Collection

Plant Microbiomes

Submission status: Open
Submission deadline: 09 August 2024

Plants live with a diversity of microorganisms throughout their lifespan. Plants recruit and shape microbiome structures through topological and chemical strategies. Meanwhile, plant growth and resilience are heavily impacted by associated microbiomes. Studies of plant microbiomes not only shed light on principles underlying the assembly and dynamics of plant-associated microbiomes but also provide strategic insights into microbiome engineering to boost plant health and sustainable agriculture. The editors of Nature Communications, Communications Biology and Scientific Reports invite submissions on plant microbiomes.

To submit, see the participating journals

Articles

Microbiome convergence enables siderophore-secreting-rhizobacteria to improve iron nutrition and yield of peanut intercropped with maize

Intercropping has the potential to improve plant nutrition and crop yield. Here, the authors intercrop peanut and maize and show that Pseudomonas secreted siderophore pyoverdine play an important role in plant iron nutrition.
- Nanqi Wang
- Tianqi Wang
- Yuanmei Zuo
ArticleOpen Access29 Jan 2024 Nature Communications
Microbiome homeostasis on rice leaves is regulated by a precursor molecule of lignin biosynthesis

The underlying mechanisms of host-driven assembly of phyllosphere microbiota remain largely unknown. Here, 4-hydroxycinnamic acid synthesized by the rice plant’s PAL02 in the phenylpropanoid biosynthesis pathway is shown to be the main driver for enrichment of Pseudomonadales bacteria.
- Pin Su
- Houxiang Kang
- Yong Liu
ArticleOpen Access2 Jan 2024 Nature Communications
Genome-resolved metatranscriptomics reveals conserved root colonization determinants in a synthetic microbiota

The identification of processes activated by specific microbes during microbiota colonization of plant roots is hampered by technical issues in metatranscriptomics. Here, Vannier et al. colonized germ-free plants with a defined root microbiota comprising over 100 microbial isolates, and addressed those issues in various ways to identify strain-specific processes as well as common gene sets activated by microbes during root colonization.
- Nathan Vannier
- Fantin Mesny
- Stéphane Hacquard
ArticleOpen Access13 Dec 2023 Nature Communications
Identifying microbiota community patterns important for plant protection using synthetic communities and machine learning

The authors investigate microbiota properties for plant protection using synthetic communities and machine learning approaches. They identify strains that reduce pathogen colonization despite variation in microbiota composition.
- Barbara Emmenegger
- Julien Massoni
- Julia A. Vorholt
ArticleOpen Access2 Dec 2023 Nature Communications
Characterization of phyllosphere endophytic lactic acid bacteria reveals a potential novel route to enhance silage fermentation quality

The study reveals the diversity, specificity and functionality of phyllosphere endophytes in alfalfa silage fermentation and finds a unique microbe resource in phyllosphere endophytes which tends to enrich genes related to carbohydrate utilization.
- Hongzhang Zhou
- Shangang Jia
- Kuikui Ni
ArticleOpen Access22 Jan 2024 Communications Biology
Anti-fungal bioactive terpenoids in the bioenergy crop switchgrass (Panicum virgatum) may contribute to ecotype-specific microbiome composition

Ecotype-specific steroidal saponins and diterpenoids from Panicum virgatum (switchgrass) influence growth inhibition of fungal species previously associated with the rhizosphere of cultivars of this plant.
- Xingxing Li
- Ming-Yi Chou
- Robert L. Last
ArticleOpen Access7 Sep 2023 Communications Biology
Longitudinal transmission of bacterial and fungal communities from seed to seed in rice

Ecological mechanisms governing inheritance of bacterial and fungal communities from seed to seed in rice are revealed. The inherited microbes dominate each community at the ripening stage, and parental seeds and stem endosphere are major sources.
- Hyun Kim
- Jongbum Jeon
- Yong-Hwan Lee
ArticleOpen Access1 Aug 2022 Communications Biology
Paraburkholderia phytofirmans PsJN colonization of rice endosphere triggers an atypical transcriptomic response compared to rice native Burkholderia s.l. endophytes
- Eoghan King
- Adrian Wallner
- Pierre Czernic
ArticleOpen Access3 Jul 2023 Scientific Reports
Interspecies and temporal dynamics of bacterial and fungal microbiomes of pistil stigmas in flowers in holoparasitic plants of the Orobanche series Alsaticae (Orobanchaceae)
- Karolina Ruraż
- Sebastian Wojciech Przemieniecki
- Renata Piwowarczyk
ArticleOpen Access25 Apr 2023 Scientific Reports
Constellation of the endophytic mycobiome in spring and winter wheat cultivars grown under various conditions
- Sylwia Salamon
- Katarzyna Mikołajczak
- Lidia Błaszczyk
ArticleOpen Access13 Apr 2023 Scientific Reports

Plant Microbiomes

Articles

Microbiome convergence enables siderophore-secreting-rhizobacteria to improve iron nutrition and yield of peanut intercropped with maize

Microbiome homeostasis on rice leaves is regulated by a precursor molecule of lignin biosynthesis

Genome-resolved metatranscriptomics reveals conserved root colonization determinants in a synthetic microbiota

Identifying microbiota community patterns important for plant protection using synthetic communities and machine learning

Characterization of phyllosphere endophytic lactic acid bacteria reveals a potential novel route to enhance silage fermentation quality

Anti-fungal bioactive terpenoids in the bioenergy crop switchgrass (Panicum virgatum) may contribute to ecotype-specific microbiome composition

Longitudinal transmission of bacterial and fungal communities from seed to seed in rice

Paraburkholderia phytofirmans PsJN colonization of rice endosphere triggers an atypical transcriptomic response compared to rice native Burkholderia s.l. endophytes

Interspecies and temporal dynamics of bacterial and fungal microbiomes of pistil stigmas in flowers in holoparasitic plants of the Orobanche series Alsaticae (Orobanchaceae)

Constellation of the endophytic mycobiome in spring and winter wheat cultivars grown under various conditions

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