scholarly journals Environmental drivers define contrasting microbial habitats, diversity, and community structure in Lake Baikal, Siberia

2019 ◽  
Author(s):  
Paul Wilburn ◽  
Kirill Shchapov ◽  
Edward C. Theriot ◽  
Elena Litchman
Keyword(s):  
Community Structure ◽  
Microbial Communities ◽  
Lake Baikal ◽  
Mixed Layer ◽  
Abiotic Factors ◽  
Geographic Distance ◽  
Small World ◽  
Environmental Drivers ◽  
Ecosystem Responses ◽  
Baikal Water

ABSTRACTUnderstanding how microbial communities respond to environmental change requires knowing the main drivers of their structure, diversity and potential resilience. Lake Baikal is the world’s most ancient, deep, voluminous, and biodiverse lake, holding 20 percent of unfrozen fresh water that is undergoing rapid warming. Despite its global importance, little is known about Baikal’s bacterioplankton communities and their drivers. In this extensive survey, we show that temperature, along with stratification, nutrients, and dissolved oxygen, but not geographic distance, define major microbial habitats and community similarity. Mixed layer and deep water communities exhibited contrasting patterns of richness, diversity and evenness, and comprised different cohesive modules in the whole Baikal OTU co-occurrence network. The network’s small-world properties indicated likely resistance to perturbations but sensitivity to abundance changes of central, most connected OTUs. Previous studies showed Baikal water temperature rising by over 1.2°C since 1946, and this trend is predicted to accelerate. Because temperature emerged as the most significant predictor of the mixed layer community structure, we hypothesize that it is most likely to drive future community changes. Understanding how temperature and other abiotic factors structure microbial communities in this and other rapidly changing ecosystems will allow better predictions of ecosystem responses to anthropogenic stressors.

scholarly journals Soil Microsite Outweighs Cultivar Genotype Contribution to Brassica Rhizobacterial Community Structure

2021 ◽  
Vol 12 ◽  
Author(s):  
Scott A. Klasek ◽  
Marcus T. Brock ◽  
Hilary G. Morrison ◽  
Cynthia Weinig ◽  
Loïs Maignien
Keyword(s):  
Community Structure ◽  
Bacterial Community ◽  
Microbial Communities ◽  
Spatial Scales ◽  
Abiotic Factors ◽  
Bacterial Community Composition ◽  
Soil Microbial Communities ◽  
Host Genotype ◽  
Rhizosphere Community ◽  
Scale Variation

Microorganisms residing on root surfaces play a central role in plant development and performance and may promote growth in agricultural settings. Studies have started to uncover the environmental parameters and host interactions governing their assembly. However, soil microbial communities are extremely diverse and heterogeneous, showing strong variations over short spatial scales. Here, we quantify the relative effect of meter-scale variation in soil bacterial community composition among adjacent field microsites, to better understand how microbial communities vary by host plant genotype as well as soil microsite heterogeneity. We used bacterial 16S rDNA amplicon sequencing to compare rhizosphere communities from four Brassica rapa cultivars grown in three contiguous field plots (blocks) and evaluated the relative contribution of resident soil communities and host genotypes in determining rhizosphere community structure. We characterize concomitant meter-scale variation in bacterial community structure among soils and rhizospheres and show that this block-scale variability surpasses the influence of host genotype in shaping rhizosphere communities. We identified biomarker amplicon sequence variants (ASVs) associated with bulk soil and rhizosphere habitats, each block, and three of four cultivars. Numbers and percent abundances of block-specific biomarkers in rhizosphere communities far surpassed those from bulk soils. These results highlight the importance of fine-scale variation in the pool of colonizing microorganisms during rhizosphere assembly and demonstrate that microsite variation may constitute a confounding effect while testing biotic and abiotic factors governing rhizosphere community structure.

scholarly journals Floral organs act as environmental filters and interact with pollinators to structure the yellow monkeyflower (Mimulus guttatus) floral microbiome

2019 ◽  
Author(s):  
María Rebolleda Gómez ◽  
Tia-Lynn Ashman
Keyword(s):  
Microbial Communities ◽  
Bacterial Communities ◽  
Abiotic Factors ◽  
Geographic Distance ◽  
Mimulus Guttatus ◽  
Environmental Filters ◽  
Floral Organs ◽  
Environmental Selection ◽  
Plant Pollinator

AbstractAssembly of microbial communities is the result of neutral and selective processes. However, the relative importance of these processes is still debated. Microbial communities of flowers, in particular, have gained recent attention because of their potential impact to plant fitness and plant-pollinator interactions. However, the role of selection and dispersal in the assembly of these communities remains poorly understood. We evaluated the role of pollinator-mediated dispersal on the contribution of neutral and selective processes in the assembly of floral microbiomes of the yellow monkeyflower (Mimulus guttatus). We sampled floral organs from flowers in the presence and absence of pollinators within five different serpentine seeps in CA and obtained 16S amplicon data on the epiphytic bacterial communities. Consistent with strong micro-environment selection within flowers we observed significant differences in community composition across floral organs and only a small effect of geographic distance. Pollinator exposure affected the contribution of environmental selection and depended on the rate and “intimacy” of interactions with flower visitors. This study provides evidence of the importance of dispersal and within-flower heterogeneity in shaping epiphytic bacterial communities of flowers, and highlights the complex interplay between pollinator behavior, environmental selection and additional abiotic factors in shaping the epiphytic bacterial communities of flowers.

scholarly journals Resolving environmental drivers of microbial community structure in Antarctic soils

2010 ◽  
Vol 22 (6) ◽  
pp. 673-680 ◽  
Author(s):  
Julie L. Smith ◽  
John E. Barrett ◽  
Gábor Tusnády ◽  
Lídia Rejtö ◽  
S. Craig Cary
Keyword(s):  
Soil Moisture ◽  
Community Structure ◽  
Bacterial Community ◽  
Bacterial Community Structure ◽  
Abiotic Factors ◽  
Environmental Drivers ◽  
Dry Valleys ◽  
Molecular Fingerprinting ◽  
Antarctic Soils ◽  
Taylor Valley

AbstractAntarctic soils are extremely cold, dry, and oligotrophic, yet harbour surprisingly high bacterial diversity. The severity of environmental conditions has constrained the development of multi-trophic communities, and species richness and distribution is thought to be driven primarily by abiotic factors. Sites in northern and southern Victoria Land were sampled for bacterial community structure and soil physicochemical properties in conjunction with the US and New Zealand Latitudinal Gradient Project. Bacterial community structure was determined using a high-resolution molecular fingerprinting method for 80 soil samples from Taylor Valley and Cape Hallett sites which are separated by five degrees of latitude and have distinct soil chemistry. Taylor Valley is part of the McMurdo Dry Valleys, while Cape Hallett is the site of a penguin rookery and contains ornithogenic soils. The influence of soil moisture, pH, conductivity, ammonia, nitrate, total nitrogen and organic carbon on community structure was revealed using Spearman rank correlation, Mantel test, and principal components analysis. High spatial variability was detected in bacterial communities and community structure was correlated with soil moisture and pH. Both unique and shared bacterial community members were detected at Taylor Valley and Cape Hallett despite the considerable distance between the sites.

Microbial communities associated with the ostracods Candona sp. inhabiting the area of the methane seep Goloustnoye (Lake Baikal)

Symbiosis ◽  
2021 ◽  
Author(s):  
I. A. Khalzov ◽  
S. V. Bukin ◽  
A. S. Zakharenko ◽  
S. M. Chernitsyna ◽  
Yu. P. Galachyants ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Lake Baikal ◽  
Methane Seep

Abundance and Community Structure of Picoplankton and Protists in the Microbial Food Web of Barguzin Bay, Lake Baikal

2005 ◽  
Vol 39 (3) ◽  
pp. 263-270 ◽  
Author(s):  
Hiroyuki Ueno ◽  
Toshiya Katano ◽  
Shin-Ichi Nakano ◽  
Osamu Mitamura ◽  
Kaori Anbutsu ◽  
...  
Keyword(s):  
Community Structure ◽  
Food Web ◽  
Lake Baikal ◽  
Microbial Food Web

Microbial Communities Associated with Bentic Invertebrates of Lake Baikal

2021 ◽  
Author(s):  
Svetlana M. Chernitsyna ◽  
Ivan A. Khalzov ◽  
Tatyana Ya. Sitnikova ◽  
Tatyana V. Naumova ◽  
Andrey V. Khabuev ◽  
...  
Keyword(s):  
Microbial Communities ◽  
Lake Baikal

Phylum-Specific Primer Design and Implication in Quantification of the Microbial Community Structure in GuJingGong Pit Mud

2014 ◽  
Vol 1051 ◽  
pp. 311-316 ◽  
Author(s):  
Xi Mei Luo ◽  
Zhi Lei Gao ◽  
Hui Min Zhang ◽  
An Jun Li ◽  
Hong Kui He ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Microbial Communities ◽  
Microbial Community Structure ◽  
Real Time Quantitative Pcr ◽  
Sequencing Technologies ◽  
Specific Pcr ◽  
Pit Mud ◽  
Almost All ◽  
Polymerase Chain Reaction Primers

In recent years, despite the significant improvement of sequencing technologies such as the pyrosequencing, rapid evaluation of microbial community structures remains very difficult because of the abundance and complexity of organisms in almost all natural microbial communities. In this paper, a group of phylum-specific primers were elaborately designed based on a single nucleotide discrimination technology to quantify the main microbial community structure from GuJingGong pit mud samples using the real-time quantitative PCR (qPCR). Specific PCR (polymerase chain reaction) primers targeting a particular group would provide promising sensitivity and more in-depth assessment of microbial communities.

Current chemical composition of Lake Baikal water

Inland Waters ◽  
2017 ◽  
Vol 7 (3) ◽  
pp. 250-258 ◽  
Author(s):  
Tamara V. Khodzher ◽  
Valentina M. Domysheva ◽  
Larisa M. Sorokovikova ◽  
Maria V. Sakirko ◽  
Irina V. Tomberg
Keyword(s):  
Chemical Composition ◽  
Lake Baikal ◽  
Baikal Water

scholarly journals Stingray Habitat Use Is Dynamically Influenced by Temperature and Tides

2022 ◽  
Vol 8 ◽  
Author(s):  
Chantel Elston ◽  
Paul D. Cowley ◽  
Rainer G. von Brandis ◽  
James Lea
Keyword(s):  
Habitat Use ◽  
Acoustic Telemetry ◽  
Monsoon Season ◽  
Abiotic Factors ◽  
Environmental Drivers ◽  
Shallow Waters ◽  
Shallow Marine ◽  
Tidal Cycles ◽  
Management Plans ◽  
Passive Acoustic

Abiotic factors often have a large influence on the habitat use of animals in shallow marine environments. Specifically, tides may alter the physical and biological characteristics of an ecosystem while changes in temperature can cause ectothermic species to behaviorally thermoregulate. Understanding the contextual and relative influences of these abiotic factors is important in prioritizing management plans, particularly for vulnerable faunal groups like stingrays. Passive acoustic telemetry was used to track the movements of 60 stingrays at a remote and environmentally heterogeneous atoll in Seychelles. This was to determine if habitat use varied over daily, diel and tidal cycles and to investigate the environmental drivers behind these potential temporal patterns. Individuals were detected in the atoll year-round, but the extent of their movement and use of multiple habitats increased in the warmer NW-monsoon season. Habitat use varied over the diel cycle, but was inconsistent between individuals. Temperature was also found to influence stingray movements, with individuals preferring the deeper and more thermally stable lagoon habitat when extreme (hot or cold) temperature events were observed on the flats. Habitat use also varied over the tidal cycle with stingrays spending a higher proportion of time in the lagoon during the lowest tides, when movement on the flats were constrained due to shallow waters. The interplay of tides and temperature, and how these varied across diel and daily scales, dynamically influenced stingray habitat use consistently between three species in an offshore atoll.

scholarly journals High-throughput amplicon sequencing reveals the spatiotemporal effects, abiotic and biotic shaping factors for the microbial communities in tropical mangrove sediments in Sanya, China

2020 ◽  
Author(s):  
Wu Qu ◽  
Boliang Gao ◽  
Jie Wu ◽  
Min Jin ◽  
Jianxin Wang ◽  
...  
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Microbial Communities ◽  
Fungal Community ◽  
Amplicon Sequencing ◽  
Biotic Factors ◽  
Community Structures ◽  
Mangrove Sediments ◽  
Element Cycling ◽  
Microbial Community Structures

Abstract Background Microbial roles in element cycling and nutrient providing are crucial for mangrove ecosystems and serve as important regulators for climate change in Earth ecosystem. However, some key information about the spatiotemporal influences and abiotic and biotic shaping factors for the microbial communities in mangrove sediments remains lacking. Methods In this work, 22 sediment samples were collected from multiple spatiotemporal dimensions, including three locations, two depths, and four seasons, and the bacterial, archaeal, and fungal community structures in these samples were studied using amplicon sequencing. Results The microbial community structures were varied in the samples from different depths and locations based on the results of LDA effect size analysis, principal coordinate analysis, the analysis of similarities, and permutational multivariate ANOVA. However, these microbial community structures were stable among the seasonal samples. Linear fitting models and Mantel test showed that among the 13 environmental factors measured in this study, the sediment particle size (PS) was the key abiotic shaping factor for the bacterial, archaeal, or fungal community structure. Besides PS, salinity and humidity were also significant impact factors according to the canonical correlation analysis (p ≤ 0.05). Co-occurrence networks demonstrated that the bacteria assigned into phyla Ignavibacteriae, Proteobacteria, Bacteroidetes, Chloroflexi, and Acidobacteria were the key biotic factors for shaping the bacterial community in mangrove sediments. Conclusions This work showed the variability on spatial dimensions and the stability on temporal dimension for the bacterial, archaeal, or fungal microbial community structure, indicating that the tropical mangrove sediments are versatile but stable environments. PS served as the key abiotic factor could indirectly participate in material circulation in mangroves by influencing microbial community structures, along with salinity and humidity. The bacteria as key biotic factors were found with the abilities of photosynthesis, polysaccharide degradation, or nitrogen fixation, which were potential indicators for monitoring mangrove health, as well as crucial participants in the storage of mangrove blue carbons and mitigation of climate warming. This study expanded the knowledge of mangroves for the spatiotemporal variation, distribution, and regulation of the microbial community structures, thus further elucidating the microbial roles in mangrove management and climate regulation.

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