DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story?
Lichens collected worldwide for centuries have resulted in millions of specimens deposited in herbaria that offer the potential to assess species boundaries, phenotypic diversification, ecology, and distribution. The application of molecular approaches to historical collections has been limited due...
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MDPI AG
2022-04-01
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| Online Access: | https://www.mdpi.com/1424-2818/14/4/284 |
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| author | Manuela Dal Forno James D. Lawrey Bibiana Moncada Frank Bungartz Martin Grube Eric Schuettpelz Robert Lücking |
| author_facet | Manuela Dal Forno James D. Lawrey Bibiana Moncada Frank Bungartz Martin Grube Eric Schuettpelz Robert Lücking |
| author_sort | Manuela Dal Forno |
| collection | DOAJ |
| description | Lichens collected worldwide for centuries have resulted in millions of specimens deposited in herbaria that offer the potential to assess species boundaries, phenotypic diversification, ecology, and distribution. The application of molecular approaches to historical collections has been limited due to DNA fragmentation, but high-throughput sequencing offers an opportunity to overcome this barrier. Here, we combined a large dataset of ITS sequences from recently collected material and historical collections, obtained through Sanger, 454, or Illumina Sequencing, to test the performance of ITS barcoding in two genera of lichenized Basidiomycota: <i>Cora</i> and <i>Corella</i>. We attempted to generate new sequence data for 62 fresh specimens (from 2016) and 274 historical collections (collected between 1888 and 1998), for a final dataset of 1325 sequences. We compared various quantitative approaches to delimit species (GMYC, bPTP, ASAP, ABGD) and tested the resolution and accuracy of the ITS fungal barcoding marker by comparison with a six-marker dataset. Finally, we quantitatively compared phylogenetic and phenotypic species delimitation for 87 selected <i>Cora</i> species that have been formally described. Our HTS approach successfully generated ITS sequences for 76% of the historical collections, and our results show that an integrative approach is the gold-standard for understanding diversity in this group. |
| first_indexed | 2024-03-09T10:56:06Z |
| format | Article |
| id | doaj.art-397258f1f6904ea287da5e91d3ab8b5c |
| institution | Directory Open Access Journal |
| issn | 1424-2818 |
| language | English |
| last_indexed | 2024-03-09T10:56:06Z |
| publishDate | 2022-04-01 |
| publisher | MDPI AG |
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| spelling | doaj.art-397258f1f6904ea287da5e91d3ab8b5c2023-12-01T01:37:22ZengMDPI AGDiversity1424-28182022-04-0114428410.3390/d14040284DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story?Manuela Dal Forno0James D. Lawrey1Bibiana Moncada2Frank Bungartz3Martin Grube4Eric Schuettpelz5Robert Lücking6Botanical Research Institute of Texas, Fort Worth, TX 76107, USADepartment of Biology, George Mason University, Fairfax, VA 22030, USABotanischer Garten, Freie Universität Berlin, Königin-Luise-Straße 6-8, 14195 Berlin, GermanyBiodiversity Knowledge Integration Center & School of Life Sciences, Arizona State University, Tempe, AZ 85287-4108, USAInstitut Für Pflanzenwissenschaften, Karl-Franzens-Universität Graz (University of Graz), Holteigasse 6, 8010 Graz, AustriaDepartment of Botany, Smithsonian Institution, National Museum of Natural History, 10th St. & Constitution Ave. NW, Washington, DC 20560, USABotanischer Garten, Freie Universität Berlin, Königin-Luise-Straße 6-8, 14195 Berlin, GermanyLichens collected worldwide for centuries have resulted in millions of specimens deposited in herbaria that offer the potential to assess species boundaries, phenotypic diversification, ecology, and distribution. The application of molecular approaches to historical collections has been limited due to DNA fragmentation, but high-throughput sequencing offers an opportunity to overcome this barrier. Here, we combined a large dataset of ITS sequences from recently collected material and historical collections, obtained through Sanger, 454, or Illumina Sequencing, to test the performance of ITS barcoding in two genera of lichenized Basidiomycota: <i>Cora</i> and <i>Corella</i>. We attempted to generate new sequence data for 62 fresh specimens (from 2016) and 274 historical collections (collected between 1888 and 1998), for a final dataset of 1325 sequences. We compared various quantitative approaches to delimit species (GMYC, bPTP, ASAP, ABGD) and tested the resolution and accuracy of the ITS fungal barcoding marker by comparison with a six-marker dataset. Finally, we quantitatively compared phylogenetic and phenotypic species delimitation for 87 selected <i>Cora</i> species that have been formally described. Our HTS approach successfully generated ITS sequences for 76% of the historical collections, and our results show that an integrative approach is the gold-standard for understanding diversity in this group.https://www.mdpi.com/1424-2818/14/4/284ASTRALbiological collectionscryptic speciesdiversificationfungal barcodingfungarium |
| spellingShingle | Manuela Dal Forno James D. Lawrey Bibiana Moncada Frank Bungartz Martin Grube Eric Schuettpelz Robert Lücking DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? Diversity ASTRAL biological collections cryptic species diversification fungal barcoding fungarium |
| title | DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? |
| title_full | DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? |
| title_fullStr | DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? |
| title_full_unstemmed | DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? |
| title_short | DNA Barcoding of Fresh and Historical Collections of Lichen-Forming Basidiomycetes in the Genera <i>Cora</i> and <i>Corella</i> (Agaricales: Hygrophoraceae): A Success Story? |
| title_sort | dna barcoding of fresh and historical collections of lichen forming basidiomycetes in the genera i cora i and i corella i agaricales hygrophoraceae a success story |
| topic | ASTRAL biological collections cryptic species diversification fungal barcoding fungarium |
| url | https://www.mdpi.com/1424-2818/14/4/284 |
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