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      Updated taxonomy of Lactifluus section Luteoli : L. russulisporus from Australia and L. caliendrifer from Thailand

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          Abstract

          Abstract

          Lactifluus russulisporus Dierickx & De Crop and Lactifluus caliendrifer Froyen & De Crop are described from eucalypt forests in Queensland, Australia and different forest types in Thailand, respectively. Both species have recently been published on Index Fungorum and fit morphologically and molecularly in L. sect. Luteoli , a section within L. subg. Gymnocarpi that encompasses species with alboochraceous basidiomes, white latex that stains brown and typical capitate elements in the pileipellis and/or marginal cells.

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          MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability

          We report a major update of the MAFFT multiple sequence alignment program. This version has several new features, including options for adding unaligned sequences into an existing alignment, adjustment of direction in nucleotide alignment, constrained alignment and parallel processing, which were implemented after the previous major update. This report shows actual examples to explain how these features work, alone and in combination. Some examples incorrectly aligned by MAFFT are also shown to clarify its limitations. We discuss how to avoid misalignments, and our ongoing efforts to overcome such limitations.
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            MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

            We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
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              RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies

              Motivation: Phylogenies are increasingly used in all fields of medical and biological research. Moreover, because of the next-generation sequencing revolution, datasets used for conducting phylogenetic analyses grow at an unprecedented pace. RAxML (Randomized Axelerated Maximum Likelihood) is a popular program for phylogenetic analyses of large datasets under maximum likelihood. Since the last RAxML paper in 2006, it has been continuously maintained and extended to accommodate the increasingly growing input datasets and to serve the needs of the user community. Results: I present some of the most notable new features and extensions of RAxML, such as a substantial extension of substitution models and supported data types, the introduction of SSE3, AVX and AVX2 vector intrinsics, techniques for reducing the memory requirements of the code and a plethora of operations for conducting post-analyses on sets of trees. In addition, an up-to-date 50-page user manual covering all new RAxML options is available. Availability and implementation: The code is available under GNU GPL at https://github.com/stamatak/standard-RAxML. Contact: alexandros.stamatakis@h-its.org Supplementary information: Supplementary data are available at Bioinformatics online.
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                Author and article information

                Contributors
                Journal
                MycoKeys
                MycoKeys
                11
                urn:lsid:arphahub.com:pub:c004a564-9d6a-5f9f-b058-6a3815dfe9c3
                MycoKeys
                Pensoft Publishers
                1314-4057
                1314-4049
                2019
                10 July 2019
                : 56
                : 13-32
                Affiliations
                [1 ] Research Group Mycology, Department of Biology, Ghent University, Ghent, Belgium Ghent University Ghent Belgium
                [2 ] Institute of Systematic Botany, The New York Botanical Garden, Bronx, NY, USA The New York Botanical Garden New York United States of America
                [3 ] National Center for Genetic Engineering and Biotechnology (BIOTEC), Chang Wat Pathum Thani, Thailand BIOTEC Thailand Science Park Thailand
                Author notes
                Corresponding author: Glen Dierickx ( glen.dierickx@ 123456ugent.be )

                Academic editor: Olivier Raspé

                Author information
                https://orcid.org/0000-0001-5387-8544
                https://orcid.org/0000-0002-2610-3062
                https://orcid.org/0000-0002-9067-6981
                Article
                PMC6637039 PMC6637039 6637039 35204
                10.3897/mycokeys.56.35204
                6637039
                31341397
                bec5b3fa-df6d-4e0d-bccc-2900dc076b0b

                This is an open access article distributed under the terms of the CC0 Public Domain Dedication.

                History
                : 10 April 2019
                : 23 May 2019
                Categories
                Research Article
                Russulaceae
                Taxonomy
                Asia
                Australasia

                sterile elements, Leptocystidia ,phylogeny,taxonomy, Russulaceae ,milkcaps,Ectomycorrhizal fungi,paracystidia

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