Review
Plant Sciences
Zhicheng Jiao, Huan Du, Shu Chen, Wei Huang, Liangfa Ge
Summary: Adapting to the gravitational field is crucial for terrestrial plants to thrive on Earth. The LAZY gene family has been identified as a key player in the early stages of gravity signaling, ensuring proper auxin redistribution for both roots and shoots upon gravistimulation. Research on LAZY genes has significantly advanced our understanding of plant gravitropism and revealed new molecular details of early gravitropism events.
FRONTIERS IN PLANT SCIENCE
(2021)
Review
Biochemistry & Molecular Biology
Nataliia Konstantinova, Barbara Korbei, Christian Luschnig
Summary: Root architecture and growth play a crucial role in crop performance and yield, making it a highly relevant field of research in plant sciences. The root system of Arabidopsis thaliana serves as an ideal model for studying key parameters and molecular players involved in root growth responses to environmental stimuli. This review focuses on the function of PIN-FORMED auxin transport proteins, emphasizing their sorting and polarity control, and aims to integrate the wealth of information available on mechanisms and pathways to enhance understanding of auxin's role in higher plants.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Alessandra Rogato, Vladimir Totev Valkov, Marcin Nadzieja, Jens Stougaard, Maurizio Chiurazzi
Summary: The LjAFB6 gene is preferentially expressed in the aerial portion of L. japonicus plants and is induced in response to nitrate supply in roots. It plays a specialized role in regulating primary and lateral root elongation processes in response to auxin, but is not involved in the nodulation process.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Multidisciplinary Sciences
Takashi Goto, Takashi Soyano, Meng Liu, Tomoko Mori, Masayoshi Kawaguchi
Summary: Nodule development requires spatiotemporal coordination between root epidermis and root cortex. In this study, we found that IAA carboxyl methyltransferase 1 (IAMT1) is transiently induced in wild-type roots at early stages of infection, but shows different expression dynamics in the mutant daphne. Knockdown of one of the IAMT1s, IAMT1a, inhibits nodule development in the root cortex. We also observed an increase in root MeIAA levels with rhizobial infection, and application of MeIAA induces expression of the symbiotic gene NIN in the absence of infection.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Plant Sciences
Arina Shrestha, Sihui Zhong, Jasmine Therrien, Terry Huebert, Shusei Sato, Terry Mun, Stig U. Andersen, Jens Stougaard, Agnes Lepage, Andreas Niebel, Loretta Ross, Krzysztof Szczyglowski
Summary: Legume root nodule organogenesis is initiated by the stimulation of root cells and involves the regulation of specific gene families to promote cellular differentiation and auxin signaling. The emergence of nodules is dependent on a regulatory cascade involving NF-YA1, STY genes, and downstream targets YUCCA1 and YUCCA11. These genes are important regulators of auxin signaling during the specific stage of nodule emergence in Lotus japonicus and Medicago truncatula.
Article
Plant Sciences
Despina Samakovli, Loukia Roka, Anastasia Dimopoulou, Panagiota Konstantinia Plitsi, Asta Zukauskaite, Paraskevi Georgopoulou, Ondrej Novak, Dimitra Milioni, Polydefkis Hatzopoulos
Summary: HSP90 plays a crucial role in regulating auxin distribution and signaling in plants, affecting root growth, gravity response, and lateral root formation. The depletion of HSP90 results in distorted polar distribution of auxin and impaired root gravitropism, highlighting the essential role of HSP90 in auxin homeostasis during plant development.
Article
Biochemistry & Molecular Biology
Shiv Mani Dubey, Soeun Han, Nathan Stutzman, Michael J. Prigge, Eva Medvecka, Matthieu Pierre Platre, Wolfgang Busch, Matyas Fendrych, Mark Estelle
Summary: The phytohormone auxin triggers root growth inhibition within seconds via a non-transcriptional pathway. The AFB1 protein plays a crucial role in this rapid response, and its N-terminal region, including the F-box domain and residues contributing to auxin binding, is essential for its specific function. A substitution of the N-terminal region of AFB1 disrupts its cytoplasmic localization and activity in rapid root growth inhibition. Moreover, AFB1 is involved in calcium influx triggered by auxin and negatively regulates lateral root formation and transcription of auxin-induced genes.
Review
Plant Sciences
Jessica Marie Waite, Christopher Dardick
Summary: Genetic improvement of architectural traits, especially gravitropic set point angle (GSA), is crucial for increasing crop productivity. IGT family genes play important roles in different plant species and are significant for crop domestication.
CURRENT OPINION IN PLANT BIOLOGY
(2021)
Article
Multidisciplinary Sciences
Qingqing Wang, Marco Marconi, Chunmei Guan, Krzysztof Wabnik, Yuling Jiao
Summary: The flattened leaf form is crucial for efficient photosynthesis, and recent studies have shown that communication between the shoot apical meristem (SAM) and leaf primordia, mediated by polar auxin transport (PAT), plays a role in leaf blade formation. This research combines experimental observations and computer model simulations to demonstrate that microsurgical incisions and local inhibition of PAT in tomato can interfere with auxin transport, resulting in altered leaf blade shape. The study also reveals the role of auxin patterning and gene expression in leaf formation.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Krisztina Otvos, Marco Marconi, Andrea Vega, Jose O'Brien, Alexander Johnson, Rashed Abualia, Livio Antonielli, Juan Carlos Montesinos, Yuzhou Zhang, Shutang Tan, Candela Cuesta, Christina Artner, Eleonore Bouguyon, Alain Gojon, Jiri Friml, Rodrigo A. Gutierrez, Krzysztof Wabnik, Eva Benkova
Summary: The availability of nitrogen in soil is crucial for plant growth, where plants have evolved different strategies to sense and respond to heterogeneous nitrogen distribution. The coordination of root growth in response to different nitrogen sources involves modulation of root system architecture and auxin flux between tissue layers. This study provides mechanistic insights into the dynamic mechanisms of root growth in response to nitrogen sources, with implications for agricultural productivity.
Article
Biochemistry & Molecular Biology
Fabrizio Araniti, Emanuela Talarico, Maria Letizia Madeo, Eleonora Greco, Marco Minervino, Sara Alvarez-Rodriguez, Antonella Muto, Michele Ferrari, Adriana Chiappetta, Leonardo Bruno
Summary: This study investigates the mechanisms underlying the phytotoxicity of Cadmium (Cd) on Arabidopsis thaliana. The results reveal that Cd inhibits primary root elongation by affecting cell expansion in the meristem zone. Cd also alters Auxin accumulation and affects the polar transporters PINs, particularly PIN2. Additionally, high Cd concentration induces accumulation of reactive oxygen species (ROS) in roots, resulting in altered microtubules organization, starch and sucrose metabolism, and gravitropic root response.
Article
Multidisciplinary Sciences
Jieshun Lin, Yuda Purwana Roswanjaya, Wouter Kohlen, Jens Stougaard, Dugald Reid
Summary: Legumes balance nitrate signaling and symbiotic nitrogen fixation through cytokinin biosynthesis, with low nitrate conditions promoting cytokinin induction and high nitrate inhibiting it. This differential response is further seen in mutants, which show hypersensitivity to nitrate inhibition but can be rescued by cytokinin application. Nitrate's inhibitory effect on symbiosis occurs in a Nlp1 and Nlp4 dependent manner, contrasting with its positive influence on non-legumes.
NATURE COMMUNICATIONS
(2021)
Article
Biochemistry & Molecular Biology
Jiayue Chen, Renbo Yu, Na Li, Zhaoguo Deng, Xinxin Zhang, Yaran Zhao, Chengfu Qu, Yanfang Yuan, Zhexian Pan, Yangyang Zhou, Kunlun Li, Jiajun Wang, Zhiren Chen, Xiaoyi Wang, Xiaolian Wang, Shu-Nan He, Juan Dong, Xing Wang Deng, Haodong Chen
Summary: This study provides a molecular interpretation for the starch-statolith hypothesis by revealing the role of phosphorylation-mediated interaction between LAZY proteins and amyloplasts in gravity sensing. It also demonstrates how this interaction influences root differential growth through asymmetrical auxin distribution.
Article
Agronomy
Wenqiang Li, Minjuan Zhang, Lei Qiao, Yunbo Chen, Dapeng Zhang, Xiuqing Jing, Pengfei Gan, Yangbin Huang, Junru Gao, Wenting Liu, Chunhai Shi, Hongchang Cui, Haifeng Li, Kunming Chen
Summary: Gravity plays a role in root system architecture, and the loss of function of the OsPIN2 gene in the rice wavy root 1 (war1) mutant leads to altered root architecture, disrupted auxin transport, decreased amyloplast sedimentation, and impaired ABA signaling. OsPIN2 not only regulates root gravitropism through auxin transport, but also affects seed germination and root development through ABA signaling.
Article
Multidisciplinary Sciences
Alvaro Montesinos, Chris Dardick, Maria Jose Rubio-Cabetas, Jerome Grimplet
Summary: The IGT gene family in almond shows high conservation across different cultivars and wild species, with little variability observed. Among the members of this family, only LAZY1, LAZY2, and TAC1 were found to be expressed during the growing season in almond shoot tips. While no correlation was found between the expression or genetic polymorphism of IGT family genes and the diversity of tree habit, other gene families may contribute to the variability of these traits.
Review
Plant Sciences
Estibaliz Larrainzar, Irene Villar, Maria Carmen Rubio, Carmen Perez-Rontome, Raul Huertas, Shusei Sato, Jeong-Hwan Mun, Manuel Becana
Article
Genetics & Heredity
Nadia Kamal, Terry Mun, Dugald Reid, Jie-Shun Lin, Turgut Yigit Akyol, Niels Sandal, Torben Asp, Hideki Hirakawa, Jens Stougaard, Klaus F. X. Mayer, Shusei Sato, Stig Uggerhoj Andersen
Article
Microbiology
Masaru Bamba, Seishiro Aoki, Tadashi Kajita, Hiroaki Setoguchi, Yasuyuki Watano, Shusei Sato, Takashi Tsuchimatsu
FEMS MICROBIOLOGY ECOLOGY
(2020)
Article
Plant Sciences
Arina Shrestha, Sihui Zhong, Jasmine Therrien, Terry Huebert, Shusei Sato, Terry Mun, Stig U. Andersen, Jens Stougaard, Agnes Lepage, Andreas Niebel, Loretta Ross, Krzysztof Szczyglowski
Summary: Legume root nodule organogenesis is initiated by the stimulation of root cells and involves the regulation of specific gene families to promote cellular differentiation and auxin signaling. The emergence of nodules is dependent on a regulatory cascade involving NF-YA1, STY genes, and downstream targets YUCCA1 and YUCCA11. These genes are important regulators of auxin signaling during the specific stage of nodule emergence in Lotus japonicus and Medicago truncatula.
Article
Horticulture
Tomoki Matsuyama, Manabu Watanabe, Yuri Murota, Nanako Nakata, Hisashi Kitamura, Takashi Shimokawa, Toshikazu Ebisuzaki, Satoshi Wada, Shusei Sato, Satoshi Tabata
SCIENTIA HORTICULTURAE
(2020)
Article
Plant Sciences
Bogumil J. Karas, Loretta Ross, Mara Novero, Lisa Amyot, Arina Shrestha, Sayaka Inada, Michiharu Nakano, Tatsuya Sakai, Dario Bonetta, Sushei Sato, Jeremy D. Murray, Paola Bonfante, Krzysztof Szczyglowski
Summary: Root hair cells are crucial for nutrient uptake and defense in plants, with the gene CSLD1 playing a role in root hair development in the legume species Lotus japonicus. Multiple mutant alleles of Ljcsld1 result in varying root hair phenotypes, with certain mutations affecting root nodule symbiosis. Intragenic complementation is observed between alleles with mutations in different CSLD1 domains, suggesting modular function of CSLD1 during root hair development.
Article
Biochemistry & Molecular Biology
Natalya Kudryavtseva, Aleksey Ermolaev, Gennady Karlov, Ilya Kirov, Masayoshi Shigyo, Shusei Sato, Ludmila Khrustaleva
Summary: The study aimed to improve the reliability of genome assembly at the chromosome level and develop a simpler and more reliable method for in situ mapping of short unique DNA sequences on plant chromosomes. By adjusting key steps, the short DNA sequence was successfully detected and a new dual-color Tyr-FISH visualization protocol was developed.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Ecology
Haruka Arashida, Haruka Odake, Masayuki Sugawara, Ryota Noda, Kaori Kakizaki, Satoshi Ohkubo, Hisayuki Mitsui, Shusei Sato, Kiwamu Minamisawa
Summary: Symbiosis between organisms influences evolution through adaptive changes in genome architectures. Interactions between soybeans and Bradyrhizobium involve IS-mediated duplications and deletions on symbiosis islands, with host plants selecting mutualistic variants from the pool of rhizobial populations. Homologous recombination between direct IS copies provides a natural mechanism for generating deletions and duplications in symbiosis islands.
Article
Genetics & Heredity
Richard Finkers, Martijn van Kaauwen, Kai Ament, Karin Burger-Meijer, Raymond Egging, Henk Huits, Linda Kodde, Laurens Kroon, Masayoshi Shigyo, Shusei Sato, Ben Vosman, Wilbert van Workum, Olga Scholten
Summary: This study presents the de novo assembly and annotation of the onion genome, resulting in a high-quality sequence for future research on onion genetics. The genome assembly revealed insights into the repetitive sequences and gene distribution, as well as the synteny with garlic, showing both collinearity and major rearrangements between the two species.
G3-GENES GENOMES GENETICS
(2021)
Article
Microbiology
Shintaro Hara, Naohisa Wada, Sliver Sung-Yun Hsiao, Meng Zhang, Zhihua Bao, Yoshiyuki Iizuka, Der-Chuen Lee, Shusei Sato, Sen-Lin Tang, Kiwamu Minamisawa
Summary: This study demonstrates that type II methanotrophs in the root tissues of paddy rice perform methane oxidation and nitrogen fixation simultaneously at the single-cell level. The findings provide direct evidence of the activities of methanotrophs in root tissues, suggesting that they may provide fixed nitrogen to root systems or depend on different microenvironmental niches.
Article
Plant Sciences
Yusdar Mustamin, Turgut Yigit Akyol, Max Gordon, Andi Madihah Manggabarani, Yoshiko Isomura, Yasuko Kawamura, Masaru Bamba, Cranos Williams, Stig Uggerhj Andersen, Shusei Sato
Summary: This research found that winter survival was the direct target of selection during colonization of Japan by Lotus japonicus. Two candidate genes, FERONIA-receptor like kinase (LjFER) and a S-receptor-like kinase gene (LjLecRK), were identified to be required for non-acclimated freezing tolerance and exhibited haplotype-dependent cold-responsive expression. The study suggests that incorporating a conserved growth regulator gene, FER, and a receptor-like kinase gene, LecRK, into the cold-responsive genes contributed to freezing tolerance and local climate adaptation in L. japonicus, providing insights into the genetic mechanisms of perennial herb evolution.
Article
Genetics & Heredity
Daisuke Sekine, Satoshi Oku, Tsukasa Nunome, Hideki Hirakawa, Mai Tsujimura, Toru Terachi, Atsushi Toyoda, Masayoshi Shigyo, Shusei Sato, Hikaru Tsukazaki
Summary: This study presents a genome-wide marker design workflow for onions, which is applied in a high-throughput genotyping method using target amplicon sequencing. The efficiency of the method is evaluated by genotyping F-2 populations. The results show that our marker design workflow and target amplicon sequencing are useful for genome-wide genotyping of onions. However, there are missing or sparse marker regions in the resulting genetic linkage map, which need further improvement.
Article
Biotechnology & Applied Microbiology
Shohei Kusakabe, Nahoko Higasitani, Takakazu Kaneko, Michiko Yasuda, Hiroki Miwa, Shin Okazaki, Kazuhiko Saeki, Atsushi Higashitani, Shusei Sato
MICROBES AND ENVIRONMENTS
(2020)
Article
Plant Sciences
Yuki Nishida, Reona Hiraoka, Satomi Kawano, Norio Suganuma, Shusei Sato, Satoshi Watanabe, Toyoaki Anai, Susumu Arima, Akiyoshi Tominaga, Akihiro Suzuki
SOIL SCIENCE AND PLANT NUTRITION
(2020)