Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques
Abstract Premise Several ferns and lycophytes produce subterranean gametophytes, including the Ophioglossaceae, Psilotaceae, and some members of the Schizaeaceae, Gleicheniaceae, and Lycopodiaceae. Despite the surge in plant‐microbiome research, which has been particularly boosted by high‐throughput...
| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
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Wiley
2022-03-01
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| Series: | Applications in Plant Sciences |
| Subjects: | |
| Online Access: | https://doi.org/10.1002/aps3.11461 |
| _version_ | 1828350348801081344 |
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| author | Ko‐Hsuan Chen Qiao‐Yi Xie Chiung‐Chih Chang Li‐Yaung Kuo |
| author_facet | Ko‐Hsuan Chen Qiao‐Yi Xie Chiung‐Chih Chang Li‐Yaung Kuo |
| author_sort | Ko‐Hsuan Chen |
| collection | DOAJ |
| description | Abstract Premise Several ferns and lycophytes produce subterranean gametophytes, including the Ophioglossaceae, Psilotaceae, and some members of the Schizaeaceae, Gleicheniaceae, and Lycopodiaceae. Despite the surge in plant‐microbiome research, which has been particularly boosted by high‐throughput sequencing techniques, the microbiomes of these inconspicuous fern gametophytes have rarely been examined. The subterranean gametophytes are peculiar due to their achlorophyllous nature, which makes them rely on fungi to obtain nutrients. Furthermore, the factors that shape the fungal communities (mycobiomes) of fern gametophytes have not been examined in depth. Methods and Results We present a workflow to study the mycobiome of the achlorophyllous gametophytes of Ophioderma pendulum using a high‐throughput metabarcoding approach. Simultaneously, each gametophyte was investigated microscopically to detect fungal structures. Two primer sets of the nuclear ITS sequence targeting general fungi were applied, in addition to a primer set that specifically targets the nuclear small subunit ribosomal rDNA region of arbuscular mycorrhizal fungi. Both the microscopic and metabarcoding approaches revealed many diverse fungi inhabiting a single gametophyte of O. pendulum. Discussion This study provides methodological details and discusses precautions for the mycobiome investigation of achlorophyllous gametophytes. This research is also the first to uncover the mycobiome assembly of an achlorophyllous gametophyte of an epiphytic fern. |
| first_indexed | 2024-04-14T01:23:43Z |
| format | Article |
| id | doaj.art-97c2e24e0d88414cb9c71918057a6ada |
| institution | Directory Open Access Journal |
| issn | 2168-0450 |
| language | English |
| last_indexed | 2024-04-14T01:23:43Z |
| publishDate | 2022-03-01 |
| publisher | Wiley |
| record_format | Article |
| series | Applications in Plant Sciences |
| spelling | doaj.art-97c2e24e0d88414cb9c71918057a6ada2022-12-22T02:20:33ZengWileyApplications in Plant Sciences2168-04502022-03-01102n/an/a10.1002/aps3.11461Mycobiome detection from a single subterranean gametophyte using metabarcoding techniquesKo‐Hsuan Chen0Qiao‐Yi Xie1Chiung‐Chih Chang2Li‐Yaung Kuo3Biodiversity Research Center, Academia Sinica Taipei TaiwanBiodiversity Research Center, Academia Sinica Taipei TaiwanBiodiversity Research Center, Academia Sinica Taipei TaiwanInstitute of Molecular and Cellular Biology National Tsing‐Hua University Hsinchu TaiwanAbstract Premise Several ferns and lycophytes produce subterranean gametophytes, including the Ophioglossaceae, Psilotaceae, and some members of the Schizaeaceae, Gleicheniaceae, and Lycopodiaceae. Despite the surge in plant‐microbiome research, which has been particularly boosted by high‐throughput sequencing techniques, the microbiomes of these inconspicuous fern gametophytes have rarely been examined. The subterranean gametophytes are peculiar due to their achlorophyllous nature, which makes them rely on fungi to obtain nutrients. Furthermore, the factors that shape the fungal communities (mycobiomes) of fern gametophytes have not been examined in depth. Methods and Results We present a workflow to study the mycobiome of the achlorophyllous gametophytes of Ophioderma pendulum using a high‐throughput metabarcoding approach. Simultaneously, each gametophyte was investigated microscopically to detect fungal structures. Two primer sets of the nuclear ITS sequence targeting general fungi were applied, in addition to a primer set that specifically targets the nuclear small subunit ribosomal rDNA region of arbuscular mycorrhizal fungi. Both the microscopic and metabarcoding approaches revealed many diverse fungi inhabiting a single gametophyte of O. pendulum. Discussion This study provides methodological details and discusses precautions for the mycobiome investigation of achlorophyllous gametophytes. This research is also the first to uncover the mycobiome assembly of an achlorophyllous gametophyte of an epiphytic fern.https://doi.org/10.1002/aps3.11461fungigametophytesmetabarcodingmycobiomeOphiodermaOphioglossaceae |
| spellingShingle | Ko‐Hsuan Chen Qiao‐Yi Xie Chiung‐Chih Chang Li‐Yaung Kuo Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques Applications in Plant Sciences fungi gametophytes metabarcoding mycobiome Ophioderma Ophioglossaceae |
| title | Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| title_full | Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| title_fullStr | Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| title_full_unstemmed | Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| title_short | Mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| title_sort | mycobiome detection from a single subterranean gametophyte using metabarcoding techniques |
| topic | fungi gametophytes metabarcoding mycobiome Ophioderma Ophioglossaceae |
| url | https://doi.org/10.1002/aps3.11461 |
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