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      Two new Inosperma (Inocybaceae) species with unexpected muscarine contents from tropical China

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          Abstract

          An accurate identification of poisonous mushrooms and the confirmation of the toxins involved are both of great importance in the treatment of mushroom poisoning incidents. In recent years, cases of mushroom poisoning by Inosperma spp. have been repeatedly reported from tropical Asia. It is urgent to know the real species diversity of Inosperma in this region. In the present study, we proposed two new Inosperma species from tropical Asia, namely I. muscarium and I. hainanense . They were described based on morphology and multilocus phylogeny. Detailed descriptions, color photographs and the discussion with other closely related species of the two new taxa were provided. In addition, a comprehensive muscarine determination of these two new species using ultrahigh performance liquid chromatography tandem mass spectrometry (UPLC-MS/MS) approach has been performed. Results showed that these two species were muscarine positive, with a content of 16.03 ± 1.23 g/kg in I. muscarium and a content of 11.87 ± 3.02 g/kg in I. hainanense , much higher than the known species I. virosum . Recovery of muscarine ranged from 93.45% to 97.25%, and the average recovery is 95.56%.

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          MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

          Since its introduction in 2001, MrBayes has grown in popularity as a software package for Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With this note, we announce the release of version 3.2, a major upgrade to the latest official release presented in 2003. The new version provides convergence diagnostics and allows multiple analyses to be run in parallel with convergence progress monitored on the fly. The introduction of new proposals and automatic optimization of tuning parameters has improved convergence for many problems. The new version also sports significantly faster likelihood calculations through streaming single-instruction-multiple-data extensions (SSE) and support of the BEAGLE library, allowing likelihood calculations to be delegated to graphics processing units (GPUs) on compatible hardware. Speedup factors range from around 2 with SSE code to more than 50 with BEAGLE for codon problems. Checkpointing across all models allows long runs to be completed even when an analysis is prematurely terminated. New models include relaxed clocks, dating, model averaging across time-reversible substitution models, and support for hard, negative, and partial (backbone) tree constraints. Inference of species trees from gene trees is supported by full incorporation of the Bayesian estimation of species trees (BEST) algorithms. Marginal model likelihoods for Bayes factor tests can be estimated accurately across the entire model space using the stepping stone method. The new version provides more output options than previously, including samples of ancestral states, site rates, site d N /d S rations, branch rates, and node dates. A wide range of statistics on tree parameters can also be output for visualization in FigTree and compatible software.
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            MAFFT online service: multiple sequence alignment, interactive sequence choice and visualization

            Abstract This article describes several features in the MAFFT online service for multiple sequence alignment (MSA). As a result of recent advances in sequencing technologies, huge numbers of biological sequences are available and the need for MSAs with large numbers of sequences is increasing. To extract biologically relevant information from such data, sophistication of algorithms is necessary but not sufficient. Intuitive and interactive tools for experimental biologists to semiautomatically handle large data are becoming important. We are working on development of MAFFT toward these two directions. Here, we explain (i) the Web interface for recently developed options for large data and (ii) interactive usage to refine sequence data sets and MSAs.
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              MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods.

              Comparative analysis of molecular sequence data is essential for reconstructing the evolutionary histories of species and inferring the nature and extent of selective forces shaping the evolution of genes and species. Here, we announce the release of Molecular Evolutionary Genetics Analysis version 5 (MEGA5), which is a user-friendly software for mining online databases, building sequence alignments and phylogenetic trees, and using methods of evolutionary bioinformatics in basic biology, biomedicine, and evolution. The newest addition in MEGA5 is a collection of maximum likelihood (ML) analyses for inferring evolutionary trees, selecting best-fit substitution models (nucleotide or amino acid), inferring ancestral states and sequences (along with probabilities), and estimating evolutionary rates site-by-site. In computer simulation analyses, ML tree inference algorithms in MEGA5 compared favorably with other software packages in terms of computational efficiency and the accuracy of the estimates of phylogenetic trees, substitution parameters, and rate variation among sites. The MEGA user interface has now been enhanced to be activity driven to make it easier for the use of both beginners and experienced scientists. This version of MEGA is intended for the Windows platform, and it has been configured for effective use on Mac OS X and Linux desktops. It is available free of charge from http://www.megasoftware.net.
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                Author and article information

                Contributors
                Role: InvestigationRole: Writing - original draft
                Role: Investigation
                Role: Resources
                Role: Investigation
                Role: Formal analysis
                Role: Methodology
                Role: ResourcesRole: Writing - review and editing
                Role: Resources
                Role: Formal analysis
                Role: SupervisionRole: Writing - review and editing
                Journal
                MycoKeys
                MycoKeys
                11
                urn:lsid:arphahub.com:pub:C004A564-9D6A-5F9F-B058-6A3815DFE9C3
                MycoKeys
                Pensoft Publishers
                1314-4057
                1314-4049
                2021
                15 December 2021
                : 85
                : 87-108
                Affiliations
                [1 ] Key Laboratory of Tropical Translational Medicine of Ministry of Education, Transgenic Laboratory, Tropical Environment and Health Laboratory, College of Pharmacy, Hainan Medical University, Haikou 571199, China Hainan Medical University Haikou China
                [2 ] Hainan Institute for Food Control, Haikou 570314, China Hainan Institute for Food Control Haikou China
                [3 ] Jilin Provincial Joint Key Laboratory of Changbai Mountain Biocoenosis and Biodiversity, Changbai Mountain Academy of Sciences, Yanbian 133613, China Jilin Provincial Joint Key Laboratory of Changbai Mountain Biocoenosis and Biodiversity, Changbai Mountain Academy of Sciences Yanbian China
                [4 ] Physical and Chemical Department, Ningxia Hui Autonomous Region Center for Disease Control and Prevention, Yinchuan 750004, China Physical and Chemical Department, Ningxia Hui Autonomous Region Center for Disease Control and Prevention Yinchuan China
                [5 ] State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou 510070, China Guangdong Institute of Microbiology, Guangdong Academy of Sciences Guangzhou China
                [6 ] Microbiology Research Institute, Guangxi Academy of Agriculture Sciences, Nanning 530007, China Microbiology Research Institute, Guangxi Academy of Agriculture Sciences Haikou China
                Author notes
                Corresponding author: Yu-Guang Fan ( mycena@ 123456qq.com )

                Academic editor: T. Lumbsch

                Article
                71957
                10.3897/mycokeys.85.71957
                8695569
                35035255
                84870c08-7db8-49f8-aab6-ff1c332e475e
                Lun-Sha Deng, Rui Kang, Nian-Kai Zeng, Wen-Jie Yu, Cheng Chang, Fei Xu, Wang-Qiu Deng, Liang-Liang Qi, Yu-Ling Zhou, Yu-Guang Fan

                This is an open access article distributed under the terms of the Creative Commons Attribution License (CC BY 4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

                History
                : 23 July 2021
                : 24 November 2021
                Funding
                Funded by: National Natural Science Foundation of China 501100001809 http://doi.org/10.13039/501100001809
                Categories
                Research Article
                Agaricales
                Inocybaceae
                Taxonomy
                Asia
                Far East

                agaricales,muscarine,new species,phylogeny,taxonomy
                agaricales, muscarine, new species, phylogeny, taxonomy

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