5
views
0
recommends
+1 Recommend
0 collections
    0
    shares
      • Record: found
      • Abstract: found
      • Article: found
      Is Open Access

      Parahellenia, a new genus segregated from Hellenia (Costaceae) based on phylogenetic and morphological evidence

      research-article

      Read this article at

      Bookmark
          There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

          Abstract

          Previous studies recognized three major lineages of the family Costaceae: a South American clade, an Asian clade and a Costus clade. However, the genus Hellenia within the Asian clade has been shown to be non-monophyletic and its morphology has not been studied carefully. Therefore, the complete plastid genomes of Hellenia species were obtained and the monophyly of Hellenia was tested through four different datasets in this study. Plastid phylogenomic analyses of Costaceae revealed that Hellenia is strongly supported as paraphyletic. Two major clades are recovered, namely the Hellenia s.s. subclade and the Parahellenia subclade. Phylogenetic analyses based on an enlarged taxon sampling of the Asian clade using a two chloroplast markers dataset ( trnK intron and trnL-F spacer) confirmed the paraphyly of Hellenia. Meanwhile, morphological analyses suggested that members of the Parahellenia subclade differ from the remaining Hellenia species in many characters including inflorescences, bracts, stigma, axillary buds, floral tubes and labellum. According to the present molecular and morphological evidence, the latter subclade is recognized as a new genus, Parahellenia. Two new species are described, four new combinations are made, and identification keys are also provided.

          Highlights

          • The genus Hellenia has been shown to be non-monophyletic and its morphology has not been studied carefully.

          • Plastid phylogenomic analyses of Costaceae revealed that Hellenia is strongly supported as paraphyletic and two major clades are recovered, namely the Hellenia s.s. subclade and the Parahellenia subclade.

          • Morphological analyses suggested that members of the Parahellenia subclade differ from the remaining Hellenia species.

          • According to the present molecular and morphological evidence, a new genus, Parahellenia, is established.

          • Two new species are described and four new combinations are made.

          Related collections

          Most cited references48

          • Record: found
          • Abstract: found
          • Article: found
          Is Open Access

          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.
            Bookmark
            • Record: found
            • Abstract: found
            • Article: not found

            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.
              Bookmark
              • Record: found
              • Abstract: found
              • Article: found
              Is Open Access

              IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies

              Large phylogenomics data sets require fast tree inference methods, especially for maximum-likelihood (ML) phylogenies. Fast programs exist, but due to inherent heuristics to find optimal trees, it is not clear whether the best tree is found. Thus, there is need for additional approaches that employ different search strategies to find ML trees and that are at the same time as fast as currently available ML programs. We show that a combination of hill-climbing approaches and a stochastic perturbation method can be time-efficiently implemented. If we allow the same CPU time as RAxML and PhyML, then our software IQ-TREE found higher likelihoods between 62.2% and 87.1% of the studied alignments, thus efficiently exploring the tree-space. If we use the IQ-TREE stopping rule, RAxML and PhyML are faster in 75.7% and 47.1% of the DNA alignments and 42.2% and 100% of the protein alignments, respectively. However, the range of obtaining higher likelihoods with IQ-TREE improves to 73.3-97.1%.
                Bookmark

                Author and article information

                Contributors
                Journal
                Plant Divers
                Plant Divers
                Plant Diversity
                Kunming Institute of Botany, Chinese Academy of Sciences
                2096-2703
                2468-2659
                08 March 2022
                July 2022
                08 March 2022
                : 44
                : 4
                : 389-405
                Affiliations
                [a ]Guangdong Provincial Key Laboratory of Applied Botany/Guangdong Provincial Key Laboratory of Digital Botanical Garden, South China Botanical Garden, Chinese Academy of Sciences, 510650, Guangzhou, People's Republic of China
                [b ]Department of Horticulture and Landscape Architecture, Zhongkai University of Agriculture and Engineering, 510225, Guangzhou, People's Republic of China
                [c ]Institute of Ecology and Biological Resources, Vietnam Academy of Science and Technology, 18 Hoang Quoc Viet, Hanoi, Vietnam
                [d ]Graduate University of Science and Technology, Vietnam Academy of Science and Technology, Hanoi, Vietnam
                Author notes
                []Corresponding author. nhxia@ 123456scbg.ac.cn
                [1]

                These authors contributed equally to this work.

                Article
                S2468-2659(22)00017-8
                10.1016/j.pld.2022.02.001
                9363654
                35967252
                4285b240-b1ba-4c7f-98a3-a3326e419e11
                © 2022 Kunming Institute of Botany, Chinese Academy of Sciences. Publishing services by Elsevier B.V. on behalf of KeAi Communications Co. Ltd.

                This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).

                History
                : 12 November 2021
                : 25 January 2022
                : 2 February 2022
                Categories
                Research Paper

                molecular phylogenomics,new genus,new species,cheilocostus

                Comments

                Comment on this article