Article
Plant Sciences
Yuwei Cao, Mengmeng Bi, Panpan Yang, Meng Song, Guoren He, Jing Wang, Yue Yang, Leifeng Xu, Jun Ming
Summary: A yeast one-hybrid library was constructed for the first time in lilies, screening seven candidate transcription factors of LhMYBSPLATTER, which may provide a theoretical basis for the study of floral pigmentation.
Article
Genetics & Heredity
Danwen Fu, Yahui Chen, Feng Gao
Summary: The upstream transcription regulators of the promoter of IbbHLH2 in purple-flesh sweet potatoes were screened and verified. IbERF1 and IbERF10 were identified as key transcription regulators involved in anthocyanin biosynthesis. Gene expression levels of transcription regulators, transcription factors, and structural genes in different stages of purple and white-fleshed sweet potatoes were analyzed.
Review
Microbiology
Benoit Arcangioli, Serge Gangloff
Summary: This article describes how Schizosaccharomyces pombe, a variant of the budding yeast, relies on efficient genetic sex determination and alternating haploid/diploid phases to achieve high reproductive efficiency in response to environmental conditions. By exploring the mating-type switching process and the interaction between genetics and epigenetics, it underscores the significance of basic research in gaining a better understanding of chromatin biology.
MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS
(2023)
Article
Microbiology
Jiaqi Xue, Haodong Zhang, Qingmei Zhao, Shengwei Cui, Kun Yu, Ruohan Sun, Yongtao Yu
Summary: This study investigates the transcriptional regulation of the swnK gene in endophytic fungi of locoweeds. The researchers analyzed the upstream non-coding region of the gene and identified a high transcriptional activity region. Using a yeast one-hybrid system, they screened candidate transcriptional regulatory factors that bind to this region. This study provides new insights into the transcriptional regulation of the swnK gene and lays the foundation for further understanding of the regulatory mechanisms of SW biosynthesis in fungal endophytic locoweeds.
Article
Plant Sciences
Danwen Fu, Yake Hui, Yahui Chen, Shaohua Yang, Feng Gao
Summary: This study identified IbJOX4, IbWRKY1, IbSCF, and IbEIN3-2 as the upstream transcription factors of PIbMYB1-1 involved in anthocyanin biosynthesis in purple-fleshed sweet potato. The results revealed their important regulatory roles in anthocyanin synthesis and provided new insights into the potential mechanism and regulatory network in purple-fleshed sweet potato.
TROPICAL PLANT BIOLOGY
(2022)
Article
Plant Sciences
Jingwen Wang, Jingxin Wang, Ye Zhu, Yan Zhu, Caozhi Liu, Yanyu Chen, Fanli Zeng, Su Chen, Yucheng Wang
Summary: In this study, an improved TF-Centered Y1H method was developed to comprehensively determine the motifs bound by a target TF. Through cloning and sequencing analysis, 22 conserved motifs bound by a plant transcription factor were identified, and their reliability and biological significance were experimentally confirmed.
Article
Biochemistry & Molecular Biology
Shuchao Dong, Jiayi Ling, Liuxia Song, Liping Zhao, Yinlei Wang, Tongmin Zhao
Summary: Drought has a significant impact on tomatoes, leading to tissue dehydration and decreased yield. The key genes involved in dehydration response and tolerance in tomatoes are still not well understood. Dehydration decreases the relative water content of tomato leaves and promotes the content of malondialdehyde and ion leakage. Dehydration also triggers oxidative stress and enhances the activity of antioxidant enzymes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Plant Sciences
D. Tsitsekian, G. Daras, D. Templalexis, F. Avgeri, L. Lotos, C. G. Orfanidou, V. Ntoukakis, V. I. Maliogka, S. Rigas
Summary: Plants have evolved surveillance systems and defense mechanisms to restrict pathogens, with transcription factors (TFs) playing a key role. In this study, a combination of transcriptome analysis, validation, comparative analysis, and co-expression analysis was used to identify 11 highly responsive TFs involved in regulating host responses to PepMV. These findings provide insights into the molecular responses of the tomato-PepMV pathosystem.
Article
Biology
Maria Doroteia Campos, Maria do Rosario Felix, Mariana Patanita, Patrick Materatski, Andre Albuquerque, Joana A. Ribeiro, Carla Varanda
Summary: Tomato, one of the most important vegetable crops worldwide, is affected by various pathogens that reduce yield and affect product quality. Studying the tomato-pathogen system can help us better understand the molecular mechanisms of disease resistance and improve crop yield and product quality. In this review, we provide an overview of recent studies on tomato transcription factors (TFs) involved in defense responses to pathogens, focusing on TF families that are abundant, important, and well-characterized.
Article
Plant Sciences
Chaoyi Hu, Chunyu Wei, Qiaomei Ma, Han Dong, Kai Shi, Yanhong Zhou, Christine H. Foyer, Jingquan Yu
Summary: Jasmonates (JAs) are crucial phytohormones in plant defense, induced by herbivory. Ethylene (ET) and JA production in response to herbivory in tomato leaves are regulated by ETHYLENE RESPONSE FACTOR 15 (ERF15) and ERF16, acting as transcriptional activators of key genes in JA biosynthesis. The results suggest that ET signaling plays a role in the rapid induction of the JA burst in plants under herbivore attack.
Article
Biochemistry & Molecular Biology
Jonna Heldrich, Carolyn R. Milano, Tovah E. Markowitz, Sarah N. Ur, Luis A. Vale-Silva, Kevin D. Corbett, Andreas Hochwagen
Summary: Successful meiotic recombination requires conserved axis proteins, which distribute on chromosomes through two independent pathways: a cohesin-dependent pathway and a cohesin-independent pathway. These pathways result in a stereotypic distribution pattern and the formation of chromatin islands that influence chromosome structure.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biotechnology & Applied Microbiology
David Figueroa, Camila Baeza, Diego Ruiz, Claudia Inzunza, Andres Romero, Rodrigo Toro, Francisco Salinas
Summary: This study aims to expand the molecular versatility of the FUN-LOV switch to increase its applications in biotechnology. By replacing sequences and cloning into a single plasmid, researchers generated new variants of the FUN-LOV system and demonstrated their functionality in different yeast strains.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Multidisciplinary Sciences
Eliana Benincore-Florez, Jorge El-Azaz, Gabriela Alejandra Solarte, Alexander Rodriguez, Luis H. Reyes, Carlos Javier Almeciga-Diaz, Carolina Cardona-Ramirez
Summary: Mucopolysaccharidosis type II (MPS II), also known as Hunter syndrome, is a rare genetic disease that causes severe damage to the central nervous system. The physical interaction between IDS and LSAMP and SYT1 may provide insights into the cellular homeostasis of IDS and the development of therapeutic strategies.
Article
Biology
Jiale Yuan, Ying Liu, Zhenyi Wang, Tianyu Lei, Yanfang Hu, Lan Zhang, Min Yuan, Jinpeng Wang, Yuxian Li
Summary: This study investigates the evolutionary history of the NAC family in tomatoes through a bioinformatics approach, and finds that NAC genes from different sources play different regulatory roles in tomato fruit ripening.
Article
Biochemical Research Methods
Kaitlyn Bacon, Abigail Blain, John Bowen, Matthew Burroughs, Nikki McArthur, Stefano Menegatti, Balaji M. Rao
Summary: The article introduces a qYY2H system for discovering specific protein-protein interactions and quantitatively estimating their binding affinities, achieved by expressing bait and prey proteins as yeast cell surface fusions in experiments. This system can identify protein interactions and evaluate their binding affinities.
ACS SYNTHETIC BIOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Ruud A. de Maagd, Annelies Loonen, Jihed Chouaref, Alexandre Pele, Fien Meijer-Dekens, Paul Fransz, Yuling Bai
PLANT BIOTECHNOLOGY JOURNAL
(2020)
Review
Plant Sciences
Rufang Wang, Gerco C. Angenent, Graham Seymour, Ruud A. de Maagd
TRENDS IN PLANT SCIENCE
(2020)
Article
Plant Sciences
Yury M. Tikunov, Raana Roohanitaziani, Fien Meijer-Dekens, Jos Molthoff, Joao Paulo, Richard Finkers, Iris Capel, Fatima Carvajal Moreno, Chris Maliepaard, Mariska Nijenhuis-de Vries, Caroline W. Labrie, Wouter Verkerke, Adriaan W. van Heusden, Fred van Eeuwijk, Richard G. F. Visser, Arnaud G. Bovy
Article
Biochemistry & Molecular Biology
Rufang Wang, Michiel Lammers, Yury Tikunov, Arnaud G. Bovy, Gerco C. Angenent, Ruud A. de Maagd
Article
Genetics & Heredity
Jedrzej Szymanski, Samuel Bocobza, Sayantan Panda, Prashant Sonawane, Pablo D. Cardenas, Justin Lashbrooke, Avinash Kamble, Nir Shahaf, Sagit Meir, Arnaud Bovy, Jules Beekwilder, Yury Tikunov, Irene Romero de la Fuente, Dani Zamir, Ilana Rogachev, Asaph Aharoni
Article
Chemistry, Multidisciplinary
Gurnoor Singh, Arnold Kuzniar, Matthijs Brouwer, Carlos Martinez-Ortiz, Christian W. B. Bachem, Yury M. Tikunov, Arnaud G. Bovy, Richard G. F. Visser, Richard Finkers
APPLIED SCIENCES-BASEL
(2020)
Article
Plant Sciences
M. Victoria Barja, Miguel Ezquerro, Stefano Beretta, Gianfranco Diretto, Igor Florez-Sarasa, Elisenda Feixes, Alessia Fiore, Rumyana Karlova, Alisdair R. Fernie, Jules Beekwilder, Manuel Rodriguez-Concepcion
Summary: GGPPS family members in tomato's plastids interact with PSY isoforms, with SlG2 physically interacting with PSY proteins. CRISPR-Cas9 mutants showed that defects in SlG3 have a greater impact on carotenoid levels and derived phenotypes compared to defects in SlG2.
Review
Plant Sciences
Nicholas J. Bate, Christopher D. Dardick, Ruud A. de Maagd, Robert W. Williams
Summary: The recent development of gene editing technology has brought new opportunities for the improvement of specialty crops, but challenges such as complex genomes, polyploidy, and long breeding cycles still exist. Some specialty crops, like tomatoes, have already begun utilizing gene editing techniques, serving as a blueprint for the continued improvement of other specialty crops that have not seen significant genetic enhancements in centuries.
IN VITRO CELLULAR & DEVELOPMENTAL BIOLOGY-PLANT
(2021)
Review
Plant Sciences
Ayodeji O. Deolu-Ajayi, Ingrid M. van der Meer, Adrie van der Werf, Rumyana Karlova
Summary: Seaweed extracts have been shown to enhance crop growth performance and nutrient uptake, but further research is needed to understand the specific mechanisms underlying their actions.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Biotechnology & Applied Microbiology
Ellen Slaman, Michiel Lammers, Gerco C. C. Angenent, Ruud A. A. de Maagd
Summary: CRISPR/Cas9 technology has the potential to enhance plant breeding by designing specific guide RNAs for targeted gene editing. This study focused on the specificity and mutagenesis of SpCas9 in tomato and found that predicted off-target mutations occurred only at positions with one or two mismatches. Ribonucleoprotein transfections were also shown to decrease off-target mutation frequencies in some sites. These findings provide valuable insights for sgRNA design and understanding of Cas9-induced mutations.
FRONTIERS IN GENOME EDITING
(2023)
Review
Agriculture, Multidisciplinary
Mark H. J. Sturme, Jan Pieter van der Berg, Lianne M. S. Bouwman, Adinda De Schrijver, Ruud A. de Maagd, Gijs A. Kleter, Evy Battaglia-de Wilde
Summary: CRISPR-Cas-based genome editing allows for precise and targeted genetic modification of plants, but unintended off-target edits can increase risks for gene-edited food crops. Most observed off-target changes are small insertions, deletions, or nucleotide substitutions, with large deletions being rare. Off-target sites have few mismatches with the target sequence and are mainly located in protein-coding regions, often in target gene homologues. Off-target edits are primarily detected through biased analysis of predicted off-target sites. CRISPR-Cas-edited plants show lower off-target mutation frequencies compared to conventionally bred plants. This review can assist in discussing the relevance of evaluating off-target modifications for risk assessment of CRISPR-Cas-edited plants.
ACS AGRICULTURAL SCIENCE & TECHNOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Xiaobing Jiang, Greice Lubini, Jose Hernandes-Lopes, Kim Rijnsburger, Vera Veltkamp, Ruud A. de Maagd, Gerco C. Angenent, Marian Bemer
Summary: Tomato FUL-like genes FUL2 and MADS-BOX PROTEIN 20 (MBP20) promote the transition from vegetative to reproductive state and repress inflorescence branching by inducing floral meristem maturation. The control of inflorescence branching may be regulated by repression of transcription factors such as TOMATO MADS-box gene 3 (TM3) and APETALA 2b (AP2b). The tomato FUL-like proteins can form heterodimers with various MADS-domain proteins, potentially forming distinct complexes to regulate flowering time and inflorescence architecture.
Article
Plant Sciences
Rumyana Karlova, Damian Boer, Scott Hayes, Christa Testerink
Summary: Root system architecture plasticity is crucial for plant survival and growth under various abiotic stresses, as plants can adjust their root structures to adapt to their environment and develop root systems conducive to growth. Additionally, plants can respond to different abiotic stresses through hormonal regulation and molecular mechanisms.
Article
Genetics & Heredity
Raana Roohanitaziani, Ruud A. de Maagd, Michiel Lammers, Jos Molthoff, Fien Meijer-Dekens, Martijn P. W. van Kaauwen, Richard Finkers, Yury Tikunov, Richard G. F. Visser, Arnaud G. Bovy