Microbial communities on eelgrass (Zostera marina) thriving in Tokyo Bay and the possible source of leaf-attached microbes

Iqbal, Md Mehedi; Nishimura, Masahiko; Haider, Md. Nurul; Yoshizawa, Susumu

doi:10.3389/fmicb.2022.1102013

Cited by 8 publications

(15 citation statements)

References 74 publications

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“…1 B). A water sample was collected in a sterile plastic bottle (1 L) using a gloved hand from the surface (0.1–0.5 m) layer, filtered with a 3.0-μm pore-size cellulose acetate membrane filter (ADVANTEC), and then filtered again with a 0.2-μm pore-size membrane filter (ADVANTEC) to collect PA and FL microbes, respectively ( Iqbal et al , 2023 ). All filters were immediately stored at –80°C until further analyses.…”

Section: Methodsmentioning

confidence: 99%

“…DNA was extracted in triplicate for inside samples and in duplicate for outside samples, except for FL inside samples ( n =2) collected from Ikuno-Shima Is. DNA extraction was performed using a DNeasy PowerSoil DNA extraction kit (Qiagen) according to the manufacturer’s instructions with slight modifications as described in a previous study ( Iqbal et al , 2023 ). Briefly, for DNA extraction from suspended particles, a 3.0-μm pore-size filter with trapped particles was cut into small pieces and placed directly into an extraction tube.…”

Section: Methodsmentioning

confidence: 99%

“…In eelgrass beds, the PA microbial community changes its niche from the particle surface to a solid surface ( e.g. , eelgrass leaves) through particle migration and attachment processes, while suspended particle microbes were also detected in a limited eelgrass area ( Iqbal et al , 2023 ). Therefore, further studies are needed on the particle formation process over a wide spatial range to obtain a more detailed understanding of the relationships between suspended particles and eelgrass-inhabiting microbes.…”

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confidence: 99%

“…As the first step to clarify the microbial consortia, we reported the microbial community structure in an eelgrass bed growing at Futtsu clam-digging beach, Tokyo Bay ( Iqbal et al , 2021 ). We recently described the role of marine particles during the eelgrass growing season ( Iqbal et al , 2023 ). However, these studies were conducted on limited spatial scales.…”

mentioning

confidence: 99%

“…Therefore, the present study investigated the formation process of suspended particles in eelgrass beds from 16S rRNA sequence data using various eelgrass samples collected from three eelgrass fields in Japan: Ikuno-Shima Is., Mutsu Bay, and Nanao Bay. This is important because suspended particles act as a means of transportation for microorganisms between seagrass leaves and the surrounding seawater ( Iqbal et al , 2023 ), and PA microbes play an important role in bio-element cycling ( Bachmann et al , 2018 ). By comprehensively characterizing the microbial dynamics of suspended particles, the present study provides important insights into the role of particles in eelgrass beds and represents the first step towards obtaining a more detailed understanding of the biogeochemical impact of PA microbes in the seagrass-based ecosystem.…”

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confidence: 99%

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Particle-attached Microbes in Eelgrass Vegetation Areas Differ in Community Structure Depending on the Distance from the Eelgrass Bed

Iqbal,

Nishimura,

Sano

et al. 2023

Microb. Environ.

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Zostera marina (eelgrass) is a submerged flowering plant often found in the coastal areas of Japan. Large amounts of suspended particles form in highly productive environments, such as eelgrass beds, and the behavior of these particles is expected to affect the surrounding microbial community. We investigated the microbial community structure of suspended particles in three eelgrass fields (Ikuno-Shima Is., Mutsu Bay, and Nanao Bay) and inferred the formation and dynamics of suspended particles from a microbial community structure analysis. Seawater samples were collected directly above each eelgrass bed (eelgrass-covering) and from locations dozens of meters away from the eelgrass bed (bare-ground). In consideration of the two different lifestyles of marine microbes, microbial communities were obtained from particle-attached (PA) and free-living (FL) states. Differences in microbial diversity and community structures were observed between PA and FL in all eelgrass beds. The FL microbial community was similar between the two sampling points (eelgrass-covering and bare-ground), whereas a significant difference was noted in the microbial community structure of suspended particles between the two sampling points. This difference appeared to be due to the supply of organic matter from the eelgrass sea ground and leaf-attached detritus produced by microbial activity. In addition, the classes Flavobacteriia , Alphaproteobacteria , and Gammaproteobacteria were abundant in the PA and FL fractions. Furthermore, many sequences of the key groups ( e.g. , Planctomycetes and Verrucomicrobia ) were exclusively detected in the PA fraction, in which they may circulate nutrients. The present results provide insights into the microbial communities of suspended particles and provide the first step towards understanding their biogeochemical impact on the eelgrass bed.

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Section: Methodsmentioning

confidence: 99%

Section: Methodsmentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

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confidence: 99%

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Particle-attached Microbes in Eelgrass Vegetation Areas Differ in Community Structure Depending on the Distance from the Eelgrass Bed

Iqbal,

Nishimura,

Sano

et al. 2023

Microb. Environ.

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Nitrogen Fixation and Microbial Communities Associated with Decomposing Seagrass Leaves in Temperate Coastal Waters

Papazachariou,

Fernández-Juárez,

Parfrey

et al. 2024

Microb Ecol

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Seagrass meadows play pivotal roles in coastal biochemical cycles, with nitrogen fixation being a well-established process associated with living seagrass. Here, we tested the hypothesis that nitrogen fixation is also associated with seagrass debris in Danish coastal waters. We conducted a 52-day in situ experiment to investigate nitrogen fixation (proxied by acetylene reduction) and dynamics of the microbial community (16S rRNA gene amplicon sequencing) and the nitrogen fixing community (nifH DNA/RNA amplicon sequencing) associated with decomposing Zostera marina leaves. The leaves harboured distinct microbial communities, including distinct nitrogen fixers, relative to the surrounding seawater and sediment throughout the experiment. Nitrogen fixation rates were measurable on most days, but highest on days 3 (dark, 334.8 nmol N g−1 dw h−1) and 15 (light, 194.6 nmol N g−1 dw h−1). Nitrogen fixation rates were not correlated with the concentration of inorganic nutrients in the surrounding seawater or with carbon:nitrogen ratios in the leaves. The composition of nitrogen fixers shifted from cyanobacterial Sphaerospermopsis to heterotrophic genera like Desulfopila over the decomposition period. On the days with highest fixation, nifH RNA gene transcripts were mainly accounted for by cyanobacteria, in particular by Sphaerospermopsis and an unknown taxon (order Nostocales), alongside Proteobacteria. Our study shows that seagrass debris in temperate coastal waters harbours substantial nitrogen fixation carried out by cyanobacteria and heterotrophic bacteria that are distinct relative to the surrounding seawater and sediments. This suggests that seagrass debris constitutes a selective environment where degradation is affected by the import of nitrogen via nitrogen fixation.

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Undisturbed Posidonia oceanica meadows maintain the epiphytic bacterial community in different environments

Rotini,

Conte,

Winters

et al. 2023

Environ Sci Pollut Res

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Seagrasses harbour different and rich epiphytic bacterial communities. These microbes may establish intimate and symbiotic relationships with the seagrass plants and change according to host species, environmental conditions, and/or ecophysiological status of their seagrass host. Although Posidonia oceanica is one of the most studied seagrasses in the world, and bacteria associated with seagrasses have been studied for over a decade, P. oceanica’s microbiome remains hitherto little explored. Here, we applied 16S rRNA amplicon sequencing to explore the microbiome associated with the leaves of P. oceanica growing in two geomorphologically different meadows (e.g. depth, substrate, and turbidity) within the Limassol Bay (Cyprus). The morphometric (leaf area, meadow density) and biochemical (pigments, total phenols) descriptors highlighted the healthy conditions of both meadows. The leaf-associated bacterial communities showed similar structure and composition in the two sites; core microbiota members were dominated by bacteria belonging to the Thalassospiraceae, Microtrichaceae, Enterobacteriaceae, Saprospiraceae, and Hyphomonadaceae families. This analogy, even under different geomorphological conditions, suggest that in the absence of disturbances, P. oceanica maintains characteristic-associated bacterial communities. This study provides a baseline for the knowledge of the P. oceanica microbiome and further supports its use as a putative seagrass descriptor.

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Microbial communities on eelgrass (Zostera marina) thriving in Tokyo Bay and the possible source of leaf-attached microbes

Cited by 8 publications

References 74 publications

Particle-attached Microbes in Eelgrass Vegetation Areas Differ in Community Structure Depending on the Distance from the Eelgrass Bed

Particle-attached Microbes in Eelgrass Vegetation Areas Differ in Community Structure Depending on the Distance from the Eelgrass Bed

Nitrogen Fixation and Microbial Communities Associated with Decomposing Seagrass Leaves in Temperate Coastal Waters

Undisturbed Posidonia oceanica meadows maintain the epiphytic bacterial community in different environments

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