Sphingobacterium zeae sp. nov., an endophyte of maize

Kämpfer, Peter; Busse, Hans‐Jürgen; Kleinhagauer, Tanita; McInroy, John A.; Glaeser, Stefanie P.

doi:10.1099/ijsem.0.001100

Cited by 18 publications

(6 citation statements)

References 35 publications

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“…Different taxon profiles between generalist edges and specialist edges linking generalist vertices suggest that generalist taxa could display different co-occurrence patterns along different environments. We found that the most abundant generalist edges were all linked with Sphingobacterium, which are ubiquitous in soil [26], water [27], and animal [28] or plant-associating microbiomes [29]. However, ubiquitous existence cannot guarantee formation of generalist edges since substantial specialist edges linked generalist vertex pairs.…”

Section: Discussionmentioning

confidence: 88%

Earth microbial co-occurrence network reveals interconnection pattern across microbiomes

et al. 2020

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Background: Microbial interactions shape the structure and function of microbial communities; microbial co-occurrence networks in specific environments have been widely developed to explore these complex systems, but their interconnection pattern across microbiomes in various environments at the global scale remains unexplored. Here, we have inferred an Earth microbial co-occurrence network from a communal catalog with 23,595 samples and 12,646 exact sequence variants from 14 environments in the Earth Microbiome Project dataset. Results: This non-random scale-free Earth microbial co-occurrence network consisted of 8 taxonomy distinct modules linked with different environments, which featured environment specific microbial co-occurrence relationships. Different topological features of subnetworks inferred from datasets trimmed into uniform size indicate distinct co-occurrence patterns in the microbiomes of various environments. The high number of specialist edges highlights that environmental specific co-occurrence relationships are essential features across microbiomes. The microbiomes of various environments were clustered into two groups, which were mainly bridged by the microbiomes of plant and animal surface. Acidobacteria Gp2 and Nisaea were identified as hubs in most of subnetworks. Negative edges proportions ranged from 1.9% in the soil subnetwork to 48.9% the non-saline surface subnetwork, suggesting various environments experience distinct intensities of competition or niche differentiation. Conclusion: This investigation highlights the interconnection patterns across microbiomes in various environments and emphasizes the importance of understanding co-occurrence feature of microbiomes from a network perspective.

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Section: Discussionmentioning

confidence: 88%

Earth microbial co-occurrence network reveals interconnection pattern across microbiomes

et al. 2020

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“…Of these, Microbacteriaceae, Comamonadaceae and Flavobacteriaceae have been found to be abundant in barley root (Bulgarelli et al 2015). Sphingobacteriaceae are known to be endophytes of maize (Kämpfer et al 2016). Microbacteriaceae and Oxalobacteriaceae are reduced under submergence, whereas there were more Bacillaceae (Fig.…”

Section: Sensitive and Tolerant Barley Accessions Show Specific Bacte...mentioning

confidence: 99%

Seed bacterial microbiota in post-submergence tolerant and sensitive barley genotypes

Gómez-Álvarez,

Salardi-Jost,

Ahumada

et al. 2024

Funct. Plant Biol.

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Flooding is a predominant abiotic stress for cultivated plants, including barley. This cereal crop shows a large adaptability to different environmental conditions, suggesting the presence of key traits to tolerate adverse conditions. During germination, genetic variations account for dissimilarities in flooding tolerance. However, differences in the seed microbiota may also contribute to tolerance/sensitivity during seedling establishment. This work investigated differences in microbiome among the grains of barley accessions. Two barley phenotypes were compared, each either tolerant or sensitive to a short submergence period followed by a recovery. The study used a metataxonomic analysis based on 16S ribosomal RNA gene sequencing and subsequent functional prediction. Our results support the hypothesis that bacterial microbiota inhabiting the barley seeds are different between sensitive and tolerant barley accessions, which harbour specific bacterial phyla and families. Finally, bacteria detected in tolerant barley accessions show a peculiar functional enrichment that suggests a possible connection with successful germination and seedling establishment.

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“…The genera Chitinophaga, Chryseobacterium, and Sphingobacterium are common in several environments or in symbiosis with several groups of organisms; however, Chryseobacterium is also a pathogen associated with several diseases, being commonly found in anura skin related to infections in the group [68]. On the other hand, Chitinophaga and Sphingobacterium are commonly found in environmental samples of soil and water, also related to fungi and plants endosymbionts [69][70][71][72][73]. Loudon et al [54] showed that a Chitinophaga arvensicola isolate, together with a Bacillus sp., had a higher inhibitory effect against Bd compared to the Bacillus sp.…”

Section: A Distinctive Frog Foam Nest Communitymentioning

confidence: 99%

Neotropical Frog Foam Nest’s Microbiomes

et al. 2023

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Amphibian foam nests are unique microenvironments that play a crucial role in the development of tadpoles. They contain high levels of proteins and carbohydrates, yet little is known about the impact of their microbiomes on tadpole health. This study provides a first characterization of the microbiome of foam nests from three species of Leptodactylids (Adenomera hylaedactyla, Leptodactylus vastus, and Physalaemus cuvieri) by investigating the DNA extracted from foam nests, adult tissues, soil, and water samples, analyzed via 16S rRNA gene amplicon sequencing to gain insight into the factors driving its composition. The results showed that the dominant phyla were proteobacteria, bacteroidetes, and firmicutes, with the most abundant genera being Pseudomonas, Sphingobacterium, and Paenibacillus. The foam nest microbiomes of A. hylaedactyla and P. cuvieri were more similar to each other than to that of L. vastus, despite their phylogenetic distance. The foam nests demonstrated a distinct microbiome that clustered together and separated from the microbiomes of the environment and adult tissue samples. This suggests that the peculiar foam nest composition shapes its microbiome, rather than vertical or horizontal transference forces. We expanded this knowledge into amphibian foam nest microbiomes, highlighting the importance of preserving healthy foam nests for amphibian conservation.

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Sphingobacterium zeae sp. nov., an endophyte of maize

Cited by 18 publications

References 35 publications

Earth microbial co-occurrence network reveals interconnection pattern across microbiomes

Earth microbial co-occurrence network reveals interconnection pattern across microbiomes

Seed bacterial microbiota in post-submergence tolerant and sensitive barley genotypes

Neotropical Frog Foam Nest’s Microbiomes

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