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The above-ground parts of terrestrial plants are collectively known as the phyllosphere. The surface of the leaf blade is a unique and extensive habitat for microbial communities. Phyllosphere bacteria are the second most closely associated microbial group with plants after fungi and viruses, and are the most abundant, occupying a dominant position in the phyllosphere microbial community. Host species are a major factor influencing the community diversity and structure of phyllosphere microorganisms. In this study, six Populus spp. were selected for study under the same site conditions and their phyllosphere bacterial community DNA fragments were paired-end sequenced using 16S ribosomal RNA (rRNA) gene amplicon sequencing. Based on the distribution of the amplicon sequence variants (ASVs), we assessed the alpha-diversity level of each sample and further measured the differences in species abundance composition among the samples, and predicted the metabolic function of the community based on the gene sequencing results. The results revealed that different Populus spp. under the same stand conditions resulted in different phyllosphere bacterial communities. The bacterial community structure was mainly affected by the carbon and soluble sugar content of the leaves, and the leaf nitrogen, phosphorus and carbon/nitrogen were the main factors affecting the relative abundance of phyllosphere bacteria. Previous studies have shown that a large proportion of the variation in the composition of phyllosphere microbial communities was explained by the hosts themselves. In contrast, leaf-borne nutrients were an available resource for bacteria living on the leaf surface, thus influencing the community structure of phyllosphere bacteria. These were similar to the conclusions obtained in this study. This study provides theoretical support for the study of the composition and structure of phyllosphere bacterial communities in woody plants and the factors influencing them.

China has significant mineral resources, but prolonged extraction has caused considerable environmental degradation. Interactions among rhizosphere, phyllosphere, and soil microorganisms, along with host plants, are essential for supporting plant growth and increasing stress tolerance. This study employed high–throughput sequencing to assess microbial diversity and community structure related to four common tree species in the mountainous areas of Shanxi Province, with samples collected from three regions over two seasons and three locations. The dominant fungal and bacterial phyla identified were Ascomycota, Basidiomycota, Mortierellomycota, Pseudomonadota, Actinobacteriota, Gemmatimonadota, Acidobacteria, Myxococcota, and Firmicutes. Alpha–diversity analysis revealed that Taiyue Mountain exhibited the highest fungal diversity among the plots, while Liushenyu displayed the highest bacterial diversity. Alpha–diversity was greater in spring than in summer across the seasons. Significant differences in Alpha–diversity were observed among different tree species, with Betula platyphylla showing the lowest diversity. In comparison to phyllosphere microorganisms, rhizosphere and soil microorganisms exhibited higher diversity, richness, and evenness. Beta–diversity analysis indicated significant differences in fungal and bacterial community composition between spring and summer samples, as well as among samples from leaves, roots, and soil. The assessment of soil physicochemical properties and redundancy analysis demonstrated that soil moisture content and organic matter were key factors influencing the composition of fungal and bacterial communities. These findings provide valuable insights into the structural changes in plant microbial communities in mining areas and the restoration of damaged ecosystems.

The aboveground parts of terrestrial plants, collectively called the phyllosphere, have a key role in the global balance of atmospheric carbon dioxide and oxygen. The phyllosphere represents one of the most abundant habitats for microbiota colonization. Whether and how plants control phyllosphere microbiota to ensure plant health is not well understood. Here we show that the Arabidopsis quadruple mutant ( min7 fls2 efr cerk1 ; hereafter, mfec ) 1 , simultaneously defective in pattern-triggered immunity and the MIN7 vesicle-trafficking pathway, or a constitutively activated cell death1 ( cad1 ) mutant, carrying a S205F mutation in a membrane-attack-complex/perforin (MACPF)-domain protein, harbour altered endophytic phyllosphere microbiota and display leaf-tissue damage associated with dysbiosis. The Shannon diversity index and the relative abundance of Firmicutes were markedly reduced, whereas Proteobacteria were enriched in the mfec and cad1 S205F mutants, bearing cross-kingdom resemblance to some aspects of the dysbiosis that occurs in human inflammatory bowel disease. Bacterial community transplantation experiments demonstrated a causal role of a properly assembled leaf bacterial community in phyllosphere health. Pattern-triggered immune signalling, MIN7 and CAD1 are found in major land plant lineages and are probably key components of a genetic network through which terrestrial plants control the level and nurture the diversity of endophytic phyllosphere microbiota for survival and health in a microorganism-rich environment. Mutations in genes involved in immune signalling and vesicle trafficking cause defects in the leaf microbiome of Arabidopsis thaliana that result in damage to leaf tissues, suggesting mechanisms by which terrestrial plants control the level and diversity of endophytic phyllosphere microbiota.

Multicellular organisms, including plants, are colonized by microorganisms, some of which are beneficial to growth and health. The assembly rules for establishing plant microbiota are not well understood, and neither is the extent to which their members interact. We conducted drop-out and late introduction experiments by inoculating Arabidopsis thaliana with synthetic communities from a resource of 62 native bacterial strains to test how arrival order shapes community structure. As a read-out we tracked the relative abundance of all strains in the phyllosphere of individual plants. Our results showed that community assembly is historically contingent and subject to priority effects. Missing strains could, to various degrees, invade an already established microbiota, which was itself resistant and remained largely unaffected by latecomers. Additionally, our results indicate that individual strains of Proteobacteria ( Sphingomonas , Rhizobium ) and Actinobacteria ( Microbacterium , Rhodococcus ) have the greatest potential to affect community structure as keystone species. Conducting a series of removal experiments using synthetic leaf-inhabiting bacterial communities, the authors identify several keystone strains and show that priority effects drive phyllosphere community assembly.

The above- and below-ground parts of rice plants create specific habitats for various microorganisms. In this study, we characterized the phyllosphere and rhizosphere microbiota of rice cultivars using a metaproteogenomic approach to get insight into the physiology of the bacteria and archaea that live in association with rice. The metaproteomic datasets gave rise to a total of about 4600 identified proteins and indicated the presence of one-carbon conversion processes in the rhizosphere as well as in the phyllosphere. Proteins involved in methanogenesis and methanotrophy were found in the rhizosphere, whereas methanol-based methylotrophy linked to the genus Methylobacterium dominated within the protein repertoire of the phyllosphere microbiota. Further, physiological traits of differential importance in phyllosphere versus rhizosphere bacteria included transport processes and stress responses, which were more conspicuous in the phyllosphere samples. In contrast, dinitrogenase reductase was exclusively identified in the rhizosphere, despite the presence of nifH genes also in diverse phyllosphere bacteria.

As an important habitat for microorganisms, the phyllosphere has a great impact on plant growth and health, and changes in phyllosphere microorganisms are closely related to the occurrence of leaf diseases. However, there remains a limited understanding regarding alterations to the microbial community in the phyllosphere resulting from pathogen infections. Here, we analyzed and compared the differences in phyllosphere microorganisms of powdery mildew cucumber from three disease severity levels (0% < L1 < 30%, 30% ≤ L2 < 50%, L3 ≥ 50%, the number represents the lesion coverage rate of powdery mildew on leaves). There were significant differences in α diversity and community structure of phyllosphere communities under different disease levels. Disease severity altered the community structure of phyllosphere microorganisms, Rosenbergiella, Rickettsia, and Cladosporium accounted for the largest proportion in the L1 disease grade, while Bacillus, Pantoea, Kocuria, and Podosphaera had the highest relative abundance in the L3 disease grade. The co-occurrence network analysis of the phyllosphere microbial community indicated that the phyllosphere bacterial community was most affected by the severity of disease. Our results suggested that with the development of cucumber powdery mildew, the symbiotic relationship between species was broken, and the entire bacterial community tended to compete.

Phyllosphere harbors diverse microorganisms, which influence plant growth and health. In order to understand the extent to which environmental factors affect epiphytic microbial communities, we characterized microbial communities on leaves of three separate tree species present on the college campus, and also present within a forest park over two seasons. Quantitative PCR analysis showed the quantity of 16S rRNA genes was lower in May compared with October, while the abundances of functional genes (nifH and bacterial amoA genes) were extremely high in May. High-throughput sequencing revealed a large variation in the diversity and composition of bacterial and diazotrophic communities over the two seasons, and showed the abundance of functional genera, such as Nocardioides, Bacillus and Zoogloea were significantly elevated in May. In addition, xenobiotic biodegradation pathways of bacterial communities were clearly elevated in May. Network analysis showed the correlations between phyllospheric bacteria in May were more complex than that in October and showed greater negative correlations. These results were consistent in all tree species in this study. This study showed that phyllospheric bacteria varied greatly in different seasons, which implies that different growing seasons should be considered in the exploitation of the interactions between phyllospheric microorganisms and host plants.

Background and Aims Microorganisms play pivotal roles in plant growth and health. However, it remains unclear whether distinct mechanisms govern the assembly of prokaryotic and fungal communities across plant compartments and soils in grasslands. Method Microbial communities in plant compartments (phyllosphere, leaf endosphere, rhizosphere and root endosphere) and bulk soil of multiple plants from different grasslands were investigated through amplicon sequencing of the 16S rRNA gene and ITS fragment. Results The results showed that the rhizosphere harbored the most diverse fungal communities, while the alpha diversities of prokaryotic communities did not exhibit a significant difference between the rhizosphere and bulk soil. Moreover, prokaryotic communities across different compartments were subjected to strong selection effects. For instance, there was strong phylogenetic turnover of prokaryotic communities from bulk soil or phyllosphere (two sources of leaf endophyte) to the leaf endosphere. Conversely, fungal communities were affected by strong stochastic effects. Fungi in plant compartments (especially the phyllosphere) were more impacted by geographical characteristics and their interactions with plant genotypes than prokaryotes. Additionally, strong homogeneous selections on the prokaryotes between the phyllosphere and rhizosphere highlighted similar adaptative mechanisms of prokaryotes between the underground and aboveground plant surfaces. The differences between fungi and prokaryotes in plant compartments are closely linked to their functional traits related with fitness for plant niches. Conclusion In summary, distinct mechanisms shape prokaryotic and fungal communities in grassland plant compartments. This research provides significant insights into the community assembly mechanisms of prokaryotes and fungi in grassland plant compartments and ambient soil.

Plant-phyllosphere interactions depend on microbial diversity, the plant host and environmental factors. Light is perceived by plants and by microorganisms and is used as a cue for their interaction. Photoreceptors respond to narrow-bandwidth wavelengths and activate specific internal responses. Light-induced plant responses include changes in hormonal levels, production of secondary metabolites, and release of volatile compounds, which ultimately influence plant-phyllosphere interactions. On the other hand, microorganisms contribute making some essential elements (N, P, and Fe) biologically available for plants and producing growth regulators that promote plant growth and fitness. Therefore, light directly or indirectly influences plant-microbe interactions. The usage of light-emitting diodes in plant growth facilities is helping increasing knowledge in the field. This progress will help define light recipes to optimize outputs on plant-phyllosphere communications. This review describes research advancements on light-regulated plant-phyllosphere interactions. The effects of full light spectra and narrow bandwidth-wavelengths from UV to far-red light are discussed.

Environmental pollution, especially indoor air pollution, has become a global issue and affects nearly all domains of life. Being both natural and anthropogenic substances, indoor air pollutants lead to the deterioration of the ecosystem and have a negative impact on human health. Cost-effective plant-based approaches can help to improve indoor air quality (IAQ), regulate temperature, and protect humans from potential health risks. Thus, in this review, we have highlighted the common indoor air pollutants and their mitigation through plant-based approaches. Potted plants, green walls, and their combination with bio-filtration are such emerging approaches that can efficiently purify the indoor air. Moreover, we have discussed the pathways or mechanisms of phytoremediation, which involve the aerial parts of the plants (phyllosphere), growth media, and roots along with their associated microorganisms (rhizosphere). In conclusion, plants and their associated microbial communities can be key solutions for reducing indoor air pollution. However, there is a dire need to explore advanced omics technologies to get in-depth knowledge of the molecular mechanisms associated with plant-based reduction of indoor air pollutants.