Article
Microbiology
Francesco Dovana, Ditte Bandini, Ursula Eberhardt, Ibai Olariaga, Enrico Bizio, Giuliano Ferisin, Fernando Esteve-Raventos
Summary: The taxonomy of Inocybe similis and closely allied species was studied using morphological and molecular data (nrITS and nrLSU DNA). The holotypes of I. chondrospora and I. vulpinella and the isotype of I. immigrans were examined and sequenced. The results indicate synonymy between I. similis and I. vulpinella, as well as between I. chondrospora and I. immigrans.
Article
Microbiology
Ernesto Rodriguez-Andrade, Alberto M. Stchigel, Jose E. Cano-Lira
Summary: This study aimed to investigate the richness of ascomycetes in soil samples from Mexico and Spain. Several new strains of the genus Penicillium were identified, showing xerophilic characteristics. Despite the vast diversity within the genus Penicillium, xerophilic species are rarely reported.
Article
Microbiology
Yidong Guo, Jianghua Li, Li Li, Chaolan Liu
Summary: A novel actinomycete strain H8589(T) was isolated from a lake sediment sample and identified as a new species within the genus Sphaerisporangium through a polyphasic approach.
CURRENT MICROBIOLOGY
(2022)
Article
Genetics & Heredity
Gizem Kaya, Chisom Ezekannagha, Dominik Heider, Georges Hattab
Summary: Sustained efforts in next-generation sequencing technologies are changing the field of taxonomy. In order to support evolutionary and taxonomic studies, researchers have developed an interactive web tool called Context-Aware Phylogenetic Trees (CAPT). This tool enhances the traditional phylogenetic tree view with taxonomic icicle view, providing context and interactive techniques for exploring and validating the data.
FRONTIERS IN GENETICS
(2022)
Article
Biodiversity Conservation
Ryosuke Nakai, Takeshi Naganuma, Nozomi Tazato, Tadao Kunihiro, Sho Morohoshi, Tomomi Koide, Hiroyuki Kusada, Hideyuki Tamaki, Takashi Narihiro
Summary: A novel filterable bacterium strain IZ6(T) has been characterized and identified as a representative strain of a widely distributed lineage, showing distinct physiological and chemotaxonomic traits compared to other strains. The strain belongs to a proposed novel genus and species named Terrihabitans soli, with differences in cellular fatty acid composition and inability to utilize certain compounds compared to related strains. These findings provide deeper insight into the eco-physiology of filterable microorganisms.
Article
Microbiology
Magdalena Swiecimska, Patrycja Golinska, Magdalena Wypij, Michael Goodfellow
Summary: The taxonomic status of two filamentous actinobacteria, isolates NF23 and NL8(T), was clarified in a genome-based polyphasic study, revealing their close relationship with the genus Catenulispora. The isolates were classified as a new species Catenulispora pinistramenti sp. nov., sharing distinct genomic, genotypic, and phenotypic features. The genomes of NF23 and NL8(T) are rich in natural product-biosynthetic gene clusters, indicating their potential for synthesizing new specialised metabolites.
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
(2021)
Article
Microbiology
Ning Mao, Yu-Yan Xu, Tao-Yu Zhao, Jing-Chong Lv, Li Fan
Summary: This study focused on species of Mallocybe and Pseudosperma in north China, with new species described and relationships inferred through morphological and phylogenetic methods. The research identified eight species overall, with three new species in Pseudosperma. The study highlights the importance of further research on these genera in north China.
Article
Mycology
Celeste Santos-Silva, Rogerio Louro, Bruno Natario, Tania Nobre
Summary: The study found T. grisea associated with Tuberaria guttata in acidic soils, contradicting previous beliefs. Furthermore, by placing the collected specimens on the most recent genus phylogeny based on the ITS region, the number of known Terfezia species occurring in Portugal was updated from three to ten.
Article
Environmental Sciences
Tak-Kei Chou, Min-Yun Liu, Te-Yu Liao
Summary: In this study, the phylogeny of lionfishes was reconstructed using genetic sequencing, leading to a revised taxonomy. The results showed that Dendrochirus and Pterois were not monophyletic and were divided into multiple clades. Based on molecular and morphological data, Dendrochirus and Pterois were proposed for D. I and Pt. I, respectively, while a new genus, Neochirus, was proposed for the D. II clade. Furthermore, the genera Pteropterus and Nemapterois were revalidated for Pt. II and D. III, respectively.
FRONTIERS IN MARINE SCIENCE
(2023)
Article
Plant Sciences
Manuel Tiburtini, Gianluigi Bacchetta, Marco Sarigu, Salvatore Cambria, Paolo Caputo, Daniele De Luca, Gianniantonio Domina, Alessia Turini, Lorenzo Peruzzi
Summary: An integrative approach was used to resolve the complex taxonomy and systematics of the genus Armeria in Sardinia and Corsica. The study found that some taxa are no longer supported by new data, leading to a new taxonomic hypothesis that considers only five species endemic to the islands.
Article
Plant Sciences
Nakarin Suwannarach, Jaturong Kumla, Chantana Supo, Yoichi Honda, Takehito Nakazawa, Chartchai Khanongnuch, Pairote Wongputtisin
Summary: A new endophytic fungus, Cunninghamella saisamornae, isolated from soil in Thailand, is distinguished from other Cunninghamella species by chlamydospore formation, lack of zygospore stage, and a maximum growth temperature of 45 degrees C. Multi-gene phylogenetic analysis supports the finding of its distinctiveness, and a comprehensive description, color photographs, illustrations, and phylogenetic tree are provided in the study.
Article
Microbiology
Hyosun Lee, Dhiraj Kumar Chaudhary, Oung Bin Lim, Dong-Uk Kim
Summary: A novel bacterial strain S3N08(T) was isolated from agricultural soil, which showed white color, rod-shaped morphology and motility. It belonged to the genus Paenibacillus and had the closest relative of Paenibacillus periandrae PM10(T) with 95.6% 16S rRNA gene sequence similarity.
ARCHIVES OF MICROBIOLOGY
(2023)
Article
Biology
Yu-Yan Xu, Ming-Qi Zhu, Ning Mao, Li Fan, Xiao-Ye Shen
Summary: This study identified specimens from Chinese herbaria and newly collected Otidea species from northern China based on morphological and phylogenetic analyses. Nine Otidea phylogenetic species were recognized, with four described as new species. The discovery of these new species will expand our knowledge of Otidea species resources in China.
Article
Biology
Guanghang Qiao, Juan Zhao, Juanjuan Liu, Xiaoqian Tan, Wentao Qin
Summary: Two new species of Lasiodiplodia have been discovered in northern China, leading to a better understanding of the genus's biodiversity, phylogeny, and established concepts. These species were described and studied based on their morphological characteristics and phylogenetic analyses. This study updates our knowledge of the species diversity within the genus Lasiodiplodia.
Article
Mycology
L. Zhao, J. Z. Groenewald, M. Hernandez-Restrepo, H. -j. Schroers, P. W. Crous
Summary: This study investigated the species diversity of 420 strains of Clonostachys from the Westerdijk Fungal Biodiversity Institute in Utrecht, the Netherlands. Analysis of morphological characters and molecular phylogeny supported the subgenera Astromata, Bionectria, Myronectria, and Zebrinela within Clonostachys, and resurrected the genus Sesquicillium to accommodate the former subgenera Epiphloea and Uniparietina. Twenty-four new species and ten new combinations were identified. These results provide insights into the evolution and classification of Clonostachys and Sesquicillium.
STUDIES IN MYCOLOGY
(2023)
Article
Mycology
Peng Zhao, Yan Li, Yuanjie Li, Fang Liu, Junmin Liang, Xin Zhou, Lei Cai
Summary: This study provides a comprehensive phylogenetic analysis of 160 species belonging to 16 genera in Melampsorineae, revealing the monophyly of 13 genera and the polyphyly of Pucciniastrum. It also proposes the establishment of three new families and highlights the importance of considering morphological characteristics in higher rank taxonomy.
MYCOLOGY-AN INTERNATIONAL JOURNAL ON FUNGAL BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Fang Wang, Ke Wang, Lei Cai, Mingjun Zhao, Paul M. Kirk, Guomei Fan, Qinglan Sun, Bo Li, Shuai Wang, Zhengfei Yu, Dong Han, Juncai Ma, Linhuan Wu, Yijian Yao
Summary: Fungal taxonomy is a complex and rapidly changing field, posing challenges for taxonomists in naming fungi. Fungal Names is a registration platform with a standardized and integrated database, providing powerful tools for research in fungal taxonomy. It encompasses a vast collection of taxon names and specimen records since 1596, along with other related information, serving as a summary of the history and recent advances in fungal taxonomy.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Environmental Sciences
Paopit Siriarchawatana, Panyapon Pumkaeo, Piyanun Harnpicharnchai, Somsak Likhitrattanapisal, Sermsiri Mayteeworakoon, Worawongsin Boonsin, Xin Zhou, Junmin Liang, Lei Cai, Supawadee Ingsriswang
Summary: With increasing urban population, more and more people rely on subway systems for transportation. Analyzing the temporal distribution of air microbiomes in subway environments is important for assessing air quality and public health. This study used culture-independent metabarcode sequencing to analyze bacterial diversity in a Bangkok subway station, finding variations in bacterial compositions among different samples over a four-month period. The bacteria primarily came from outside environments and human body sources and showed correlations with air quality variables including ambient temperature and particulate matters quantity.
ENVIRONMENTAL RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Junmin Liang, Yuanjie Li, Peter N. Dodds, Melania Figueroa, Jana Sperschneider, Shiling Han, Clement K. M. Tsui, Keyu Zhang, Leifu Li, Zhanhong Ma, Lei Cai
Summary: This study presents a pipeline using HiFi reads and Hi-C data to assemble the genome of the fungal pathogen Puccinia polysora f.sp. zeae, achieving haplotype-phased and chromosome-level assembly. The high-quality assembly provides valuable genomic resources for future studies on disease management and the evolution of P. polysora.
MOLECULAR ECOLOGY RESOURCES
(2023)
Article
Biochemistry & Molecular Biology
Mengmeng Wang, Paraskevi Mara, Gaetan Burgaud, Virginia Edgcomb, Xuedan Long, Haiping Yang, Lei Cai, Wei Li
Summary: ITS2 metabarcoding successfully described the abundance of Dikarya fungi, but underrepresented other fungal taxa that were abundant in the mycobiome. Metatranscriptomics revealed enriched expression of genes annotated to zoosporic fungi, suggesting their parasitic lifestyle. It also showed elevated expression of phagosome genes annotated to Rozellomycota, indicating their utilization of different feeding modes in the coastal setting.
Review
Agronomy
Parul Chaudhary, Miao Xu, Lukman Ahamad, Anuj Chaudhary, Govind Kumar, Bartholomew Saanu Adeleke, Krishan K. Verma, Dian-Ming Hu, Ivan Siric, Pankaj Kumar, Simona M. M. Popescu, Sami Abou Fayssal
Summary: Climate change, inadequate possessions, and land degradation are obstacles to modern agriculture. Chemical-based pesticides and fertilizers impact soil health and crop productivity, while water scarcity leads to the use of heavy metal-enriched water sources in irrigation. Soil pollutants can negatively affect human health. Using beneficial microbes found in plant-associated soil microorganisms as an alternative to chemical fertilizers can improve soil fertility, crop yield, and plant resilience to stress conditions.
Article
Microbiology
Wenqing Zhou, Xin Zhou, Lei Cai, Qi Jiang, Rong Zhang
Summary: Mulching is important for increasing watermelon productivity and land-use efficiency, but little is known about its effects on soil fungal communities. This study found that gravel-sand mulch significantly affected the diversity and composition of soil fungal communities, and that long-term continuous monoculture decreased abundance of Fusarium species.
MICROBIOLOGY SPECTRUM
(2023)
Review
Food Science & Technology
Meng-Qiu Yan, Jie Feng, Yan-Fang Liu, Dian-Ming Hu, Jing-Song Zhang
Summary: Functional raw materials with stable quality and rich in various effective nutrients and active ingredients can be obtained from the liquid fermentation of edible and medicinal fungi. This review summarizes the main findings of a comparative study that compares the components and efficacy of liquid fermented products from edible and medicinal fungi with those from cultivated fruiting bodies. The methods used to obtain and analyze the liquid fermented products are also presented, and the application of these products in the food industry is discussed.
Article
Mycology
Xin Li, Shi-Ling Han, Yin-Yin Zhang, Lei Cai, Peng Zhao
Summary: In December 2021, Dalian Customs in China inspected a postal parcel from Togo containing mature nuts of Phytelephas macrocarpa and isolated four strains of a new species from symptomatic tissues of the nuts. These strains were identified as a new genus Heteroverticillium, mainly characterized by verticillately branching conidiophores. This is the first interception of a new fungal genus by Chinese customs. Additionally, an updated backbone tree for the generic relationships in Nectriaceae was provided, which will greatly assist in identifying nectriaceous fungi in quarantine inspections.
MYCOLOGY-AN INTERNATIONAL JOURNAL ON FUNGAL BIOLOGY
(2023)
Article
Microbiology
Fan Zhou, Yang Gao, Hai-Yan Song, Hai-Jing Hu, Wen-Juan Yang, Wei Zhang, Li-Yu Liao, Yi Fang, Lin Cheng, Dian-Ming Hu
Summary: This study in Jiangxi Province investigates and describes five new species of wild boletes, providing morphological descriptions and hand drawings.
Article
Mycology
L. W. Hou, A. Giraldo, J. Z. Groenewald, T. Raemae, R. C. Summerbell, G. Z. Huang, L. Cai, P. W. Crous
Summary: Acremonium is a widely distributed genus of fungi that produce bioactive secondary metabolites. Through systematic analysis, it was found that Acremonium belongs to three different orders of Sordariomycetes, including 63 genera, 14 families, and 65 new species. For the family Bionectriaceae, rpb2 and tef-1a are proposed as potential DNA barcodes for classification.
STUDIES IN MYCOLOGY
(2023)
Article
Mycology
S. L. Han, M. M. Wang, Z. Y. Ma, M. Raza, P. Zhao, J. . M. Liang, M. Gao, Y. J. Li, J. W. Wang, D. M. Hu, L. Cai
Summary: This study used a citizen science initiative to investigate diseased cereal crops in China and identified 43 different species of Fusarium, including eight novel species. It also confirmed 18 species as pathogens of maize stalk rot and supported the narrow generic concept of Fusarium through phylogenetic analysis. Overall, this study provides important insights into the diversity and distribution of cereal-associated Fusarium species.
STUDIES IN MYCOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Min Gao, Chao Xiong, Clement K. M. Tsui, Lei Cai
Summary: Soil and plant-associated protistan communities, as top-down predators, play an important role in shaping bacterial and fungal communities. However, little is known about how pathogen invasion affects these protistan communities and their interactions with bacteria and fungi. In this study, we investigated the protistan communities in healthy and Fusarium wilt disease (FWD)-affected chilli pepper plants, and integrated the bacterial and fungal community data. The results showed that FWD enrichmented phagotrophic protists in the roots, and increased the proportion and connectivity of these protists (particularly Cercozoa and Ciliophora) in intra- and inter-kingdom networks. The microbiome of diseased plants exhibited a higher abundance of functional genes related to bacterial anti-predator responses and contained more metagenome-assembled genomes involved in this response. These findings suggest that FWD can enhance the associations between protists and their microbial prey, highlighting the potential role of protists in shaping microbial assembly and functionality under pathogenic stress.
Article
Mycology
P. Zhao, F. Liu, J. E. Huang, X. Zhou, X. H. Qi, W. J. Duan, L. Cai
Summary: In this study, accurate identification and classification of Cronartium species were conducted through genetic sequencing and morphological examination. A total of 26 species, including seven new species, were identified. Additionally, previously unknown life cycles were discovered for 18 species.
Article
Mycology
Q. Chen, M. Bakhshi, Y. Balci, K. D. Broders, R. Cheewangkoon, S. F. Chen, X. L. Fan, D. Gramaje, F. Halleen, M. Horta Jung, N. Jiang, T. Jung, T. Majek, S. Marincowitz, I Milenkovic, L. Mostert, C. Nakashima, I. Nurul Faziha, M. Pan, M. Raza, B. Scanu, C. F. J. Spies, L. Suhaizan, H. Suzuki, C. M. Tian, M. Tomsovsky, J. R. Urbez Torres, W. Wang, B. D. Wingfield, M. J. Wingfield, Q. Yang, X. Yang, R. Zare, P. Zhao, J. Z. Groenewald, L. Cai, P. W. Crous
Summary: This paper is the fourth contribution in the Genera of Phytopathogenic Fungi (GOPHY) series. It provides detailed descriptions and information about 19 genera of phytopathogenic fungi and their relatives, including morphology, pathology, distribution, hosts, and disease symptoms, and also provides DNA barcodes for these taxa.
STUDIES IN MYCOLOGY
(2022)