Article
Plant Sciences
Sushil Kumar Singh, R. K. Mishra, M. Gurivi Reddy, S. N. Rahul, Carmine Marcone, Govind P. P. Rao
Summary: During a survey, phyllody and stunting symptoms were observed on opium plants at Acharya Narendra Deva University of Agriculture & Technology (ANDUAT), Kumarganj, Ayodhya, Uttar Pradesh, India in March 2021. PCR analysis confirmed the presence of phytoplasmas in all symptomatic opium samples, and comparison of gene sequences identified a strain related to 'Candidatus Phytoplasma australasia'. Virtual RFLP analysis further classified the opium phytoplasma isolate into the 16SrII-D subgroup. This is the first report of identifying a phytoplasma disease in opium worldwide.
AUSTRALASIAN PLANT PATHOLOGY
(2023)
Article
Plant Sciences
Marina Dermastia, Spela Tomaz, Rebeka Strah, Tjasa Lukan, Anna Coll, Barbara Dusak, Barbara Anzic, Timotej Cepin, Stefanie Wienkoop, Ales Kladnik, Maja Zagorscak, Monika Riedle-Bauer, Christina Schoenhuber, Wolfram Weckwerth, Kristina Gruden, Thomas Roitsch, Marusa Pompe Novak, Guenter Brader
Summary: The pathogenicity of intracellular plant pathogenic bacteria is related to the action of pathogenicity factors/effectors, but their physiological roles are not clear for most phytoplasma species, including 'Candidiatus Phytoplasma solani'. This study elucidated how the selected candidate pathogenicity factors/effectors manipulate the host cellular machinery by analyzing Nicotiana benthamiana leaves. The factors/effectors were found to modulate plant carbohydrate metabolism and induce autophagosomes, and were specifically associated with three distinct metabolic pathways leading to fructose-6-phosphate as an input substrate for glycolysis.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Zoology
Milena Marie Grollmann, Aslak Jorgensen, Nadja Mobjerg
Summary: Little is known about marine arthrotardigrades due to difficulties in sampling, resulting in limited molecular data. This study provides the first investigation into COI haplotype diversity in a marine tanarctid and reassesses arthrotardigrade phylogeny. COI, 18S and 28S rDNA sequences were obtained from Actinarctus doryphorus and new 18S sequences from two marine echiniscoidids. Phylogenetic analysis confirms Tanarctidae as a separate clade from Halechiniscidae and suggests that the order Arthrotardigrada should be suppressed.
Article
Microbiology
Bianca Rodrigues Jardim, Wycliff M. Kinoti, Lucy T. T. Tran- Nguyen, Cherie Gambley, Brendan Rodoni, Fiona E. Constable
Summary: In Australia, a phytoplasma known as StLL has been detected in various plant species. Comparison of the 16S rRNA gene sequences from different plant hosts showed a high level of similarity, indicating that StLL represents a distinct phytoplasma lineage. This unique phytoplasma lineage is proposed to be named as “Ca. Phytoplasma stylosanthis”.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Environmental Sciences
Phil D. Brown, Joseph M. Craine, David Richards, Andrew Chapman, Brad Marden
Summary: This study conducted a survey of phytoplankton in the Great Salt Lake using DNA metabarcoding and microscopy methods. The results showed differences between the two methods in assemblage composition and relative abundances, but metabarcoding was able to reveal seasonal and spatial patterns in the assemblage, as well as potential cryptic speciation within the dominant species in the lake. However, improvements are needed in the taxonomic assignment of DNA sequences.
JOURNAL OF GREAT LAKES RESEARCH
(2022)
Article
Microbiology
Kelly L. Sovacool, Sarah L. Westcott, M. Brodie Mumphrey, Gabrielle A. Dotson, Patrick D. Schloss
Summary: Advancements in DNA sequencing technology have allowed researchers to generate millions of sequence reads from microorganisms. Efficient software tools are needed to assign microbial sequences into taxonomic groups. Existing methods either produce inconsistent results or have reduced quality. To address this, we developed OptiFit, a new algorithm that allows for consistent and high-quality assignments, making it easier to compare different studies or add new data to existing studies.
Article
Plant Sciences
Michel Dollet, Sandrine Fabre, Maeva Beaumont, Christian Barnabe, Yak Namaliu, Alfred Kembu, Roland Bourdeix
Summary: Coconut plays a significant role in the nutrition and livelihoods of millions of households in the Asia-Pacific region, particularly in Papua New Guinea. However, the coconut diversity in the region is under threat from Bogia coconut syndrome, a new lethal phytoplasma disease. This study identified a new phytoplasma associated with the disease and found it to be the first LYTS group member in the Asian-Pacific region.
TROPICAL PLANT PATHOLOGY
(2022)
Article
Plant Sciences
Mohammad Salehi, Mohammad Mehdi Faghihi, Rasoul Rasoulpour, Elham Salehi
Summary: During surveys in 2021, greengage witches'-broom (GWB) and decline (GD) diseases were observed in Fars and Yazd provinces of Iran. Phytoplasma presence in symptomatic plants was confirmed through PCR amplification and sequence analysis, revealing the affiliation of GWB with 'Candidatus Phytoplasma phoenicium' (16SrIX-B) and GD with 'Ca. P. aurantifolia' (16SrII-C) related strains. This is the first report of phytoplasma diseases in greengage in Iran and possibly worldwide.
AUSTRALASIAN PLANT DISEASE NOTES
(2022)
Article
Biotechnology & Applied Microbiology
Priyam Panda, Amrita Nigam, G. P. Rao
Summary: Rose balsam nurseries in Uttar Pradesh and Tripura states of India showed symptoms such as flat stem, little leaf, and phyllody. Phytoplasmas belonging to 16SrI-B and 16SrII-D subgroups were identified in the tested samples, confirming their presence and identity through sequence comparison and gene amplification. This study marks the first report of detecting these phytoplasmas in Impatiens balsamina worldwide.
Article
Ecology
Antti J. Rissanen, Moritz Buck, Sari Peura
Summary: A putative novel methanotrophic genus, Candidatus Methylumidiphilus, was found to be ubiquitous and abundant in water columns of oxygen-stratified lakes and ponds in boreal and subarctic areas. However, it may have been missed in previous studies due to insufficient database coverage. By screening metagenome-assembled genomes (MAGs), researchers discovered two unique 16S rRNA gene sequences belonging to this genus, which could enhance its detection in environmental samples.
AQUATIC MICROBIAL ECOLOGY
(2022)
Article
Plant Sciences
G. G. Lai, F. Li, J. X. Li, P. Zhang, T. S. Zhu
Summary: In a survey conducted in 2020, symptoms of phyllody disease, including little leaves and dieback, were observed in Salix babylonica trees in Xinjiang province of China. Phytoplasmas belonging to the species 'Candidatus Phytoplasma ziziphi', ribosomal subgroup 16SrV-B, were detected in symptomatic trees using nested PCRs with specific primer pairs for 16S rRNA and tuf genes. No amplification was found in symptomless trees. This is the first report of 'Ca. Phytoplasma ziziphi' infecting S. babylonica and causing phyllody disease in China.
AUSTRALASIAN PLANT DISEASE NOTES
(2022)
Article
Genetics & Heredity
Zana Kapustina, Justina Medziune, Gediminas Alzbutas, Irmantas Rokaitis, Karolis Matjosaitis, Gytis Mackevicius, Simona Zeimyte, Laurynas Karpus, Arvydas Lubys
Summary: Genome-linked 16S rRNA sequencing offers superior classification accuracy and identification of gene copy numbers compared to traditional methods, demonstrating accurate estimation of 16S rRNA gene copy numbers, taxonomic resolution at the species level, and closely approximating community structures obtainable by whole metagenome sequencing.
MICROBIAL GENOMICS
(2021)
Article
Computer Science, Artificial Intelligence
Ivan Garcia-Aguilar, Rafael Marcos Luque-Baena, Ezequiel Lopez-Rubio
Summary: This research focuses on small object detection in video surveillance images, proposing a method to enhance detection performance without modifying the structure of existing pre-trained models. Experimental results demonstrate the effectiveness of this approach in a variety of traffic images, achieving significant improvement in average scores compared to the initial pre-trained model accuracy.
Article
Microbiology
Brendan A. Daisley, Gregor Reid
Summary: High-throughput 16S rRNA gene sequencing technologies have the potential to enhance understanding of bee-associated microbial communities. A new database, BEExact, was developed to allow accurate and standardized microbiota profiling. Data-driven recommendations were formulated to improve the utility and ecological relevance of routine 16S rRNA gene-based sequencing endeavors.
Article
Multidisciplinary Sciences
Pablo E. Layana Castro, Antonio Garcia Garvi, Antonio-Jose Sanchez-Salmeron
Summary: This article proposes a novel method for predicting the poses of multiple C. elegans worms in cases of aggregation and noise. The method utilizes an improved U-Net model to address the challenges posed by low-resolution images. The model is trained and validated using a custom-generated dataset with a synthetic image simulator, and tested with a dataset of real images, achieving precision greater than 75% and an Intersection over Union (IoU) value of 0.65.
Article
Agronomy
J. W. Woodhall, M. J. Brown, K. Perkins, E. Somoza Valdeolmillos, N. Boonham, R. V. Ray
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2017)
Article
Agronomy
Catherine Harrison, Jenny Tomlinson, Sioban Ostoja-Starzewska, Neil Boonham
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2017)
News Item
Plant Sciences
Z. Rozado-Aguirre, A. Marais, L. Svanella-Dumas, C. Faure, F. Latour, F. Villeneuve, M. Dickinson, A. Fox, N. Boonham, T. Candresse
Article
Microbiology
Anja Pecman, Denis Kutnjak, Ion Gutierrez-Aguirre, Ian Adams, Adrian Fox, Neil Boonham, Maja Ravnikar
FRONTIERS IN MICROBIOLOGY
(2017)
Article
Entomology
K. Stainton, J. Hall, G. E. Budge, N. Boonham, J. Hodgetts
JOURNAL OF APPLIED ENTOMOLOGY
(2018)
Article
Agronomy
Simon Blaser, Hanspeter Diem, Andreas von Felten, Morgan Gueuning, Michael Andreou, Neil Boonham, Jennifer Tomlinson, Pie Mueller, Jurg Utzinger, Jurg E. Frey, Andreas Buhlmann
PEST MANAGEMENT SCIENCE
(2018)
Article
Agronomy
S. Franco Ortega, J. Tomlinson, G. Gilardi, D. Spadaro, L. Gullino, A. Garibaldi, N. Boonham
Article
Multidisciplinary Sciences
Raquel Martin-Hernandez, Mariano Higes, Soledad Sagastume, Angeles Juarranz, Joyce Dias-Almeida, Giles E. Budge, Aranzazu Meana, Neil Boonham
Article
Multidisciplinary Sciences
D. J. Maxwell, J. C. Partridge, N. W. Roberts, N. Boonham, G. D. Foster
Editorial Material
Agronomy
Matt Dickinson
Book Review
Agronomy
Matt Dickinson
Article
Agriculture, Multidisciplinary
Rehema White, Mariella Marzano, Elena Fesenko, Alan Inman, Glyn Jones, Barbara Agstner, Rick Mumford
Summary: This paper presents a Technology Readiness Level (TRL) framework for assessing the feasibility of tree pest and pathogen detection technologies. The study highlights the iterative process of technology development and the challenges in obtaining funding and considering the socio-ecological technical landscape. The TRL framework is found to be a robust approach for evaluating technologies, but integration and wider discussions are necessary for effective environmental management.
JOURNAL OF PLANT DISEASES AND PROTECTION
(2022)
Proceedings Paper
Agronomy
A. Fox, Z. Rozado, I. P. Adams, A. Skelton, M. Dickinson, N. Boonham
INTERNATIONAL SYMPOSIUM ON CARROT AND OTHER APIACEAE
(2017)
Article
Virology
Zurine Rozado-Aguirre, Ian Adams, Adrian Fox, Matthew Dickinson, Neil Boonham
ARCHIVES OF VIROLOGY
(2017)
Article
Microbiology
Ian P. Adams, Neil Boonham, Roger A. C. Jones
GENOME ANNOUNCEMENTS
(2017)