<i>Vanilla</i> aerial and terrestrial roots host rich communities of orchid mycorrhizal and ectomycorrhizal fungi

Johnson, Lynnaun J. A. N.; Gónzalez-Chávez, Ma. del Carmen A.; Carrillo-González, Rogelio; Porras‐Alfaro, Andrea; Mueller, Gregory M.

doi:10.1002/ppp3.10171

Cited by 16 publications

(25 citation statements)

References 78 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…We did not detect signi cant differences in bacterial or fungal overall levels of diversity among cultivated vanilla and its feral counterpart, or among asymptomatic and symptomatic individuals. This is similar to a recent report in vanilla plants growing in wild-natural conditions in which the community of mycorrhizal fungi was not signi cantly different to the plants in the highly managed farm [41]. However, diversity indexes and richness comparisons can be sensitive to our small sample size, so we focused on the 10 most abundant taxa, for which we found differences in groups such as Xylariaceae and Actinobacteria and Proteobacteria, among conditions and organs, as well as some more unusual groups such as Negativicutes, apparently present only in asymptomatic individuals.…”

Section: Discussionsupporting

confidence: 91%

“…Cultivated taxa from our microbiological collection characterized with Sanger sequencing also mostly belong to the Xylariaceae and Nectriaceae families, although it is important to note that species remain hypothetical due to the di culties in taxonomic assignment in fungi. Ceratobasidium seems to be an important genus in vanilla as previously identi ed for this species [41], although its function is not clear, whether it is endomycorrhizal or saprotrophic, for instance. Members of the Xylariaceae in general likely have an important role in the expression of symptoms of SRD.…”

Section: Discussionmentioning

confidence: 94%

See 1 more Smart Citation

Microbial Diversity in Cultivated and Feral Vanilla Vanilla planifolia Orchids Affected by Stem and Rot Disease

et al. 2021

View full text Add to dashboard Cite

The worldwide production of vanilla, a native orchid from Mexico, is greatly affected by stem and root rot disease, typically associated with Fusarium oxysporum fungi. We hypothesized that the presence of Fusarium species in vanilla is not su cient for the plant to express symptoms of the disease. We described the taxonomic composition of endophytic microbiomes in symptomatic, asymptomatic vanilla plants using 16S and ITS rDNA metabarcoding, and ITS Sanger sequences generated from fungal isolates. We compared the bacterial and fungal diversity in vanilla plants from a long-term plantation, and from feral plants found near abandoned plantations that did not present SRD symptoms. No signi cant differences were found in the species richness of the bacterial and fungal microbiome among feral, or asymptomatic and symptomatic cultivated vanilla. However, signi cant differences were detected in both fungal and bacterial diversity from different organs in the same plant, with roots being more diverse than stems. We found that Proteobacteria and Actinobacteria, as well as the fungal families Nectriaceae and Xylariaceae, constitute the core of the vanilla microbiome that inhabits the root and stem of both cultivated and feral plants. Our work provides information on the microbial diversity found in root and stem rot in vanilla and lays the groundwork for a better understanding of the role of the microbiome in fungal diseases in vanilla cultivation.

show abstract

Section: Discussionsupporting

confidence: 91%

Section: Discussionmentioning

confidence: 94%

Microbial Diversity in Cultivated and Feral Vanilla Vanilla planifolia Orchids Affected by Stem and Rot Disease

et al. 2021

View full text Add to dashboard Cite

show abstract

“…In addition to traditional OMF, we detected low read abundances of ECM fungi in the roots of the epiphytic orchids examined. This is in contrast to aerial roots of V. planifolia which were heavily colonized by ECM fungi (Johnson et al, 2021). Vanilla planifolia is a hemiepiphytic orchid and it is possible that the ECM fungi in the aerial roots are from systemic colonization emanating from the terrestrial roots.…”

Section: Discussionmentioning

confidence: 96%

“…Ectomycorrhizal (ECM) fungi as well as some OMF are known to be recalcitrant to being cultured and recent studies utilizing amplicon sequencing have detected a diversity of ECM fungi in the roots of both epiphytic and terrestrial orchids (Selosse et al, 2022). Additionally, amplicon sequencing can increase the detection of potential OMF in epiphytic orchid roots compared to Sanger Sequencing as Sanger Sequencing is often limited by the need for first culturing the fungi (Waud et al, 2016;Jacquemyn et al, 2017;Novotná et al, 2018;Johnson et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

Diversity and specificity of orchid mycorrhizal fungi in a leafless epiphytic orchid, Dendrophylax lindenii and the potential role of fungi in shaping its fine-scale distribution

et al. 2023

Self Cite

View full text Add to dashboard Cite

Orchids grow in diverse habitats worldwide with most (approximately 69%) growing on trees as epiphytes. Although orchid mycorrhizal fungi have been identified as potential drivers for terrestrial orchid distribution, the influence of these fungi on the fine-scale distribution of epiphytic orchids is poorly understood. In this study, we investigated the mycorrhizal fungal community and fine-scale distribution of Dendrophylax lindenii, a rare and endangered epiphytic orchid that is leafless when mature. We used amplicon sequencing to investigate the composition of orchid mycorrhizal fungi in the roots of 39 D. lindenii individuals in their natural habitat, the swamps of Florida. We compared the orchid mycorrhizal fungi of D. lindenii to those of co-occurring epiphytic orchids, as well as to the orchid mycorrhizal fungal communities of bark from potential host trees, with and without D. lindenii. Our results show that D. lindenii has a high specificity for a single Ceratobasidium species, which is widely distributed on phorophytes and detected in both wet and dry periods in the orchid’s habitat. This Ceratobasidium species was mostly absent or only recorded in low frequency in the roots of co-occurring epiphytic orchids. Phylogenetic analysis documented that this Ceratobasidium was conspecific with the strain that is used to germinate D. lindenii ex-situ. However, our findings suggest that laboratory germinated adult D. lindenii transplanted into the field had lower read abundances of this Ceratobasidium compared to naturally occurring plants. These findings suggest that this orchid mycorrhizal fungus may play a significant role in the fine-scale distribution of naturally occurring D. lindenii.

show abstract

“…The fungal universal primer pair ITS86F/ITS4 outperformed other primer combinations. Many studies have investigated mycorrhizal communities using ITS86F/ITS4 in both terrestrial and epiphytic orchids ( Cevallos, Sánchez-Rodríguez, Decock, Declerck, & Suárez, 2017 ; Johnson, Gónzalez‐Chávez, Carrillo‐González, Porras‐Alfaro, & Mueller, 2020 ). However, Waud et al (2014) pointed out that this primer pair excludes the Tulasnellaceae fungi including Tulasnella subgroup A defined by Girlanda et al (2011) .…”

Section: Introductionmentioning

confidence: 99%

Strong primer bias for <i>Tulasnellaceae</i> fungi in metabarcoding: Specific primers improve the characterization of the mycorrhizal communities of epiphytic orchids

et al. 2021

View full text Add to dashboard Cite

Primer bias toward Tulasnellaceae fungi during PCR is a known issue with metabarcoding analyses for the assessment of orchid mycorrhizal communities. However, this bias had not been evaluated for the fungal communities of epiphytic orchids, which account for 69% of all orchid species diversity. We compared the mycorrhizal communities detected using two primer pairs, a fungal universal primer pair (ITS86F/ITS4) and Tulasnella-specific primer pair (5.8STulngs/ITS4-Tul2), using a mock community of fungal isolates from epiphytic orchids and also environmental samples, including orchid roots and a tree bark tip from the host tree of an epiphytic orchid collected. The detected mycorrhizal communities differed widely depending on the primer pairs used. The fungal universal primer pair successfully identified Ceratobasidiaceae and Serendipitaceae fungi but did not reflect Tulasnellaceae diversity. Tulasnellaceae fungi were mainly detected using the Tulasnella-specific primer pair. These tendencies were observed in both the mock community and environmental samples. These results strongly suggest that the use of a Tulasnella-specific primer in combination with a fungal universal primer is essential for assessing the mycorrhizal communities of orchids through metabarcoding analysis, especially in epiphytic orchids. Our study contributes to further understanding of the diversity of mycorrhizal fungi in orchids.

show abstract

Vanilla aerial and terrestrial roots host rich communities of orchid mycorrhizal and ectomycorrhizal fungi

Abstract: This is an open access article under the terms of the Creative Commons Attribution License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

Cited by 16 publications

References 78 publications

Microbial Diversity in Cultivated and Feral Vanilla Vanilla planifolia Orchids Affected by Stem and Rot Disease

Microbial Diversity in Cultivated and Feral Vanilla Vanilla planifolia Orchids Affected by Stem and Rot Disease

Diversity and specificity of orchid mycorrhizal fungi in a leafless epiphytic orchid, Dendrophylax lindenii and the potential role of fungi in shaping its fine-scale distribution

Strong primer bias for <i>Tulasnellaceae</i> fungi in metabarcoding: Specific primers improve the characterization of the mycorrhizal communities of epiphytic orchids

Contact Info

Product

Resources

About