Diazotrophic potential among bacterial communities associated with wild and cultivated<i>Agave</i>species

Desgarennes, Damaris; Garrido, Etzel; Torres-Gomez, Miryam J.; Peña‐Cabriales, Juan José; Partida‐Martínez, Laila P.

doi:10.1111/1574-6941.12438

Cited by 72 publications

(81 citation statements)

References 66 publications

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“…We verified the effectiveness of the surface sterilization protocol by two different methods (see Materials and Methods) indicating that the protocol used is sufficient for the surface sterilization of plant tissues. Another caveat of this work and other studies on plant-associated microbial communities (Desgarennes et al, 2014; Coleman-Derr et al, 2016) is the use of different DNA extraction kits depending on the sample type. This can be explained by the fact that the DNA kits are not equally suited for different starting materials and the respective contaminations.…”

Section: Resultsmentioning

confidence: 99%

The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment

et al. 2017

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Many bacteria and fungi in the plant rhizosphere and endosphere are beneficial to plant nutrient acquisition, health, and growth. Although playing essential roles in ecosystem functioning, our knowledge about the effects of multiple cropping regimes on the plant microbiome and their interactions is still limited. Here, we designed a pot experiment simulating different cropping regimes. For this purpose, wheat and faba bean plants were grown under controlled greenhouse conditions in monocultures and in two intercropping regimes: row and mixed intercropping. Bacterial and fungal communities in bulk and rhizosphere soils as well as in the roots and aerial plant parts were analyzed using large-scale metabarcoding. We detected differences in microbial richness and diversity between the cropping regimes. Generally, observed effects were attributed to differences between mixed and row intercropping or mixed intercropping and monoculture. Bacterial and fungal diversity were significantly higher in bulk soil samples of wheat and faba bean grown in mixed compared to row intercropping. Moreover, microbial communities varied between crop species and plant compartments resulting in different responses of these communities toward cropping regimes. Leaf endophytes were not affected by cropping regime but bacterial and fungal community structures in bulk and rhizosphere soil as well as fungal community structures in roots. We further recorded highly complex changes in microbial interactions. The number of negative inter-domain correlations between fungi and bacteria decreased in bulk and rhizosphere soil in intercropping regimes compared to monocultures due to beneficial effects. In addition, we observed plant species-dependent differences indicating that intra- and interspecific competition between plants had different effects on the plant species and thus on their associated microbial communities. To our knowledge, this is the first study investigating microbial communities in different plant compartments with respect to multiple cropping regimes using large-scale metabarcoding. Although a simple design simulating different cropping regimes was used, obtained results contribute to the understanding how cropping regimes affect bacterial and fungal communities and their interactions in different plant compartments. Nonetheless, we need field experiments to properly quantify observed effects in natural ecosystems.

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Section: Resultsmentioning

confidence: 99%

The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment

et al. 2017

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“…This study determined that prokaryotic communities associated with agaves were chiefly influenced by the sample type or plant compartment, where the rhizosphere, the phyllosphere and the root and leaf endosphere were clearly distinct from one another and also from the surrounding soils. These results were previously suggested for agaves (Desgarennes et al ., ), but by using next‐generation sequencing (NGS), these differences were made more clear even among epiphytic groups. Moreover, by including a Californian species, A. deserti , living > 2000 km apart from A. tequilana and A. salmiana , our data revealed the convergence of prokaryotic communities in Agave , regardless of cultivation status and biogeography.…”

Section: Discussionmentioning

confidence: 99%

“…Samples were prepared and total DNA was extracted as previously described (Desgarennes et al ., ). For amplification of the ITS2 and 16S regions, we used the ITS9F/ITS4R and 515F/816R primer pairs, respectively, and followed the PCR protocol described in the Supporting Information.…”

Section: Methodsmentioning

confidence: 97%

Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species

et al. 2015

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Summary Desert plants are hypothesized to survive the environmental stress inherent to these regions in part thanks to symbioses with microorganisms, and yet these microbial species, the communities they form, and the forces that influence them are poorly understood.Here we report the first comprehensive investigation of the microbial communities associated with species of Agave, which are native to semiarid and arid regions of Central and North America and are emerging as biofuel feedstocks. We examined prokaryotic and fungal communities in the rhizosphere, phyllosphere, leaf and root endosphere, as well as proximal and distal soil samples from cultivated and native agaves, through Illumina amplicon sequencing.Phylogenetic profiling revealed that the composition of prokaryotic communities was primarily determined by the plant compartment, whereas the composition of fungal communities was mainly influenced by the biogeography of the host species. Cultivated A. tequilana exhibited lower levels of prokaryotic diversity compared with native agaves, although no differences in microbial diversity were found in the endosphere.Agaves shared core prokaryotic and fungal taxa known to promote plant growth and confer tolerance to abiotic stress, which suggests common principles underpinning Agave–microbe interactions.

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“…robusta , and M . geometrizans (Desgarennes et al, ; Fonseca‐García et al, ) were used in this study (Table S1). These strains include core and representative members of the microbiome of agaves and cacti (Figure S1) from the phyla Actinobacteria (5 spp.…”

Section: Methodsmentioning

confidence: 99%

“…Recent research revealed the microbiome composition, diversity, and assembly rules of five plant species endemic to the drylands of Central and North America, namely, Agave tequilana , which is grown and used for tequila production, and native Agave deserti , Agave salmiana , Myrtillocactus geometrizans , and Opuntia robusta (Coleman‐Derr et al, ; Desgarennes, Garrido, Torres‐Gomez, Peña‐Cabriales, & Partida‐Martinez, ; Fonseca‐García et al, ). These species belong to two taxonomically unrelated but ecologically and economically important plant families: the Asparagaceae and the Cactaceae.…”

Section: Introductionmentioning

confidence: 99%

Smells from the desert: Microbial volatiles that affect plant growth and development of native and non‐native plant species

Camarena‐Pozos¹,

Flores‐Núñez²,

López³

et al. 2018

Plant Cell & Environment

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The plant microbiota can affect host fitness via the emission of microbial volatile organic compounds (mVOCs) that influence growth and development. However, evidence of these molecules and their effects in plants from arid ecosystems is limited. We screened the mVOCs produced by 40 core and representative members of the microbiome of agaves and cacti in their interaction with Arabidopsis thaliana and Nicotiana benthamiana. We used SPME‐GC‐MS to characterize the chemical diversity of mVOCs and tested the effects of selected compounds on growth and development of model and host plants. Our study revealed that approximately 90% of the bacterial strains promoted plant growth both in A. thaliana and N. benthamiana. Bacterial VOCs were mainly composed of esters, alcohols, and S‐containing compounds with 25% of them not previously characterized. Remarkably, ethyl isovalerate, isoamyl acetate, 3‐methyl‐1‐butanol, benzyl alcohol, 2‐phenylethyl alcohol, and 3‐(methylthio)‐1‐propanol, and some of their mixtures, displayed beneficial effects in A. thaliana and also improved growth and development of Agave tequilana and Agave salmiana in just 60 days. Volatiles produced by bacteria isolated from agaves and cacti are promising molecules for the sustainable production of crops in arid and semi‐arid regions.

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Diazotrophic potential among bacterial communities associated with wild and cultivatedAgavespecies

Cited by 72 publications

References 66 publications

The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment

The Effects of Cropping Regimes on Fungal and Bacterial Communities of Wheat and Faba Bean in a Greenhouse Pot Experiment Differ between Plant Species and Compartment

Plant compartment and biogeography affect microbiome composition in cultivated and native Agave species

Smells from the desert: Microbial volatiles that affect plant growth and development of native and non‐native plant species

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