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      The diversity of cultivable endophytic fungi of the sand coast plant Ipomoeapes-caprae in Taiwan

      research-article
      1 , 1 ,
      Biodiversity Data Journal
      Pensoft Publishers
      biodiversity, coast plant, endophytic fungi, sandy beach

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          Abstract

          Background

          Ipomoea pes-caprae is a plant of sand coasts and it can tolerate stresses, such as high salinity, strong wind and sand movements and lack of nutrients. It plays an important role in coast protection and preventing erosion. Fungal endophytes show high biodiversity and have a strong influence on the survival of plants under different stress factors. Although this plant is important for sand coast ecosystems, little is known about the associated fungi. In this study, we isolated and identified endophytic fungi of Ipomoea pes-caprae , a dominant plant along the shore of Taiwan. The dataset contains 896 records, which correspond to 177 species. The geographical scope of the dataset covers the northern subtropical area of the main island of Taiwan, with its sand coasts in New Taipei, Taoyuan, Hsinchu and Taichung and two botanical gardens in Taipei and Taichung. The detailed original data of fungal diversity are rarely publicly shared under strictly formalised and, thus, reusable standards. As an example for such an approach, the complete occurrence dataset was made available in the Darwin Core Archive format via the Global Biodiversity Information Facility (GBIF) under Version 1.13, Taiwan Biodiversity Information Facility (TaiBIF) https://doi.org/10.15468/9h9rcg. In this first data paper on endophytic fungi, the scientific name and associated DNA sequence in the dataset were directly linked to other free online resource (Index Fungorum, GenBank), which shows the potential of GBIF for linking together different online data repositories.

          New information

          We describe a dataset, in which the diversity of endophytic fungi of the sand coast plant Ipomoea pes-caprae in Taiwan was investigated.

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          Most cited references29

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          AMPLIFICATION AND DIRECT SEQUENCING OF FUNGAL RIBOSOMAL RNA GENES FOR PHYLOGENETICS

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            ITS primers with enhanced specificity for basidiomycetes--application to the identification of mycorrhizae and rusts.

            We have designed two taxon-selective primers for the internal transcribed spacer (ITS) region in the nuclear ribosomal repeat unit. These primers, ITS1-F and ITS4-B, were intended to be specific to fungi and basidiomycetes, respectively. We have tested the specificity of these primers against 13 species of ascomycetes, 14 of basidiomycetes, and 15 of plants. Our results showed that ITS4-B, when paired with either a 'universal' primer ITS1 or the fungal-specific primer ITS1-F, efficiently amplified DNA from all basidiomycetes and discriminated against ascomycete DNAs. The results with plants were not as clearcut. The ITS1-F/ITS4-B primer pair produced a small amount of PCR product for certain plant species, but the quantity was in most cases less than that produced by the 'universal' ITS primers. However, under conditions where both plant and fungal DNAs were present, the fungal DNA was amplified to the apparent exclusion of plant DNA. ITS1-F/ITS4-B preferential amplification was shown to be particularly useful for detection and analysis of the basidiomycete component in ectomycorrhizae and in rust-infected tissues. These primers can be used to study the structure of ectomycorrhizal communities or the distribution of rusts on alternate hosts.
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              Development of primer sets designed for use with the PCR to amplify conserved genes from filamentous ascomycetes.

              We constructed nine sets of oligonucleotide primers on the basis of the results of DNA hybridization of cloned genes from Neurospora crassa and Aspergillus nidulans to the genomes of select filamentous ascomycetes and deuteromycetes (with filamentous ascomycete affiliations). Nine sets of primers were designed to amplify segments of DNA that span one or more introns in conserved genes. PCR DNA amplification with the nine primer sets with genomic DNA from ascomycetes, deuteromycetes, basidiomycetes, and plants revealed that five of the primer sets amplified a product only from DNA of the filamentous ascomycetes and deuteromycetes. The five primer sets were constructed from the N. crassa genes for histone 3, histone 4, beta-tubulin, and the plasma membrane ATPase. With these five primer sets, polymorphisms were observed in both the size of and restriction enzyme sites in the amplified products from the filamentous ascomycetes. The primer sets described here may provide useful tools for phylogenetic studies and genome analyses in filamentous ascomycetes and deuteromycetes (with ascomycete affiliations), as well as for the rapid differentiation of fungal species by PCR.

                Author and article information

                Contributors
                Journal
                Biodivers Data J
                Biodivers Data J
                1
                urn:lsid:arphahub.com:pub:F9B2E808-C883-5F47-B276-6D62129E4FF4
                urn:lsid:zoobank.org:pub:245B00E9-BFE5-4B4F-B76E-15C30BA74C02
                Biodiversity Data Journal
                Pensoft Publishers
                1314-2836
                1314-2828
                2023
                17 February 2023
                : 11
                : e98878
                Affiliations
                [1 ] National Taiwan University, Taipei, Taiwan National Taiwan University Taipei Taiwan
                Author notes
                Corresponding author: Roland Kirschner ( kirschner@ 123456ntu.edu.tw ).

                Academic editor: Christian Wurzbacher

                Author information
                https://orcid.org/0000-0003-4956-5662
                Article
                98878 21385
                10.3897/BDJ.11.e98878
                10848570
                38327354
                cd54cb5b-ef34-4e8a-a12d-cd1980705145
                Yu-Hung Yeh, Roland Kirschner

                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
                : 15 December 2022
                : 03 February 2023
                Page count
                Figures: 0, Tables: 2, References: 26
                Funding
                The study was supported by the Ministry of Science & Technology of Taiwan (MOST 108-2621-B-002-007, 109-2621-B-002-004, 110-2621-B-002-001-MY2).
                Categories
                Data Paper (Biosciences)
                Fungi
                Anamorphic Fungi
                Ascomycota
                Basidiomycota
                Zygomycota
                Biodiversity & Conservation
                Asia

                biodiversity,coast plant,endophytic fungi,sandy beach
                biodiversity, coast plant, endophytic fungi, sandy beach

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