Article
Plant Sciences
Jiao Zhang, Xiulian Chi, Juying Zhong, Alisdair Fernie, Saleh Alseekh, Luqi Huang, Dan Qian
Summary: This study found non-concerted evolution of internal transcribed spacer (ITS) sequences in the genus Lycium, showing high levels of polymorphism. The ITS paralogues were identified as pseudogenes or functional copies, with distinct differences from their corresponding functional copies. The results suggest a link between the non-concerted evolution of ITS and recent divergence of tandem repeats within the Lycium genome and hybridization between species.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Microbiology
Fernando Martinez-Hernandez, Fabiola Sanchez-Aguillon, Joel Martinez-Ocana, Nelly Raquel Gonzalez-Arenas, Mirza Romero-Valdovinos, Eduardo Lopez-Escamilla, Pablo Maravilla, Guiehdani Villalobos
Summary: This study evaluated the genetic variability of the ITS region and pfor A gene of Trichomonas vaginalis from female patients and explored its implications in the host-parasite relationship. Results showed two main clusters in the ITS haplotypes and suggested that pfor A could be used as a marker for confirming trichomonads genus and species.
Article
Microbiology
Aisha Umar
Summary: Laccases have high biotechnological potential in industries due to their ability to catalyze the oxidation of various compounds. This study screened 10 Trichoderma species for laccase production, with T. atroviride showing the highest laccase production among them. Further analysis included purification, molecular weight determination, amino acid sequence confirmation, and phylogenetic tree construction of the laccase from T. atroviride.
ARCHIVES OF MICROBIOLOGY
(2021)
Article
Food Science & Technology
Alice Giusti, Enrica Ricci, Laura Gasperetti, Marta Galgani, Luca Polidori, Francesco Verdigi, Roberto Narducci, Andrea Armani
Summary: This study aimed to build an ITS gene dataset to aid the Italian Health Service in mushroom identification. By retrieving and filtering ITS sequences from GenBank and BOLD databases, as well as collecting wild specimens, a dataset of 5977 sequences was successfully established to support regional poisoning cases.
Article
Mycology
Junichiro Hiruma, Honoka Nojo, Hitoshi Tsuchihashi, Hiromitsu Noguchi, Masataro Hiruma, Kazutoshi Harada, Rui Kano
Summary: In this study, T. interdigitale isolates were obtained from Japanese patients and their ITS types were investigated. The results showed that all 29 isolates belong to ITS type II, while one clinical isolate of T. mentagrophytes was similar to ITS type II*. Additionally, a terbinafine-resistant strain of T. interdigitale also belonged to ITS type II.
Article
Immunology
Gobena Ameni, Alebachew Messele Kebede, Aboma Zewude, Musse Girma Abdulla, Rahel Asfaw, Mesfin Mamo Gobena, Martina Kyalo, Francesca Stomeo, Balako Gumi, Teshale Sori
Summary: This study conducted a phylogenetic analysis of Histoplasma capsulatum isolated from cases of epizootic lymphangitis (EL) in horses in central Ethiopia and evaluated their relationship with isolates from other countries and clades. By analyzing the internal transcribed spacer (ITS) region of rRNA genes, the study identified different clades of H. capsulatum and revealed that the Ethiopian isolates were closely related to isolates from Latin America and Eurasia, but distantly related to isolates from North America.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2022)
Article
Agronomy
Mostafa Nafaa, Samah Mohamed Rizk, Tahany Abdel-Ghafar Ahmed Aly, Mohamed Abdel-Salam Rashed, Diaa Abd El-Moneim, Abir Ben Bacha, Mona Alonazi, Mahmoud Magdy
Summary: In this study, fungal diversity in newly reclaimed land in Egypt was investigated. The results showed that these fungi can enhance nutrient availability in the soil and produce the plant growth hormone IAA. The findings suggest the potential of developing fungal biofertilizers for improving agriculture reclamation processes and practices.
Article
Horticulture
Majda El Amri, Moez Amri, El Mostafa Kadir, Zine El Abidine Triqui, Slimane Khayi, Rachid Mentag
Summary: In this study, the broomrape species attacking fennel in Morocco was identified as Phelipanche schultzii through morphological and molecular analysis. This is the first record of P. schultzii parasitizing fennel in Morocco, highlighting the need for urgent control measures to prevent its further spread.
Article
Microbiology
Shuqian Hu, Xiang Li, Xin Yin, Runmeng Li, Ruiyang Zhang, Junhao Zang, Yin Liu
Summary: This study developed a species-specific method for identification and classification of Pseudomonas based on ITS sequences combined with next-generation sequencing (NGS).
Article
Microbiology
Wael A. Fathy, Natascha Techen, Khaled N. M. Elsayed, Ehab A. Essawy, Eman Tawfik, Khairiah Mubarak Alwutayd, Mohamed S. Abdelhameed, Ola Hammouda, Samir A. Ross
Summary: The absence of proper identification and documentation of microalgae is a common concern in the field of applied phycology, algal physiology, and biochemistry publications. A promising solution lies in employing DNA barcoding techniques and establishing comprehensive databases of reference sequences. This study focuses on the molecular characterization and strain identification of Tetraselmis and Chlorella species using the internal transcribed spacer (ITS) barcode approach.
FRONTIERS IN MICROBIOLOGY
(2023)
Article
Parasitology
Tong Wang, Elizabeth M. Redman, Arianna Morosetti, Rebecca Chen, Sarah Kulle, Natasha Morden, Christopher McFarland, Hannah Rose Vineer, Douglas D. Colwell, Eric R. Morgan, John S. Gilleard
Summary: The study in western Canada showed the accumulation of gastrointestinal nematode (GIN) larvae on pasture, with similar dynamics for different GIN species on different farms. Short-term microclimatic conditions were found to impact the population of L3 larvae on the pasture.
PARASITES & VECTORS
(2021)
Article
Microbiology
Tatyana Darienko, Cecilia Rad-Menendez, Christine N. Campbell, Thomas Proeschold
Summary: Most marine coccoid and sarcinoid green algal species have traditionally been categorized within genera dominated by species from freshwater or soil habitats, such as Chlorocystis and Halochlorococcum. However, their familial and ordinal affinities are unclear. Studies have confirmed their placement in the Chlorocystidales order of the Ulvophyceae, along with the sarcinoid genus Desmochloris. The ITS-2/CBC approach identified new species and combinations within these genera.
Article
Microbiology
Nadia Stoppani, Silvia Colussi, Paolo Pastorino, Marino Prearo, Simona Sciuto, Ilhan Altinok, Rafet Cagri Ozturk, Mustafa Ture, Ana Isabel Vela, Maria del Mar Blanco, Charalampos Kotzamanidis, Konstantina Bitchava, Andigoni Malousi, Lucio Fariano, Donatella Volpatti, Pier Luigi Acutis, Jose Francisco Fernandez-Garayzabal
Summary: The aim of this study was to use the transcribed spacer (ITS) region between 16S rRNA and 23S rRNA as a potential useful molecular target to differentiate L. garvieae from L. petauri for accurate discrimination between these two species. Seven SNPs were identified that separate L. garvieae from L. petauri based on the ITS region sequence. The 16S-23S rRNA ITS region can be used as a diagnostic marker to quickly identify the pathogens in a lactococcosis outbreak.
Article
Plant Sciences
Jillian M. Freese, Christopher E. Lane
Summary: Red algal parasites are highly host specific organisms that are morphologically reduced with decreased pigmentation. Molecular data have repeatedly demonstrated that red algal parasites often resolve within the same genus as their hosts, rather than forming a monophyletic parasitic genus.
Article
Biotechnology & Applied Microbiology
Yun Song, Wenjun Zhao, Jin Xu, MingFu Li, Yongjiang Zhang
Summary: This study sequenced the chloroplast genome of Styrax plants and investigated their evolutionary history and species identification rate. The chloroplast genome of Styrax contains typical structures and unique genes. By comparing with other sequences, mutation hotspots and Styrax-specific DNA barcodes were identified. The chloroplast phylogenomic results improved our understanding of the phylogenetic relationships of Styrax.
BIOMED RESEARCH INTERNATIONAL
(2022)
Article
Plant Sciences
Katsuaki Takechi, Hiroaki Nagase, Tomoyuki Furuya, Koro Hattori, Yoshikatsu Sato, Kensuke Miyajima, Tomofumi Higuchi, Ryuya Matsuda, Susumu Takio, Hirokazu Tsukaya, Hiroyoshi Takano
Summary: This study found that the PpAN2 genes play a crucial role in cell elongation regulation in moss plants, showing partial redundancy with the PpAN1 genes. Additionally, transgenic experiments revealed that the activity of AN is dependent on the N-terminal regions.
Article
Developmental Biology
Mariko Asaoka, Mao Ooe, Shizuka Gunji, Pascale Milani, Gael Runel, Gorou Horiguchi, Olivier Hamant, Shinichiro Sawa, Hirokazu Tsukaya, Ali Ferjani
Summary: The unbalanced growth of inner and outer tissues in the clavata3 de-etiolated3 (clv3 det3) mutant of Arabidopsis thaliana result in stretched epidermal cells, generating cracks in stems. Stems slowed their growth before cracks appeared. Epidermal cell wall stiffness decreased in det3 and clv3 det3 epidermises, impacting stem integrity.
Article
Plant Sciences
Yuta Otsuka, Hirokazu Tsukaya
Summary: Organisms exhibit various three-dimensional structures that change over time, including twisting which is linked to essential adaptive functions. Despite its significance, there is a lack of rigorous methods for quantifying twisting in plant organs. This study introduces a novel approach for quantifying the 3D twisting angles of Arabidopsis petioles and highlights the potential impact of differential growth on pronounced twisting.
JOURNAL OF PLANT RESEARCH
(2021)
Article
Multidisciplinary Sciences
Yuki Doll, Hiroyuki Koga, Hirokazu Tsukaya
Summary: This study explores the intrageneric diversity in the patterns of meristemoid division within the ecologically diverse genus Callitriche. Terrestrial and amphibious species of Callitriche exhibit different division patterns of meristemoids before differentiating into stomata, which is associated with the expression times of the key transcription factors SPEECHLESS and MUTE. The findings imply the adaptive significance of diversity in meristemoid division and provide insights for ecological evolutionary developmental biology investigations of stomata.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Plant Sciences
Tomoyuki Furuya, Haruka Shinkawa, Masataka Kajikawa, Ryuichi Nishihama, Takayuki Kohchi, Hideya Fukuzawa, Hirokazu Tsukaya
Summary: DYRK family, particularly the plant-specific DYRKPs subgroup, plays crucial roles in the morphogenesis of plants, with MpDYRKP in Marchantia polymorpha contributing significantly to orderly tissue morphogenesis by regulating cell shape.
JOURNAL OF PLANT RESEARCH
(2021)
Article
Plant Sciences
Eftychios Frangedakis, Manuel Waller, Tomoaki Nishiyama, Hirokazu Tsukaya, Xia Xu, Yuling Yue, Michelle Tjahjadi, Andika Gunadi, Joyce Van Eck, Fay-Wei Li, Peter Szovenyi, Keiko Sakakibara
Summary: Significant progress has been made in establishing a transformation method for the hornwort model species A. agrestis, enabling the study of hornwort biology at a molecular and genetic level. This technique has opened up possibilities for understanding molecular mechanisms related to symbiosis, carbon-concentrating mechanism, RNA editing, and overall land plant evolution.
Article
Genetics & Heredity
Hiromitsu Tabeta, Shunsuke Watanabe, Keita Fukuda, Shizuka Gunji, Mariko Asaoka, Masami Yokota Hirai, Mitsunori Seo, Hirokazu Tsukaya, Ali Ferjani
Summary: This study investigated the role of IBA in regulating cell and organ size in plants, demonstrating that IBA can promote CCE. However, defects in IBA-to-IAA conversion, IAA response, or V-ATPase activity cancel CCE, highlighting the crucial interplay between metabolism and auxin levels in fine-tuning cell and organ size regulation in plants.
Article
Plant Sciences
Haruka Shinkawa, Masataka Kajikawa, Tomoyuki Furuya, Ryuichi Nishihama, Hirokazu Tsukaya, Takayuki Kohchi, Hideya Fukuzawa
Summary: This study discovered the important role of DYRKs protein kinases, specifically the MpYAK1 subfamily, in regulating plant growth and development in the liverwort Marchantia polymorpha. MpYAK1 was found to be involved in maintaining plant responses to light conditions and nutrient signaling.
PLANT AND CELL PHYSIOLOGY
(2022)
Article
Cell Biology
Takuya Norizuki, Naoki Minamino, Miyuki Sato, Hirokazu Tsukaya, Takashi Ueda
Summary: Mitochondria undergo reorganization through fission and autophagic degradation during spermiogenesis in the bryophyte Marchantia polymorpha. The process also involves nonautophagic organelle degradation, and multiple degradation mechanisms operate in organelle remodeling.
Article
Developmental Biology
Ayaka Kinoshita, Makiko Naito, Zining Wang, Yasuhiro Inoue, Atsushi Mochizuki, Hirokazu Tsukaya
Summary: This study compared the cell proliferative zones in floral organs and leaf organs under different conditions and found that the shape of floral organs depends on the position of the meristem, while the shape of leaf organs depends on the cell division angles.
Article
Plant Sciences
Yuki Doll, Hiroyuki Koga, Hirokazu Tsukaya
Summary: Stomata are crucial for gas exchange in plants, but the mechanisms behind their development are not well understood. A recent study proposed a model for the diversification of stomatal development based on the genus Callitriche. By manipulating gene expression in Arabidopsis, researchers were able to generate plants with different stomatal patterns, supporting the proposed model. The study also revealed the involvement of additional factors in stomatal development, providing new insights into the evolution of stomatal patterns.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Biochemistry & Molecular Biology
Hirokazu Tsukaya
Summary: Leaf organogenesis is regulated by the spatiotemporal activity of leaf meristems, with plate meristem and marginal meristem playing distinct roles in leaf growth. Although these two meristems are regulated by different factors, many details of their regulatory systems are still unclear. The relationship between plate meristem and marginal meristem remains a major unsolved question in the field.
Article
Biochemistry & Molecular Biology
Yuki Doll, Hiroyuki Koga, Hirokazu Tsukaya
Summary: Controlling the distribution of stomata is crucial for plants to adapt to new environments. Different plant species have evolved different stomatal distribution modes, driven by selective pressures. The genus Callitriche is proposed as a new model system to study the evolution of stomatal distribution patterns.
PLANT SIGNALING & BEHAVIOR
(2021)
Article
Biochemistry & Molecular Biology
Hiroyuki Koga, Mikiko Kojima, Yumiko Takebayashi, Hitoshi Sakakibara, Hirokazu Tsukaya
Summary: Heterophylly refers to the phenomenon of different leaf forms in a single plant based on environmental conditions, with extensive cell elongation and rearrangement of cortical microtubules observed in submerged leaves of the aquatic plant Callitriche palustris. Hormones such as gibberellin, ethylene, and abscisic acid play a role in regulating submerged leaf formation, while the molecular mechanism controlling heterophylly in C. palustris involves hormonal changes and diverse transcription factor gene expression profiles, differing from previously studied amphibious plants.
Article
Plant Sciences
Akira Nukazuka, Takahiro Yamaguchi, Hirokazu Tsukaya
Summary: The distinct adaxial-abaxial identity of angiosperm leaves is crucial for their flat shape, but some unifacial leaves show flattened morphology independent of this identity. This study suggests that the outgrowth of unifacial leaves relies on proper placement of auxin, which induces initial leaf flattening and subsequently acts to specify leaf polarity, promoting further flattening growth of leaves.