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Yamashita Y, Ogura‐Tsujita Y, Nagata N, Kurosawa T, Yukawa T. Molecular identification of seed‐feeding flies dissected from herbarium specimens clarifies the 100‐year history of parasitism by
Japanagromyza tokunagai
in Japan. Ecol Res 2021. [DOI: 10.1111/1440-1703.12283] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Yumi Yamashita
- Graduate School of Symbiotic Systems Science and Technology Fukushima University 1 Kanayagawa, Fukushima Fukushima Japan
- Tsukuba Botanical Garden National Museum of Nature and Science Tsukuba, Ibaraki Japan
| | - Yuki Ogura‐Tsujita
- Faculty of Agriculture Saga University, 1 Honjyo Saga Japan
- United Graduate School of Agricultural Sciences Kagoshima University Kagoshima Japan
| | - Nobuaki Nagata
- Department of Anthropology National Museum of Nature and Science Tsukuba, Ibaraki Japan
| | - Takahide Kurosawa
- Faculty of Symbiotic Systems Science Fukushima University Fukushima Fukushima Japan
| | - Tomohisa Yukawa
- Tsukuba Botanical Garden National Museum of Nature and Science Tsukuba, Ibaraki Japan
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Affiliation(s)
- Naoyuki Nakahama
- Institute of Natural and Environmental Sciences, University of Hyogo Sanda City Japan
- The Museum of Nature and Human Activities, Hyogo Sanda City Japan
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Sugita N, Ebihara A, Hosoya T, Jinbo U, Kaneko S, Kurosawa T, Nakae M, Yukawa T. Non-destructive DNA extraction from herbarium specimens: a method particularly suitable for plants with small and fragile leaves. JOURNAL OF PLANT RESEARCH 2020; 133:133-141. [PMID: 31760570 DOI: 10.1007/s10265-019-01152-4] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Accepted: 11/07/2019] [Indexed: 06/10/2023]
Abstract
Protocols for DNA extraction from plants generally involve physical and chemical destruction of tissues. Use of these conventional methods precludes preservation of morphological information from herbarium specimens, especially for small plants with few leaves, and reduces the voucher value of specimens. Here, we developed a new, non-destructive DNA extraction protocol (Protocol 1) that only needs a small piece of leaf (< 25 mm2) to obtain DNA suitable for DNA sequencing from fragile herbarium specimens. The protocol was very simple and rapid; an extraction buffer was placed on the leaf surface of an intact specimen for 30 min at room temperature (20 °C). The quality of extracted DNA was checked by PCR amplification of two standard plant DNA barcode regions, the maturase K gene (matK, ca. 850 bp) and the ribulose-1,5-bisphosphatecarboxylase/oxygenase gene (rbcL, ca. 550 bp), for 14 vascular plant species encompassing various taxonomic groups. The protocol retrieved sequences from 80.0% of specimens for matK and 46.2% of specimens for rbcL. Placing of the extraction buffer onto specimens did not cause any tears or deformation, but caused discoloration in some plants. To improve DNA yield for specimens incompatible with Protocol 1, we developed an alternative protocol for DNA extraction with minimally invasive destruction of specimens (Protocol 2). In this protocol, a cut leaf was immersed in the extraction buffer for 30 min and stored subsequently in a fragment pocket on the specimen sheet. This alternative method retrieved matK sequences from 80.0% of specimens and rbcL sequences from 92.8% of specimens. The combination of Protocols 1 and 2 enabled us to obtain matK sequences from 90.0% of specimens and rbcL sequences form 92.8% of specimens. The new protocols facilitate the use of museum specimens for use of DNA of museum specimens while still preserving morphological information.
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Affiliation(s)
- Norimasa Sugita
- Department of Botany, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan.
| | - Atsushi Ebihara
- Department of Botany, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan
| | - Tsuyoshi Hosoya
- Department of Botany, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan
| | - Utsugi Jinbo
- Department of Zoology, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan
| | - Shingo Kaneko
- Faculty of Symbiotic Systems Science, Fukushima University, Fukushima, Fukushima, 960-1296, Japan
| | - Takahide Kurosawa
- Faculty of Symbiotic Systems Science, Fukushima University, Fukushima, Fukushima, 960-1296, Japan
| | - Masanori Nakae
- Department of Zoology, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan
| | - Tomohisa Yukawa
- Department of Botany, National Museum of Nature and Science, Tsukuba, Ibaraki, 305-0005, Japan
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