecond laser, time-correlated single-photon counting (TCSPC), and a chip-integrated dielectrophoretic pulsed actuator was utilized to sort droplets containing specific compounds and screen yeast cells based on their protein autofluorescence.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Ophthalmology
Taku Wakabayashi, Hisamichi Naito, Tomohiro Iba, Kohji Nishida, Nobuyuki Takakura
Summary: This study identified distinct populations of CD157-positive VESCs in both mouse retina and choroid. These VESCs are located in large vessels and have proliferative potential, which may open up new avenues for research and treatment of ocular vascular diseases.
INVESTIGATIVE OPHTHALMOLOGY & VISUAL SCIENCE
(2022)
Article
Chemistry, Multidisciplinary
Ngoc Duc Vo, Anh Thi Van Nguyen, Hoi Thi Le, Nam Hoang Nguyen, Huong Thi Thu Pham
Summary: The study developed an alternative method, the MACS-Countess system, for CD4(+) T cell counting, which combines magnetic activated cell sorting with an automated cell counting system. Compared to the FACS gold standard, the MACS-Countess system showed a mean bias of 3.5% with a narrow limit of agreement, making it a reliable and cost-effective option for laboratories in limited resource regions.
APPLIED SCIENCES-BASEL
(2021)
Article
Engineering, Environmental
Zhe Du, Sebastian F. Behrens
Summary: The study used a combination of BONCAT, FACS, and 16S rRNA gene amplicon sequencing to identify translationally active cells in activated sludge. It was found that only a subset of the activated sludge microbiome is translationally active during the aerobic treatment phase of a full-scale sequencing batch reactor. BONCAT-FACS in combination with amplicon sequencing can provide new insights into the ecophysiology of highly dynamic microbiomes in activated sludge systems.
Article
Construction & Building Technology
Zhizhong Deng, Wen Zhou, Hong Yue, Hucheng Deng, Hao Zhang, Youzhi Zheng, Hongqiong Fu
Summary: This study explores the application of slag plugging fluid in oil and gas field development and investigates its hydration process, microstructure, water function mechanism, and mechanical characteristics using characterization equipment. The results show an increase in Si polymerization and generation of 6-coordinated Al during hydration, leading to slurry hardening. The hardening process affects water binding force, form, and pore structure, causing changes in the T-2 spectrum curve of water.
CONSTRUCTION AND BUILDING MATERIALS
(2021)
Article
Plant Sciences
Jing Zhao, Xinmao Zhou, Shaoli Fang, Zhangming Zhu, Yuxin Li, Hong Yu, Zhaorong He
Summary: In this study, 26 transcriptomes, including 11 newly generated ones, were analyzed to assess the phylogeny and hybridization events of Marattiaceae. The results provided a strong phylogenomic framework for the evolution of Marattiaceae and revealed the sister relationship between Marattiaceae and leptosporangiate ferns. The study also examined the phylogenetic relationships at the genus level and identified several well-supported clades. This research is important for understanding the use of phylotranscriptomic methods in studying difficult taxa and hybridization events in ferns.
Article
Biochemical Research Methods
Jan P. Bogen, Juliana Storka, Desislava Yanakieva, David Fiebig, Julius Grzeschik, Bjoern Hock, Harald Kolmar
Summary: The isolation of chicken monoclonal antibodies with high affinity, specificity, and thermal stability from immunized chickens using yeast cell biopanning paves the way for the generation of bispecific antibodies against native mammalian receptors based on common light chains.
BIOTECHNOLOGY JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Cheng Zhang, Theresa Lauster, Wenxin Tang, Anaxi Houbaert, Shanshuo Zhu, Dominique Eeckhout, Ive De Smet, Geert De Jaeger, Thomas B. Jacobs, Tongda Xu, Sabine Mueller, Eugenia Russinova
Summary: In this study, it was found that brassinosteroid (BR) influences Arabidopsis epidermal cell morphogenesis by regulating PLECKSTRIN HOMOLOGY GTPase-ACTIVATING proteins (PHGAPs), thereby connecting the BR and ROP2-GTPase signaling pathways crucial for pavement cell interdigitation.
Article
Plant Sciences
Ren Wang, Ellie Himschoot, Matteo Grenzi, Jian Chen, Alaeddine Safi, Melanie Krebs, Karin Schumacher, Moritz K. Nowack, Wolfgang Moeder, Keiko Yoshioka, Daniel Van Damme, Ive De Smet, Danny Geelen, Tom Beeckman, Jiri Friml, Alex Costa, Steffen Vanneste
Summary: This study evaluates the effects of different auxin analogs on the accumulation of PIN proteins in BFA bodies and their ability to induce Ca2+ responses. The results show that not all auxin analogs can elicit Ca2+ responses and their ability to do so partially correlates with their inhibition of BFA body formation.
JOURNAL OF EXPERIMENTAL BOTANY
(2022)
Article
Plant Sciences
Xuejun Tian, Zhen Qin, Yue Zhao, Jingjing Wen, Tianyu Lan, Liyuan Zhang, Fei Wang, Dandan Qin, Kuohai Yu, Aiju Zhao, Zhaorong Hu, Yingyin Yao, Zhongfu Ni, Qixin Sun, Ive De Smet, Huiru Peng, Mingming Xin
Summary: The TaMBF1c gene plays a crucial role in regulating heat stress response in wheat by affecting the translation of specific genes. It is evolutionarily conserved in various wheat species and is closely associated with the translation of heat shock proteins, providing a potential target for improving heat tolerance in wheat breeding programs.
Article
Plant Sciences
Harshita Singh, Zeenu Singh, Tingting Zhu, Xiangyu Xu, Bhairavnath Waghmode, Tushar Garg, Shivani Yadav, Debabrata Sircar, Ive De Smet, Shri Ram Yadav
Summary: The root system of rice, mainly composed of shoot-borne adventitious/crown roots, serves as an excellent model system to study the shoot-to-root trans-differentiation process. This study uncovers global changes in protein and metabolite abundance and protein phosphorylation during crown root development in response to auxin stimulus. It identifies differentially regulated proteins, amino acids, and phosphoproteins, and reveals the involvement of auxin signaling in chromatin conformational change, gene expression, cell cycle regulation, and ethylene biosynthesis. The study also highlights the importance of translational and post-translational regulation in root organogenesis.
PLANT AND CELL PHYSIOLOGY
(2023)
Article
Plant Sciences
Anna C. Ortiz, Ive De Smet, Rosangela Sozzani, Anna M. Locke
Summary: This study investigated the genotypic variation in soybean response to elevated temperature, revealing diverse responses among genotypes. Results showed that long-term elevated air temperature affected gas exchange, chlorophyll fluorescence, yield, and seed composition. The findings highlight the potential for improving soybean heat tolerance through breeding and the importance of efficient selection strategies for stress-tolerant crops.
ENVIRONMENTAL AND EXPERIMENTAL BOTANY
(2022)
Article
Plant Sciences
Vasiliki Zacharaki, Jathish Ponnu, Nathalie Crepin, Tobias Langenecker, Joerg Hagmann, Noemi Skorzinski, Magdalena Musialak-Lange, Vanessa Wahl, Filip Rolland, Markus Schmid
Summary: Sensing carbohydrate availability is crucial for plants. A study on Arabidopsis thaliana reveals the importance of T6P and SnRK1 in regulating plant growth and development. The catalytic subunit KIN10 plays a significant role in T6P signaling, while KIN11 does not. Additionally, identified point mutations in the regulatory subunit SNF4 disrupt its interaction with the catalytic subunit KIN10.
Article
Multidisciplinary Sciences
Stefanie Royek, Martin Bayer, Jens Pfannstiel, Juergen Pleiss, Gwyneth Ingram, Annick Stintzi, Andreas Schaller
Summary: This study investigates the proteolytic processing and posttranslational modification of the TWS1 peptide regulator in Arabidopsis thaliana. The results demonstrate the critical role of tyrosine sulfation in mediating processing specificity and peptide maturation. The findings provide insight into the contribution of posttranslational modifications to peptide bioactivity.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Qing Lu, Yonghong Zhang, Joakim Hellner, Caterina Giannini, Xiangyu Xu, Jarne Pauwels, Qian Ma, Wim Dejonghe, Huibin Han, Brigitte Van de Cotte, Francis Impens, Kris Gevaert, Ive De Smet, Jiri Frim, Daniel Martinez Molina, Eugenia Russinova
Summary: In this study, the authors applied the CETSA MS method to intact Arabidopsis thaliana cells and identified the thermal proteome of GSK3 inhibitor bikinin. They found that GSK3 regulates the auxin efflux carrier PIN1, and highlighted the cross-talk between brassinosteroid and auxin signaling.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Domenique Andre, Alice Marcon, Keh Chien Lee, Daniela Goretti, Bo Zhang, Nicolas Delhomme, Markus Schmid, Ove Nilsson
Summary: In temperate and boreal regions, perennials adapt their annual growth cycle to the change of seasons. Populus trees have evolved FT2 for regulating vegetative growth and dormancy, and FT1 is essential for spring bud flush, showing how FT duplication and sub-functionalization allow Populus trees to regulate different developmental control points.
Article
Plant Sciences
Shouguang Huang, Tobias Maierhofer, Kenji Hashimoto, Xiangyu Xu, Sohail M. Karimi, Heike Mueller, Michael A. Geringer, Yi Wang, Joerg Kudla, Ive De Smet, Rainer Hedrich, Dietmar Geiger, M. Rob G. Roelfsema
Summary: This study found that CIPK23 is expressed in Arabidopsis guard cells and enhances stomatal conductance by regulating the activity of multiple ion channel proteins, including the inhibition of SLAC1-type anion channels.
Article
Plant Sciences
Julieta L. Mateos, Sabrina E. Sanchez, Martina Legris, David Esteve-Bruna, Jeanette C. Torchio, Ezequiel Petrillo, Daniela Goretti, Noel Blanco-Tourinan, Danelle K. Seymour, Markus Schmid, Detlef Weigel, David Alabadi, Marcelo J. Yanovsky
Summary: Plants undergo transcriptome reprograming to adapt to daily and seasonal fluctuations in light and temperature conditions. The proper spliceosome assembly, which requires the methylosome complex, is crucial for efficient pre-mRNA splicing. PICLN, a part of the methylosome complex, plays a key role in regulating pre-mRNA splicing and mediating plant adaptation to environmental conditions.
Article
Plant Sciences
Ke Xu, Joris Jourquin, Xiangyu Xu, Ive De Smet, Ana Fernandez, Tom Beeckman
Summary: During root exploration, roots adapt to different conditions and interact with their environment. Asymmetric molecular patterns guide directional root growth, but the mechanisms of their establishment and dynamic regulation are not well understood. Asymmetric gradients of the phytohormone auxin are established through polarized auxin transporters, mainly during root gravitropism. GOLVEN-ROOT GROWTH FACTOR 1 INSENSITIVE signaling in lateral root cap cells plays a crucial role in root gravitropism by regulating the plasma membrane abundance of PIN-FORMED2 in Arabidopsis.
Review
Plant Sciences
Tingting Zhu, Shao-Li Yang, Ive De Smet
Summary: Climate change-induced temperature fluctuations affect agricultural productivity by causing short-term intense heat waves or long-term heat stress. Plants have developed sophisticated strategies to cope with heat stress. This review focuses on the translocation of molecules and proteins associated with signal transduction, aiming to understand how plant cells decode signals from the environment to trigger an appropriate response.
CURRENT OPINION IN PLANT BIOLOGY
(2023)
Editorial Material
Plant Sciences
Marcel Quint, Carolin Delker, Sureshkumar Balasubramanian, Martin Balcerowicz, Jorge J. Casal, Christian Danve M. Castroverde, Meng Chen, Xuemei Chen, Ive De Smet, Christian Fankhauser, Keara A. Franklin, Karen J. Halliday, Scott Hayes, Danhua Jiang, Jae-Hoon Jung, Eirini Kaiserli, S. Vinod Kumar, Daniel Maag, Eunkyoo Oh, Chung-Mo Park, Steven Penfield, Giorgio Perrella, Salome Prat, Rodrigo S. Reis, Philip A. Wigge, Bjorn C. Willige, Martijn van Zanten
TRENDS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Takuya Sakamoto, Yuki Sakamoto, Stefan Grob, Daniel Slane, Tomoe Yamashita, Nanami Ito, Yuka Oko, Tomoya Sugiyama, Takumi Higaki, Seiichiro Hasezawa, Maho Tanaka, Akihiro Matsui, Motoaki Seki, Takamasa Suzuki, Ueli Grossniklaus, Sachihiro Matsunaga
Summary: This study demonstrates the importance of centromere distribution for the maintenance of genome integrity through cytogenic and molecular analysis. The authors propose a two-step regulatory mechanism involving condensin II and the LINC complex to shape the non-Rabl-like centromere distribution in Arabidopsis thaliana.