Article
Zoology
Gongaote Zhang, Yan Zhao, Yong Chi, Alan Warren, Hongbo Pan, Weibo Song
Summary: In this study, two new species, Paralitonotus foissneri and Loxophyllum apochlorelligerum, were investigated using an integrative approach. Paralitonotus foissneri has a distinctive ciliary pattern, while Loxophyllum apochlorelligerum has specific morphological characteristics. Phylogenetic analysis revealed their relationship and proposed a new taxonomic scheme for such species.
ZOOLOGICAL JOURNAL OF THE LINNEAN SOCIETY
(2022)
Article
Biology
Thuan Duc Lao, Hanh Van. Trinh, Loi Vuong, Luyen Tien Vu, Thuy Ai Huyen Le, Hiep Minh Dinh, Nguyen Binh Truong
Summary: The phylogenetic analysis based on the concatenated dataset successfully strengthened the identification of T011 as Isaria cicadae.
OPEN LIFE SCIENCES
(2021)
Article
Plant Sciences
Ming-Ze Xia, Yan Li, Fa-Qi Zhang, Jing-Ya Yu, Gulzar Khan, Xiao-Feng Chi, Hao Xu, Shi-Long Chen
Summary: This study reassessed the taxonomic status and phylogenetic relationships of the genus Parnassia within the family Celastraceae. By sequencing and analyzing the whole plastid genomes and nuclear ribosomal DNA of 48 species, the study confirmed Parnassia as a monophyletic group and revealed possible multiple morphological evolution within the genus. The results also suggested the existence of hybridization/introgression during the evolution of the genus. Further studies are needed to clarify the diversification and evolution models of this genus.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Sukanya Haituk, Nakarin Suwannarach, Sinang Hongsanan, Chanokned Senwanna, Ratchadawan Cheewangkoon
Summary: A novel taxon, identified as epiphytic sooty molds on Syngonium podophyllum from Thailand, has been discovered. A new genus, Alloscorias gen. nov., has been established to accommodate this new taxon, named A. syngonii. Phylogenetic analyses of sequence data and morphological support confirm that Alloscorias is a distinct genus within Readerielliopsidaceae (Capnodiales).
Article
Plant Sciences
Achala Bakshi, Mazahar Moin, Meher B. Gayatri, Aramati B. M. Reddy, Raju Datla, Maganti S. Madhav, Pulugurtha B. Kirti
Summary: Experimental results in rice and Arabidopsis plants indicate that the TOR protein regulates ribosome biogenesis and translation initiation by phosphorylating S6K1. The study also demonstrates the transcriptional upregulation of RP genes in TOR overexpressing transgenic plants. Furthermore, analysis of mutants suggests that the regulation of RP function may involve phosphorylation of S6K1.
Article
Biochemistry & Molecular Biology
Yuanyuan Wang, Hong Zhou, Yexin Yang, Jinhui Sun, Yi Liu, Chao Liu, Sudong Xia, Xidong Mu
Summary: In this study, the complete nuclear ribosomal DNA (nrDNA) operon of five extant tiger fish species was sequenced and analyzed to elucidate their phylogenetic relationship. The results showed that the whole nrDNA operon can better distinguish the five tiger fish species, with three species showing significant differentiation. Although further investigation is needed for species discrimination, this study provides genome resources for Lobotiformes and insights into their phylogenetic position and conservation.
BIOCHEMICAL GENETICS
(2023)
Article
Limnology
Joanna Gauthier, David Walsh, Daniel T. Selbie, Alyssa Bourgeois, Katherine Griffiths, Isabelle Domaizon, Irene Gregory-Eaves
Summary: Paleolimnological studies rely on bioindicators like diatoms and cladocerans deposited in sediments. DNA-based approaches are expanding taxonomic diversity for investigation, but calibration work is needed. This study assessed congruence between morphological and DNA-based approaches in sediment trap samples, identifying potential bioindicators of environmental variations. Diatom morphology showed significant correlations with genetic analyses, while crustaceans showed weaker correlations. Intracellular DNA reads correlated more strongly with diatom morphology, while extracellular DNA reads correlated more strongly with crustacean morphology, indicating the effectiveness of DNA-based approaches in tracking community dynamics for successful paleolimnological studies.
LIMNOLOGY AND OCEANOGRAPHY
(2021)
Article
Plant Sciences
Sampath Perumal, Nomar Espinosa Waminal, Jonghoon Lee, Hyun-Jin Koo, Boem-soon Choi, Jee Young Park, Kyounggu Ahn, Tae-Jin Yang
Summary: The study utilized whole-genome shogun sequence (WGS) data to analyze nuclear and chloroplast diversity in 44 Brassica oleracea breeding lines, identifying genetic variations such as SNPs and indels. The phylogenetic tree grouped different morphotypes of B. oleracea based on nuclear and chloroplast genomes, revealing the evolutionary history and cytoplasm features of the crop. The research highlighted the importance of low-coverage NGS data in understanding genetic diversity and evolution in diverse Brassica oleracea morphotypes.
HORTICULTURAL PLANT JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Frederic Rimet, Alexis Canino, Teofana Chonova, Julie Gueguen, Agnes Bouchez
Summary: This study found that diatom communities in Lake Geneva are primarily assembled through environmental filtering and immigration processes. Rivers bring communities that settle in the lake, especially in sites close to estuaries. Although other assembly rules may be at play, environmental filtering dominates in diatom communities.
Article
Chemistry, Multidisciplinary
Shen Yan, Ziang Lu, Wei Yang, Jinglei Xu, Yafen Wang, Wei Xiong, Rongjie Zhu, Linao Ren, Zhaoxin Chen, Qi Wei, Song-mei Liu, Tian Feng, Bifeng Yuan, Xiaocheng Weng, Yuhao Du, Xiang Zhou
Summary: The substance N-4-Acetylcytidine (ac(4)C) has been found to have impacts on various cellular and biological processes. To gain a mechanistic understanding of ac(4)C's roles in biology and disease, researchers have developed a new method called FAM-seq, which detects ac(4)C in RNA without using antibodies. By applying FAM-seq, the researchers successfully mapped the distribution of ac(4)C in human cell lines and found its important role in regulating chemotherapy drug resistance in chronic myeloid leukemia. This study suggests that understanding ac(4)C modification could enhance drug development and combination therapy in cancer treatment.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2023)
Article
Agronomy
Elena Fanelli, Alberto Troccoli, Stefano Sacchi, Pablo Castillo, Francesca Gaffuri, Beniamino Cavagna, Francesca De Luca
Summary: In this study, four nematode species were identified in bark samples from an unidentified coniferous tree, with one species closely related to the pinewood nematode but phylogenetically related to Cryptaphelenchus species.
EUROPEAN JOURNAL OF PLANT PATHOLOGY
(2022)
Article
Zoology
Kourosh Azizi, Ali Eskandari, Akbar Karegar, Reza Ghaderi, Sven van den Elsen, Martijn Holterman, Johannes Helder
Summary: This study investigated the relationships within the subfamily Telotylenchinae through collecting soil samples from various habitats in Iran. The individuals of seven known species were characterized based on morphological and morphometric characters. Phylogenetic analyses using sequences from the rDNA genes revealed multiple clades within Telotylenchinae and suggested that Bitylenchus and Sauertylenchus should be considered as valid genera distinct from Tylenchorhynchus.
Article
Biochemistry & Molecular Biology
Mariusz Popenda, Tomasz Zok, Joanna Sarzynska, Agnieszka Korpeta, Ryszard W. Adamiak, Maciej Antczak, Marta Szachniuk
Summary: Computational methods for predicting RNA 3D structures have practical applications in molecular biology and medicine, highlighting the need to improve accuracy. The RNA-Puzzles initiative plays a significant role in collecting and evaluating computationally built RNAs, allowing for the analysis of prediction methods. This study focuses on entangled RNA fragments in predicted structures, proposing a classification based on topology and components.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Mariusz Popenda, Tomasz Zok, Joanna Sarzynska, Agnieszka Korpeta, Ryszard W. Adamiak, Maciej Antczak, Marta Szachniuk
Summary: Computational methods for predicting RNA 3D structure are increasingly important in molecular biology and medicine. The RNA-Puzzles initiative evaluates and shares computationally built RNAs, allowing for better understanding of strengths and weaknesses in prediction methods. This study focuses on the issue of entangled RNA fragments in predicted 3D models, proposing a classification system for different types of entanglements.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Parasitology
Deiviane Aparecida Calegar, Kerla Joeline Lima Monteiro, Polyanna Araujo Alves Bacelar, Brenda Bulsara Costa Evangelista, Mayron Morais Almeida, Jessica Pereira dos Santos, Marcio Neves Boia, Beatriz Coronato-Nunes, Lauren Hubert Jaeger, Filipe Anibal Carvalho-Costa
Summary: This study investigated the diversity, phylogenetic relationships, prevalence, and distribution of tetra- and octonucleated cyst-producing Entamoeba in different Brazilian regions. Different species were identified, with E. coli and E. histolytica showing unique prevalence patterns in different biomes. The molecular epidemiology of Entamoeba spp. presents important implications for public health and warrants further exploration.
PARASITES & VECTORS
(2021)
Article
Biology
Jantina Toxopeus, Brent J. Sinclair
BIOLOGICAL REVIEWS
(2018)
Article
Entomology
Jantina Toxopeus, Alexander H. McKinnon, Tomas Stetina, Kurtis F. Turnbull, Brent J. Sinclair
JOURNAL OF INSECT PHYSIOLOGY
(2019)
Article
Biochemistry & Molecular Biology
Jantina Toxopeus, Lauren E. Des Marteaux, Brent J. Sinclair
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS
(2019)
Article
Entomology
Jan Rozsypal, Jantina Toxopeus, Petra Berkova, Martin Moos, Petr Simek, Vladimir Kostal
JOURNAL OF INSECT PHYSIOLOGY
(2019)
Article
Biology
Jantina Toxopeus, Vladimir Kostal, Brent J. Sinclair
PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
(2019)
Article
Fisheries
David J. Garbary, Roberta D'Archino, Brendan Flack, Christopher D. Hepburn, Wendy A. Nelson, Daniel Pritchard, Judy. E. Sutherland
NEW ZEALAND JOURNAL OF MARINE AND FRESHWATER RESEARCH
(2020)
Article
Plant Sciences
Valeriya Lemesheva, Claudia Birkemeyer, David Garbary, Elena Tarakhovskaya
EUROPEAN JOURNAL OF PHYCOLOGY
(2020)
Article
Biochemistry & Molecular Biology
Natalia G. Li, Jantina Toxopeus, Martin Moos, Jesper G. Sorensen, Brent J. Sinclair
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY
(2020)
Article
Plant Sciences
Laryssa Halat, Moira E. Galway, David J. Garbary
Article
Entomology
Jacqueline E. Lebenzon, Jantina Toxopeus, Susan E. Anthony, Brent J. Sinclair
Summary: The study analyzed the transcriptome of the pseudoscorpion Wyochernes asiaticus from northern Canada and identified 1100 transcripts encoding proteins associated with stress tolerance, including heat shock proteins and antioxidants. Additionally, transcripts encoding putative venom proteins were discovered, with eight showing high sequence similarity to venom proteins described in other pseudoscorpions. The research provides important sequence information for understanding how W. asiaticus survives in Canadian polar environments.
CANADIAN ENTOMOLOGIST
(2021)
Article
Biochemistry & Molecular Biology
Jantina Toxopeus, Lahari Gadey, Lalitya Andaloori, Matin Sanaei, Gregory J. Ragland
Summary: The study showed that non- and post-diapause pupae can slowly achieve diapause-like metabolic rates when incubated at 4 degrees Celsius. While both diapause and quiescent pupae exhibited high tolerance of extreme low temperatures, quiescent pupae did not survive well when chilled for prolonged periods at 4 degrees Celsius.
COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY A-MOLECULAR & INTEGRATIVE PHYSIOLOGY
(2021)
Article
Microbiology
Meredith J. Karcz, David J. Garbary
Summary: The red alga Choreocolax polysiphoniae is a complex marine symbiotum parasite on another red alga, Vertebrata lanosa, with a varying frequency from 4% to 95% across 18 sites in southwestern Nova Scotia. The population distribution of the parasite exhibited a clustered pattern at all sites, suggesting it is a potential organism for studying population ecology of a macroalgal host-parasite system in the northwest Atlantic.
Article
Biology
Philip J. Freda, Jantina Toxopeus, Edwina J. Dowle, Zainab M. Ali, Nicholas Heter, Rebekah L. Collier, Isaiah Sower, Joseph C. Tucker, Theodore J. Morgan, Gregory J. Ragland
Summary: Organisms with complex life cycles have the ability to change their phenotypes across development, which is thought to be an evolutionary adaptation to variable environments. In this study, the researchers investigated the genetic decoupling of thermal physiology in the development of holometabolous insects. They found that there were stage-specific differences in gene expression related to thermal adaptation and that natural selection might be acting on different loci in different life stages.
JOURNAL OF EXPERIMENTAL BIOLOGY
(2022)
Article
Entomology
Trinity McIntyre, Lalitya Andaloori, Glen R. Hood, Jeffrey L. Feder, Daniel A. Hahn, Gregory J. Ragland, Jantina Toxopeus
Summary: Low temperatures in winter can have a negative impact on the survival of organisms, particularly ectotherms. This study investigates the variation in overwintering strategies among groups of closely interacting parasitoid species. The researchers found that different species of endoparasitoid wasps exhibited similar diapause phenotypes as their host insect, the apple maggot fly. The study also reveals a high level of cold tolerance and consistency in survival rates among the three wasp species.
JOURNAL OF INSECT PHYSIOLOGY
(2023)
Meeting Abstract
Zoology
James deMayo, Joseph Tucker, Jenna Tomkinson, Lahari Gadey, Phillip Freda, Jantina Toxopeus, Gregory Ragland
INTEGRATIVE AND COMPARATIVE BIOLOGY
(2023)
