Assessing alpha and beta diversities of benthic macroinvertebrates and their environmental drivers between watersheds with different levels of habitat transformation in Japan

2019 ◽  
Vol 70 (4) ◽  
pp. 504 ◽  
Author(s):  
Chia-Ying Ko ◽  
Tomoya Iwata ◽  
Jun-Yi Lee ◽  
Aya Murakami ◽  
Junichi Okano ◽  
...  
Keyword(s):  
Chlorophyll A ◽  
Benthic Macroinvertebrates ◽  
Environmental Variables ◽  
Species Turnover ◽  
Alpha Diversity ◽  
Freshwater Ecosystems ◽  
Environmental Drivers ◽  
Habitat Transformation ◽  
Β Diversity ◽  
Different Levels

Little is known about differences in species diversity among ecological communities subject to different levels of human-caused habitat transformation and how this disturbance contributes to diversity through symbiotic dependencies with the environment in freshwater ecosystems. We estimated α and β diversities of benthic macroinvertebrates and relationships between diversity and environmental variables in Ado River (natural) and Yasu River (intermediately disturbed) watersheds, Japan. Alpha diversity was consistently slightly higher in the natural river watershed than in the intermediately disturbed one, but the spatial distribution was not equivalent. The opposite pattern was found for β diversity. Significant differences in environmental variables existed between the two river watersheds, with especially high chlorophyll-a concentrations detected in the intermediately disturbed watershed. Alpha diversity was not correlated with specific environmental variables, whereas water temperature and chlorophyll-a concentrations were the two most significant environmental variables influencing β diversity across sites in the two watersheds. These results suggest that diversity patterns in freshwater benthic macroinvertebrates are differentially influenced by levels of human-caused habitat transformation, especially that intermediately disturbed habitats may benefit species turnover, and further understanding how they relate to environmental variables is essential for protecting local to regional diversity and can provide useful information for conservation planning to maximise biodiversity at the watershed scale.

scholarly journals α- and β-Diversity Patterns of Macrophytes and Freshwater Fishes are Driven by Different Factors and Processes in Lakes of the Unexplored Southern Balkan Biodiversity Hotspot

Water ◽  
2020 ◽  
Vol 12 (7) ◽  
pp. 1984
Author(s):  
Anthi Oikonomou ◽  
Konstantinos Stefanidis
Keyword(s):  
Species Richness ◽  
Species Turnover ◽  
Biodiversity Hotspot ◽  
Environmental Drivers ◽  
Conservation Strategies ◽  
Compositional Variation ◽  
Related Factors ◽  
Diversity Patterns ◽  
Β Diversity ◽  
Α Diversity

Disentangling the main drivers of species richness and community composition is a central theme in ecology. Freshwater biodiversity patterns have been poorly explored; yet, it has been shown that different freshwater biota have different, often contrasting responses to environmental gradients. In this study, we investigated the relative contribution of geographical and environmental (habitat-, climate- and water quality-related) factors/gradients in shaping the α- and β-diversity patterns of macrophytes and fish in sixteen natural freshwater lakes of an unexplored Balkan biodiversity hotspot, the Southern Balkan Peninsula. We employed generalized linear modeling to identify drivers of α-diversity, and generalized dissimilarity modeling to explore commonalities and dissimilarities of among-biota β-diversity. Species richness of both biota was significantly associated with lake surface area, whereas macrophytes had an inverse response to altitude, compared to fish. Both species turnover and nestedness significantly contributed to the total β-diversity of macrophytes. In contrast, species turnover was the most significant contributor to the total fish β-diversity. We found that the compositional variation of macrophytes is primarily limited by dispersal and ultimately shaped by environmental drivers, resulting in spatially structured assemblages. Fish communities were primarily shaped by altitude, highlighting the role of species sorting. We conclude that among-biota diversity patterns are shaped by different/contrasting factors, and, thus, effective/sustainable conservation strategies should encompass multiple aquatic biota.

scholarly journals Trans-Atlantic Distribution and Introgression as Inferred from Single Nucleotide Polymorphism: Mussels Mytilus and Environmental Factors

Genes ◽  
2020 ◽  
Vol 11 (5) ◽  
pp. 530 ◽  
Author(s):  
Roman Wenne ◽  
Małgorzata Zbawicka ◽  
Lis Bach ◽  
Petr Strelkov ◽  
Mikhail Gantsevich ◽  
...  
Keyword(s):  
Environmental Factors ◽  
Genetic Variability ◽  
Chlorophyll A ◽  
Environmental Conditions ◽  
Environmental Variables ◽  
Ice Cover ◽  
Allele Frequencies ◽  
Environmental Drivers ◽  
Single Nucleotide ◽  
Mixed Populations

Large-scale climate changes influence the geographic distribution of biodiversity. Many taxa have been reported to extend or reduce their geographic range, move poleward or displace other species. However, for closely related species that can hybridize in the natural environment, displacement is not the only effect of changes of environmental variables. Another option is subtler, hidden expansion, which can be found using genetic methods only. The marine blue mussels Mytilus are known to change their geographic distribution despite being sessile animals. In addition to natural dissemination at larval phase—enhanced by intentional or accidental introductions and rafting—they can spread through hybridization and introgression with local congeners, which can create mixed populations sustaining in environmental conditions that are marginal for pure taxa. The Mytilus species have a wide distribution in coastal regions of the Northern and Southern Hemisphere. In this study, we investigated the inter-regional genetic differentiation of the Mytilus species complex at 53 locations in the North Atlantic and adjacent Arctic waters and linked this genetic variability to key local environmental drivers. Of seventy-nine candidate single nucleotide polymorphisms (SNPs), all samples were successfully genotyped with a subset of 54 SNPs. There was a clear interregional separation of Mytilus species. However, all three Mytilus species hybridized in the contact area and created hybrid zones with mixed populations. Boosted regression trees (BRT) models showed that inter-regional variability was important in many allele models but did not prevail over variability in local environmental factors. Local environmental variables described over 40% of variability in about 30% of the allele frequencies of Mytilus spp. For the 30% of alleles, variability in their frequencies was only weakly coupled with local environmental conditions. For most studied alleles the linkages between environmental drivers and the genetic variability of Mytilus spp. were random in respect to “coding” and “non-coding” regions. An analysis of the subset of data involving functional genes only showed that two SNPs at Hsp70 and ATPase genes correlated with environmental variables. Total predictive ability of the highest performing models (r2 between 0.550 and 0.801) were for alleles that discriminated most effectively M. trossulus from M. edulis and M. galloprovincialis, whereas the best performing allele model (BM101A) did the best at discriminating M. galloprovincialis from M. edulis and M. trossulus. Among the local environmental variables, salinity, water temperature, ice cover and chlorophyll a concentration were by far the greatest predictors, but their predictive performance varied among different allele models. In most cases changes in the allele frequencies along these environmental gradients were abrupt and occurred at a very narrow range of environmental variables. In general, regions of change in allele frequencies for M. trossulus occurred at 8–11 psu, 0–10 °C, 60%–70% of ice cover and 0–2 mg m−3 of chlorophyll a, M. edulis at 8–11 and 30–35 psu, 10–14 °C and 60%–70% of ice cover and for M. galloprovincialis at 30–35 psu, 14–20 °C.

scholarly journals Environmental drivers of the benthic macroinvertebrates community in a hypersaline estuary (Northeastern Brazil)

2016 ◽  
Vol 28 (0) ◽  
Author(s):  
Carlinda Railly Ferreira Medeiros ◽  
Annyelle Kelly da Silva Costa ◽  
Caroline Stefani da Silva Lima ◽  
Jacicleide Macedo Oliveira ◽  
Marcos Medeiros Cavalcanti Júnior ◽  
...  
Keyword(s):  
Dissolved Oxygen ◽  
Benthic Macroinvertebrates ◽  
Environmental Variables ◽  
River Estuary ◽  
Macroinvertebrate Community ◽  
Northeastern Brazil ◽  
Environmental Drivers ◽  
Benthic Macroinvertebrate ◽  
Individual Species ◽  
Structural Aspects

Abstract Introduction The estuarine community of benthic macroinvertebrates spatially varies in response to changes in environmental variables in these ecosystems. Understanding this variability helps our understanding the mechanisms structuring these communities. Aim Assess the structural aspects of the benthic macroinvertebrate community in a hypersaline estuary, and to relate to environmental variables that influence the community structure along the estuary. Methods The study was conducted at Tubarão river estuary in May 2015. We sampled two estuarine areas (upper and lower), and in each zone were sampled six points composed of two replicas, one sampled in sandy bottom and the other in muddy bottom. Samples of benthic macroinvertebrates and estuarine environmental variables were collected. Environmental drivers of the benthic macroinvertebrate community were determined by Distance-based Linear Models analysis. The contribution of individual species to the dissimilarity between the areas and substrate types were determined by analysis of the percentage of similarity. Results The composition of benthic macroinvertebrate community differed between the upper and lower areas, although it was similar between the muddy and sandy bottoms. The variation in the benthic community between areas was mainly related to the influence of salinity in the upper area. In the lower area, the variation of the macroinvertebrates was related to salinity, associated with other variables in the sandy (temperature, turbidity and dissolved oxygen) and muddy (temperature, total dissolved solids and dissolved oxygen) substrates. Taxa which contributed most to the dissimilarity between the upper and lower areas were Nereididae (17.89%), Anomalocardia brasiliana (15%) and Cirratulidae (10.43%). Conclusions Salinity was the main driver of the structural aspects of the benthic macroinvertebrate community in the upper area of the estuary, although in the lower area a set of variables have structured benthic macroinvertebrates in the hypersaline estuary studied. In addition, the largest mangrove cover and less influence of the tide, may have favored the greater abundance of macroinvertebrates in the upper area.

scholarly journals Effect of hay type on cecal and fecal microbiome and fermentation parameters in horses

2020 ◽  
Author(s):  
Rachel J Sorensen ◽  
James S Drouillard ◽  
Teresa L Douthit ◽  
Qinghong Ran ◽  
Douglas G Marthaler ◽  
...  
Keyword(s):  
Fixed Effects ◽  
Volatile Fatty Acids ◽  
Random Effect ◽  
Alpha Diversity ◽  
Sampling Location ◽  
Rrna Gene ◽  
Illumina Hiseq ◽  
Fecal Microbiome ◽  
Β Diversity ◽  
Fermentation Parameters

Abstract The effect of hay type on the microbiome of the equine gastrointestinal tract is relatively unexplored. Our objective was to characterize the cecal and fecal microbiome of mature horses consuming alfalfa or Smooth Bromegrass (brome) hay. Six cecally cannulated horses were used in a split plot design run as a crossover in 2 periods. Whole plot treatment was ad libitum access to brome or alfalfa hay fed over two 21-d acclimation periods with subplots of sampling location (cecum and rectum) and sampling hour. Each acclimation period was followed by a 24-h collection period where cecal and fecal samples were collected every 3 h for analysis of pH and volatile fatty acids (VFA). Fecal and cecal samples were pooled and sent to a commercial lab (MR DNA, Shallowater, TX) for amplification of the V4 region of the 16S rRNA gene and sequenced using Illumina HiSeq. Main effects of hay on VFA, pH, and taxonomic abundances were analyzed using the MIXED procedure of SAS 9.4 with fixed effects of hay, hour, location, period, all possible interactions and random effect of horse. Alpha and β diversity were analyzed using the R Dame package. Horses fed alfalfa had greater fecal than cecal pH (P ≤ 0.05) whereas horses fed brome had greater cecal than fecal pH (P ≤ 0.05). Regardless of hay type, total volatile fatty acid (VFA) concentrations were greater (P ≤ 0.05) in the cecum than in feces, and alfalfa resulted in greater (P ≤ 0.05) VFA concentrations than brome in both sampling locations. Alpha diversity was greater (P ≤ 0.05) in fecal compared to cecal samples. Microbial community structure within each sampling location and hay type differed from one another (P ≤ 0.05). Bacteroidetes were greater (P ≤ 0.05) in the cecum compared to the rectum, regardless of hay type. Firmicutes and Firmicutes:Bacteroidetes were greater (P ≤ 0.05) in the feces compared to cecal samples of alfalfa-fed horses. In all, fermentation parameters and bacterial abundances were impacted by hay type and sampling location in the hindgut.

Diversity metrics, species turnovers and nestedness of bird assemblages in a deep karst sinkhole

2017 ◽  
Vol 63 (2) ◽  
pp. 8-16 ◽  
Author(s):  
Corrado Battisti ◽  
Marco Giardini ◽  
Francesca Marini ◽  
Lorena Di Rocco ◽  
Giuseppe Dodaro ◽  
...  
Keyword(s):  
Species Richness ◽  
Random Distribution ◽  
Diversity Index ◽  
Species Turnover ◽  
Floristic Composition ◽  
Bird Assemblages ◽  
Β Diversity ◽  
Stick Model ◽  
Karst Sinkhole

We reported a study on breeding birds occurring inside an 80 m-deep karst sinkhole, with the characterization of the assemblages recorded along its semi-vertical slopes from the upper edge until the bottom. The internal sides of the sinkhole have been vertically subdivided in four belts about 20 m high. The highest belt (at the upper edge of the cenote) showed the highest values in mean number of bird detections, mean and normalized species richness, and Shannon diversity index. The averaged values of number of detections and species richness significantly differ among belts. Species turnover (Cody’s β-diversity) was maximum between the highest belts. Whittaker plots showed a marked difference among assemblages shaping from broken-stick model to geometric series, and explicited a spatial progressive stress with a disruption in evenness towards the deepest belts. Bird assemblages evidenced a nested subset structure with deeper belts containing successive subsets of the species occurring in the upper belts. We hypothesize that, at least during the daytime in breeding season, the observed non-random distribution of species along the vertical stratification is likely due to (i) the progressive simplification both of the floristic composition and vegetation structure, and (ii) the paucity of sunlight as resources from the upper edge to the inner side of the cenote.

scholarly journals Sputum Microbiome Composition in Patients With Squamous Cell Lung Carcinoma

2021 ◽  
Author(s):  
E. D. Baranova ◽  
V. G. Druzhinin ◽  
L. V. Matskova ◽  
P. S. Demenkov ◽  
V. P . Volobaev ◽  
...  
Keyword(s):  
Squamous Cell ◽  
Inflammatory Responses ◽  
Alpha Diversity ◽  
Taxonomic Composition ◽  
16S Rrna Genes ◽  
Rrna Genes ◽  
Cell Lung Carcinoma ◽  
Microbiome Composition ◽  
Β Diversity ◽  
Genome Damage

Abstract Recent findings indicate that the microbiome can have a significant impact on the development of lung cancer by inducing inflammatory responses, causing dysbiosis and generating genome damage. The aim of this study was to search for bacterial markers of squamous cell carcinoma (LUSC). In the study, the taxonomic composition of the sputum microbiome of 40 men with untreated LUSC was compared with 40 healthy controls. Next Generation sequencing of bacterial 16S rRNA genes was used to determine the taxonomic composition of the respiratory microbiome. There was no differences in alpha diversity between the LUSC and control groups. Meanwhile, differences in the structure of bacterial communities (β diversity) among patients and controls differed significantly in sputum samples (pseudo-F = 1.65; p = 0.026). Only Streptococcus, Bacillus, Gemella and Haemophilus were found to be significantly increased in patients with LUSC compared to the control subjects, while 19 bacterial genera were significantly reduced, indicating a decrease in beta diversity in the microbiome of patients with LUSC. From our study, Streptococcus (Streptococcus agalactiae) emerges as the most likely LUSC biomarker, but more research is needed to confirm this assumption.

scholarly journals Community Structure of Benthic Algae in a Lotic Ecosystem, Karbala Province-Iraq

2017 ◽  
Vol 14 (4) ◽  
pp. 692-706 ◽  
Author(s):  
Baghdad Science Journal
Keyword(s):  
Community Structure ◽  
Chlorophyll A ◽  
Total Nitrogen ◽  
Environmental Variables ◽  
Nitrogen Limitation ◽  
Benthic Algae ◽  
Concrete Lining ◽  
Qualitative And Quantitative ◽  
Quantitative Studies ◽  
Lotic Ecosystem

This study focused on benthic algae (epipelic and attached algae on concrete lining stream) in Bani-Hassan stream in Holly Karbala, Iraq. The qualitative and quantitative studies of benthic algae were done by collecting 240 samples from five sites in the study area for the period from December 2012 to November 2013. Also, the environmental variables of the stream were examined in term of temporary and spatial. The results showed that the stream was alkaline, hard, oligohaline and a well aerated. The total nitrogen to the total phosphorus (TN: TP) ratio indicates nitrogen limitation. 129 species of benthic algae belonging to 57 genera were identified. Bacillariophyceae (diatoms) was the predominant taxon (95 species) followed by Chlorophyceae (16 species), Cyanophyceae (14 species), Euglenophyceae (3 species) and Pyrophyceae (one species). Some genera were found throughout the study period: Nitzschia, Navicula, Cymbella, Gomphonema, Surirella, Cocconeis, Aulacoseira, Oscillatoria, Lyngbya, Spirulina, and ? Scenedesmus. Site 3 recorded the highest total number of algae in spring 2013, and the lowest total number was at site 5 in Autumn 2013. The chlorophyll-a concentration did not match the total number of algae.

Taxonomic Dependency of Beta Diversity for Bacteria, Archaea and Fungi in a Semi-Arid Lake

2021 ◽  
Author(s):  
Haijun Yuan ◽  
Weizhen Zhang ◽  
Huaqun Yin ◽  
Runyu Zhang ◽  
Jianjun Wang
Keyword(s):  
Water Depth ◽  
Beta Diversity ◽  
Species Turnover ◽  
Environmental Drivers ◽  
Ecological Processes ◽  
Environmental Selection ◽  
Community Variation ◽  
Taxonomic Groups ◽  
Semi Arid ◽  
Total Beta

Abstract Microbial beta diversity has been recently studied along the water depth in aquatic ecosystems, however its turnover and nestedness components remain elusive especially for multiple taxonomic groups. Based on the beta diversity partitioning developed by Baselga and Local Contributions to Beta Diversity (LCBD) partitioning by Legendre, we examined the water-depth variations in beta diversity components of bacteria, archaea and fungi in surface sediments of Hulun Lake, a semi-arid lake in northern China, and further explored the relative importance of environmental drivers underlying their patterns. We found that the relative abundances of Proteobacteria, Chloroflexi, Euryarchaeota and Rozellomycota increased towards deep water, while Acidobacteria, Parvarchaeota and Chytridiomycota decreased. For bacteria and archaea, there were significant (P < 0.05) decreasing water-depth patterns for LCBD and LCBDRepl (i.e., species replacement), while increasing patterns for total beta diversity and turnover, implying that total beta diversity and LCBD were dominated by species turnover or LCBDRepl. Further, bacteria showed a strong correlation with archaea regarding LCBD, total beta diversity and turnover. Such parallel patterns among bacteria and archaea were underpinned by similar ecological processes like environmental selection. Total beta diversity and turnover were largely affected by sediment total nitrogen, while LCBD and LCBDRepl were mainly constrained by water NO2−-N and NO3−-N. For fungal community variation, no significant patterns were observed, which may be due to different drivers like water nitrogen or phosphorus. Taken together, our findings provide compelling evidences for disentangling the underlying mechanisms of community variation in multiple aquatic microbial taxonomic groups.

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