Richness of cultivable endophytic fungi along an altitudinal gradient in wet forests of Costa Rica

Rojas-Jiménez, Keilor; Hernández, Myriam; Blanco, Jorge López; Vargas, Luis Diego; Acosta-Vargas, Luis Guillermo; Tamayo, Giselle

doi:10.1016/j.funeco.2015.12.006

Cited by 28 publications

(19 citation statements)

References 29 publications

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“…On the other hand, the results did not meet our expectations (see above), because significant correlations to environmental parameters (here, it was the difference between valley and mountain samples) were still recognized. The present cultivation data are in concordance with similar studies (Unterseher et al 2013b) and confirm general knowledge about the community ecology of leaf endophytes (Cordier et al 2012, Zimmermann and Vitousek 2012, Meng et al 2013, Glynou et al 2015, Rojas-Jimenez et al 2016. Moreover, similar results were observed in the present comparative study on the basis of HTS data (see also Unterseher 2016, Unterseher et al 2016).…”

Section: The Two Methods Revealed Consistent Signals Of Both Communitsupporting

confidence: 93%

What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions

Siddique¹,

Khokon²,

Unterseher³

2017

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Comparative simultaneous studies of environmental high-throughput sequencing (HTS) and cultivation of plant-associated fungi have rarely been conducted in the past years. For the present contribution, HTS and extinction culturing were applied for the same leaf samples of European beech (Fagus sylvatica) in order to trace both "real" environmental drivers as well as method-dependent signals of the observed mycobiomes. Both approaches resulted in non-overlapping community composition and pronounced differences in taxonomic classification and trophic stages. However, both methods revealed similar correlations of the fungal communities with local environmental conditions. Our results indicate undeniable advantages of HTS over cultivation in terms of revealing a good representation of the major functional guilds, rare taxa and biodiversity signals of leaf-inhabiting fungi. On the other hand our results demonstrate that the immense body of literature about cultivable endophytic fungi can and should be used for the interpretation of community signals and environmental correlations obtained from HTS studies and that cultivation studies should be continued at the highest standards, e.g. when sequencing facilities are not available or if such surveys are expanded into functional aspects with experiments on living isolates.

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Section: The Two Methods Revealed Consistent Signals Of Both Communitsupporting

confidence: 93%

What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions

Siddique¹,

Khokon²,

Unterseher³

2017

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“…Elevation significantly affected the species richness and abundance of the fungal endophytes. In a study assessing the richness of endophytic fungi along an elevation gradient in Costa Rica, Glomerellales increased in abundance with elevation increase, while Xylariales showed an opposite trend ( Rojas-Jimenez et al, 2016 ). However, in our study, we found that elevation was negatively associated with the abundance of Glomerellales, while Xylariales was positively associated with the high elevation.…”

Section: Discussionmentioning

confidence: 99%

“…The distribution and growth of endophytes also vary across seasons and elevation gradients ( Gao et al, 2005 ; Guo et al, 2008 ; de Mesquita et al, 2018 ; Ni et al, 2018 ). Elevation gradients and seasons are associated not only with the differences in the temperature, relative humidity and precipitation but also shifts in the vegetation and soils ( Hashizume et al, 2008 ; Rojas-Jimenez et al, 2016 ; Siddique and Unterseher, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

“…To date, many studies examining diversity patterns of endophytes have focused on factors such as agricultural practice, vegetation and elevation for pharmaceutical plants and other crops ( Bengtsson et al, 2005 ; Gao et al, 2005 ; Meyling and Eilenberg, 2007 ; Guo et al, 2008 ; Hashizume et al, 2008 ; Mishra et al, 2012 ; Peršoh, 2013 ; Zhang et al, 2014 ; Rojas-Jimenez et al, 2016 ; Ramos et al, 2017 ). Trees or Microthlaspi plants are examples of highly studied endophytic communities and the factors that influence them ( Zimmerman and Vitousek, 2012 ; Bálint et al, 2015 ; Eusemann et al, 2016 ; Glynou et al, 2016 ).…”

Section: Introductionmentioning

confidence: 99%

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Fungal Endophyte Communities of Crucifer Crops Are Seasonally Dynamic and Structured by Plant Identity, Plant Tissue and Environmental Factors

et al. 2020

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Endophytic fungi are important in diverse plant functions but knowledge of the factors that shape assemblages of these symbionts is lacking. Here, using a culture-dependent approach, we report 4,178 endophytic fungal isolates representing 16 orders isolated from stems, roots and leaves of three cruciferous plant species, Chinese cabbage ( Brassica rapa L.), radish ( Raphanus sativus L.) and white cabbage ( B. olerocea L.), collected from 21 focal fields with different landscape contexts and pesticide uses during four seasons (summer, autumn, winter and spring). The colonization rate of fungi was found to be most strongly affected by season, plant identity and plant tissue. The colonization was highest during autumn, followed by summer, spring and lowest during winter. The colonization was highest in B. olerocea (53.2%), followed by B. rapa (42.6%), and lowest in R. sativus (35.0%). The colonization was highest in stems (51.9%) in all plant types, followed by leaves (42.4%) and roots (37.5%). Hypocreales was the dominant order (33.3% of all the isolates), followed by Glomerellales (26.5%), Eurotiales (12.1%), Pleosporales (9.8%) and Capnodiales (6.0%). Fungal endophyte abundance (number of isolates) followed the same pattern as colonization rate, while species richness varied with season and host plant tissue. Ordination analyses showed that the abundance and richness of Hypocreales, Eurotiales and Sordariales were associated with plant roots, while Capnodiales, Pleosporales and Trichosphaeriales were associated with spring. Other environmental factors, elevation, and the proportions of grassland, forest, orchard and waterbodies in the surrounding landscape also exerted effects within some categories of other main effects or for certain fungal taxa. Our results indicate that while fungal endophyte communities of crucifer crops vary strongly with the season, they are also strongly structured by plant identity and plant tissue, to a lesser extent by pesticide use and only weakly by landscape composition. The understanding of the ecological roles of fungal endophytes could contribute to habitat management and consequently improve crop pest management.

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“…from sessile oak, and Gnomoniopsis smithogilvyi from sweet chestnut. Some of the identified species are well-known endophytes [8][9][10][11]. We speculate that endophytes could have an important role in competing with P. fagi for the same substrate or could have a role in the development of necrosis.…”

Section: Discussionmentioning

confidence: 89%

Pseudodidymella fagi in Slovenia: First Report and Expansion of Host Range

Ogris

Brglez

Piškur

2019

Forests

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The fungus Pseudodidymella fagi is spreading in Europe and causing leaf blotch of European beech, Fagus sylvatica. Between 2008 and 2017, outbreaks of P. fagi were observed on European beech in Switzerland, Germany (also on F. orientalis), Austria, and Slovakia. In Slovenia, leaf blotch symptoms were first observed on F. sylvatica in 2018. P. fagi was identified as the causal agent of the observed symptoms in Slovenia by morphological examinations together with sequencing of the internal transcribed spacer (ITS) region of the rDNA. This study links the fungus to the expansion of the known distribution of the disease to Slovenia, and based on in vitro pathogenicity trials, also to a new potential host, Quercus petraea. The pathogenicity tests confirmed F. sylvatica and F. orientalis as hosts for P. fagi, but not Castanea sativa, where pathogenicity to F. orientalis was proved for first time in vitro. Although Koch’s postulates could not be proven for C. sativa, it seems to be partially susceptible in vitro because some of the inoculation points developed lesions. Additionally, damage to Carpinus betulus related to P. fagi near heavily infected beech trees was observed in vivo but was not tested in laboratory trials. Based on the results and our observations in the field, it is likely that P. fagi has a wider host range than previously thought and that we might be witnessing host switching.

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Richness of cultivable endophytic fungi along an altitudinal gradient in wet forests of Costa Rica

Cited by 28 publications

References 29 publications

What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions

What do we learn from cultures in the omics age? High-throughput sequencing and cultivation of leaf-inhabiting endophytes from beech (Fagus sylvatica L.) revealed complementary community composition but similar correlations with local habitat conditions

Fungal Endophyte Communities of Crucifer Crops Are Seasonally Dynamic and Structured by Plant Identity, Plant Tissue and Environmental Factors

Pseudodidymella fagi in Slovenia: First Report and Expansion of Host Range

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