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      Tongoloa arguta (Apiaceae), a new species from southwest China

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          Abstract

          A new species Tongoloa arguta ( Apiaceae ) is described and illustrated in this article. The new species grows in alpine bushes and meadows in south-western China. It resembles T. silaifolia , but differs from the latter by the length of the stem, ultimate segments of leaf and rays of the umbel. Phylogenetic analysis, based on nuclear ribosomal DNA internal transcribed spacer (ITS) sequences, is provided, as well as comparative morphology between related species.

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          MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

          Sudhir Kumar, Glen Stecher, Koichiro Tamura (2016)
          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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            MrBayes 3.2: Efficient Bayesian Phylogenetic Inference and Model Choice Across a Large Model Space

            Fredrik Ronquist, Maxim Teslenko, Paul van der Mark … (2012)
            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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              AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

              T.J White, T. Bruns, S. Lee … (1990)
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                Author and article information

                Contributors
                Xing-Jin He
                Journal
                Journal ID (nlm-ta): PhytoKeys
                Journal ID (iso-abbrev): PhytoKeys
                Journal ID (publisher-id): 3
                Journal ID (index): urn:lsid:arphahub.com:pub:F7FCE910-8E78-573F-9C77-7788555F8AAD
                Title: PhytoKeys
                Publisher: Pensoft Publishers
                ISSN (Print): 1314-2011
                ISSN (Electronic): 1314-2003
                Publication date Collection: 2020
                Publication date (Electronic): 21 October 2020
                Volume: 164
                Pages: 11-19
                Affiliations
                [1 ] Key laboratory of Bio-Resources and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, 610065, Chengdu, Sichuan, China Sichuan University Chengdu China
                Author notes
                Corresponding author: Xing-Jin He ( xjhe@ 123456scu.edu.cn )

                Academic editor: Y. Mutafchiev

                Author information
                https://orcid.org/0000-0002-1926-6517
                Article
                Publisher ID: 54927
                DOI: 10.3897/phytokeys.164.54927
                PMC ID: 7593316
                SO-VID: da579ed9-b240-42d3-8186-700b5b141836
                Copyright © Ling-Jian Gui, Jun Wen, Yan-Ping Xiao, Ting Ren, Hong-Yi Zheng, Xing-Jin He
                License:

                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
                Date received : 31 May 2020
                Date accepted : 09 September 2020
                Categories
                Subject: Research Article
                Subject: Apiales
                Subject: Biodiversity & Conservation
                Subject: Evolutionary biology
                Subject: Molecular systematics
                Subject: Cenozoic
                Subject: Asia

                ScienceOpen disciplines: Plant science & Botany
                Keywords: apiaceae ,china,new species,phylogeny, tongoloa
                Data availability:
                ScienceOpen disciplines: Plant science & Botany
                Keywords: apiaceae , china, new species, phylogeny, tongoloa

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