scholarly journals Phenotypic diversity of Methylobacterium associated with rice landraces in Northeast India

2019 ◽  
Author(s):  
Pratibha Sanjenbam ◽  
Radhika Buddidathi ◽  
Radhika Venkatesan ◽  
P V Shivaprasad ◽  
Deepa Agashe
Keyword(s):  
Phenotypic Diversity ◽  
Spatial Scales ◽  
Bacterial Colonization ◽  
Carbon Sources ◽  
Phenotypic Traits ◽  
Natural Ecosystem ◽  
Bacterial Taxonomy ◽  
North East ◽  
Rice Landraces ◽  
The Impact

ABSTRACTThe ecology and distribution of many bacteria is strongly associated with specific eukaryotic hosts. However, the impact of such host association on bacterial ecology and evolution is not well understood. Bacteria from the genus Methylobacterium consume plant-derived methanol, and are some of the most abundant and widespread plant-associated bacteria. In addition, many of these species impact plant fitness. To determine the ecology and distribution of Methylobacterium in nature, we sampled bacteria from 36 distinct rice landraces, traditionally grown in geographically isolated locations in North-East (NE) India. These landraces have been selected for diverse phenotypic traits by local communities, and we expected that the divergent selection on hosts may have also generated divergence in associated Methylobacterium strains. We determined the ability of 91 distinct rice-associated Methylobacterium isolates to use a panel of carbon sources, finding substantial variability in carbon use profiles. Consistent with our expectation, across spatial scales this phenotypic variation was largely explained by host landrace identity rather than geographical factors or bacterial taxonomy. However, variation in carbon utilisation was not correlated with sugar exudates on leaf surfaces, suggesting that bacterial carbon use profiles do not directly determine bacterial colonization across landraces. Finally, experiments showed that at least some rice landraces gain an early growth advantage from their specific phyllosphere-colonizing Methylobacterium strains. Together, our results suggest that landrace-specific host-microbial relationships may contribute to spatial structure in rice-associated Methylobacterium in a natural ecosystem. In turn, association with specific bacteria may provide new ways to preserve and understand diversity in one of the most important food crops of the world.

scholarly journals Predator-Based Selection And The Impact of Edge Sympatry On Components of Coral Snake Mimicry

2021 ◽  
Author(s):  
Lauren Wilson ◽  
George Lonsdale ◽  
John David Curlis ◽  
Elizabeth Hunter ◽  
Christian L. Cox
Keyword(s):  
Temporal Variation ◽  
Phenotypic Diversity ◽  
Spatial Scales ◽  
Coral Snake ◽  
The Impact

Abstract Mimicry is a vivid example of how predator-driven selection can impact phenotypic diversity, which itself can be influenced by the presence (sympatry) or absence (allopatry) of a dangerous model. However, the impact of sympatry and allopatry on predation on mimicry systems at fine spatial scales (e.g., edge sympatry, allopatry) is not well understood. We used a clay replica study in a montane tropical site in Honduras to test the impact of edge sympatry on 1) overall attack rates, 2) the fitness benefit of mimetic coloration, 3) predation on specific mimetic signal components, and 4) temporal variation in predator-based selection on mimicry components. Unlike previous research, we found that mimetic phenotypes received significantly more attacks than cryptic replicas in edge sympatry, suggesting that mimetic phenotypes might not confer a fitness benefit in areas of edge sympatry. Additionally, we documented temporal variation in predator-based selection, as the impacts of allopatry on predatory attacks varied among years. Our results imply that the effect of sympatry and allopatry on predator-based selection in mimicry systems may be more complex than previously thought for species-rich assemblies of coral snakes and their mimics in the montane tropics.

scholarly journals Brettanomyces bruxellensis: Overview of the hidden diversity and complexity of an anthropized yeast

2021 ◽  
Author(s):  
Jules Harrouard ◽  
Chris Eberlein ◽  
Patricia Ballestra ◽  
Marguerite Dols-Lafargue ◽  
Isabelle Masneuf-Pomarede ◽  
...  
Keyword(s):  
Environmental Changes ◽  
Phenotypic Diversity ◽  
Nitrogen Sources ◽  
Genomic Diversity ◽  
Future Research ◽  
Phenotypic Traits ◽  
Bioethanol Production ◽  
Brettanomyces Bruxellensis ◽  
Ploidy Levels ◽  
The Impact

Human-associated microorganisms are ideal models to study the impact of environmental changes on species evolution and adaptation. The yeast Brettanomyces bruxellensis is a good example of organism facing anthropogenic-driven selective pressures. It is associated with fermentation processes in which it can be considered either as a spoiler (e.g. winemaking, bioethanol production) or as a beneficial microorganism (e.g. production of specific beers, kombucha). Besides its industrial interests, noteworthy parallels and dichotomies with Saccharomyces cerevisiae propelled B. bruxellensis as a valuable complementary yeast model. In this review, we emphasize that the broad genetic and phenotypic diversity of this species is only beginning to be revealed. Population genomic studies have revealed the co-existence of auto- and allotriploidization events with different evolutionary outcomes. The various diploid, autotriploid and allotriploid subpopulations are associated with specific fermented processes, suggesting independent adaptation phenomena to anthropized environments. Phenotypically, B. bruxellensis is renowned for its ability to metabolize a wide variety of carbon and nitrogen sources, which may explain its ability to colonize already fermented environments showing low-nutrient contents. Several traits of interest could be related to adaptation to human activities (e.g. nitrate metabolization in bioethanol production, resistance to sulphite treatments in winemaking). However, phenotypic traits are insufficiently studied in view of the great genomic diversity of the species. Future work will have to take into account strains of varied substrates, geographical origins as well as displaying different ploidy levels. Finally, we discuss the characteristics of B. bruxellensis which may prove to be of wider interest in future research.

scholarly journals Urbanisation and wing asymmetry in the western honey bee (Apis mellifera, Linnaeus 1758) at multiple scales

PeerJ ◽  
2018 ◽  
Vol 6 ◽  
pp. e5940 ◽  
Author(s):  
Ryan J. Leonard ◽  
Katie K.Y. Wat ◽  
Clare McArthur ◽  
Dieter F. Hochuli
Keyword(s):  
Apis Mellifera ◽  
Land Cover ◽  
Honey Bee ◽  
Multiple Scales ◽  
Spatial Scales ◽  
Wing Shape ◽  
Phenotypic Traits ◽  
Wing Size ◽  
Geometric Morphometric ◽  
The Impact

Changes in the mean and variance of phenotypic traits like wing and head morphology are frequently used as indicators of environmental stress experienced during development and may serve as a convenient index of urbanization exposure. To test this claim, we collected adult western honey bee (Apis mellifera Linnaeus 1758, Hymenoptera, Apidae) workers from colonies located across an urbanization gradient, and quantified associations between the symmetries of both wing size and wing shape, and several landscape traits associated with urbanization. Landscape traits were assessed at two spatial scales (three km and 500 m) and included vegetation and anthropogenic land cover, total road length, road proximity and, population and dwelling density. We then used geometric morphometric techniques to determine two wing asymmetry scores—centroid size, a measure of wing size asymmetry and Procrustes distance, a measure of wing shape asymmetry. We found colony dependent differences in both wing size and shape asymmetry. Additionally, we found a negative association between wing shape asymmetry and road proximity at the three km buffer, and associations between wing shape asymmetry and road proximity, anthropogenic land cover and vegetation cover at the 500 m buffer. Whilst we were unable to account for additional variables that may influence asymmetry including temperature, pesticide presence, and parasitism our results demonstrate the potential usefulness of wing shape asymmetry for assessing the impact of certain landscape traits associated with urbanization. Furthermore, they highlight important spatial scale considerations that warrant investigation in future phenotypic studies assessing urbanization impact.

How good are we at assessing the impact of ocean acidification in coastal systems? Limitations, omissions and strengths of commonly used experimental approaches with special emphasis on the neglected role of fluctuations

2016 ◽  
Vol 67 (1) ◽  
pp. 25 ◽  
Author(s):  
M. Wahl ◽  
V. Saderne ◽  
Y. Sawall
Keyword(s):  
Ocean Acidification ◽  
Spatial Scales ◽  
Past Research ◽  
Natural Ecosystem ◽  
Biological Interactions ◽  
Ecosystem Level ◽  
Experimental Approaches ◽  
Temporal And Spatial ◽  
The Impact

Much of our past research on ocean acidification has focussed on direct responses to pCO2 increase at the (sub-) organism level, but does not produce findings that can be projected into the natural context. On the basis of a review of ~350 recent articles mainly on ocean acidification effects, we highlight major limitations of commonly used experimental approaches. Thus, the most common type of investigation, simplified and tightly controlled laboratory experiments, has yielded a wealth of findings on short-term physiological responses to acidification, but any extrapolation to the natural ecosystem level is still problematic. For this purpose, an upscaling is required regarding the number of stressors, of ontogenetic stages, of species, of populations, of generations as well as the incorporation of fluctuating intensities of stress. Because the last aspect seems to be the least recognised, we treat in more detail the natural fluctuations of the carbonate system at different temporal and spatial scales. We report on the very rare investigations that have assessed the biological relevance of natural pH or pCO2 fluctuations. We conclude by pleading the case for more natural research approaches that integrate several organisational levels on the response side, several drivers, biological interactions and environmental fluctuations at various scales.

scholarly journals Phenotypic diversity of Methylobacterium associated with rice landraces in North-East India

PLoS ONE ◽  
2020 ◽  
Vol 15 (2) ◽  
pp. e0228550 ◽  
Author(s):  
Pratibha Sanjenbam ◽  
Radhika Buddidathi ◽  
Radhika Venkatesan ◽  
P. V. Shivaprasad ◽  
Deepa Agashe
Keyword(s):  
Phenotypic Diversity ◽  
North East India ◽  
North East ◽  
Rice Landraces

The impact of self-reported oral health on the quality of life of teenage students with or without orthodontic treatment from North-East of Romania

2016 ◽  
Author(s):  
GEORGETA ZEGAN ◽  
◽  
CRISTINA GENA DASCĂLU ◽  
RADU EDUARD CERNEI ◽  
RADU BOGDAN MAVRU ◽  
...  
Keyword(s):  
Quality Of Life ◽  
Oral Health ◽  
Orthodontic Treatment ◽  
North East ◽  
The Impact

scholarly journals Scale dependence of galaxy biasing investigated by weak gravitational lensing: An assessment using semi-analytic galaxies and simulated lensing data

2018 ◽  
Vol 613 ◽  
pp. A15 ◽  
Author(s):  
Patrick Simon ◽  
Stefan Hilbert
Keyword(s):  
Gravitational Lensing ◽  
Spatial Scales ◽  
Scale Dependence ◽  
Reconstruction Technique ◽  
Weak Gravitational Lensing ◽  
Physical Scale ◽  
The Galaxy ◽  
Galaxy Bias ◽  
The Impact ◽  
Lens Galaxies

Galaxies are biased tracers of the matter density on cosmological scales. For future tests of galaxy models, we refine and assess a method to measure galaxy biasing as a function of physical scalekwith weak gravitational lensing. This method enables us to reconstruct the galaxy bias factorb(k) as well as the galaxy-matter correlationr(k) on spatial scales between 0.01hMpc−1≲k≲ 10hMpc−1for redshift-binned lens galaxies below redshiftz≲ 0.6. In the refinement, we account for an intrinsic alignment of source ellipticities, and we correct for the magnification bias of the lens galaxies, relevant for the galaxy-galaxy lensing signal, to improve the accuracy of the reconstructedr(k). For simulated data, the reconstructions achieve an accuracy of 3–7% (68% confidence level) over the abovek-range for a survey area and a typical depth of contemporary ground-based surveys. Realistically the accuracy is, however, probably reduced to about 10–15%, mainly by systematic uncertainties in the assumed intrinsic source alignment, the fiducial cosmology, and the redshift distributions of lens and source galaxies (in that order). Furthermore, our reconstruction technique employs physical templates forb(k) andr(k) that elucidate the impact of central galaxies and the halo-occupation statistics of satellite galaxies on the scale-dependence of galaxy bias, which we discuss in the paper. In a first demonstration, we apply this method to previous measurements in the Garching-Bonn Deep Survey and give a physical interpretation of the lens population.

scholarly journals Reciprocal hemizygosity analysis reveals that the Saccharomyces cerevisiae CGI121 gene affects lag time duration in synthetic grape must

2021 ◽  
Author(s):  
Runze Li ◽  
Rebecca C Deed
Keyword(s):  
Saccharomyces Cerevisiae ◽  
Low Temperatures ◽  
Lag Time ◽  
Lag Phase ◽  
Phenotypic Traits ◽  
Time Duration ◽  
Phase Duration ◽  
Grape Must ◽  
The Impact ◽  
Reciprocal Hemizygosity Analysis

Abstract It is standard practice to ferment white wines at low temperatures (10-18 °C). However, low temperatures increase fermentation duration and risk of problem ferments, leading to significant costs. The lag duration at fermentation initiation is heavily impacted by temperature; therefore, identification of Saccharomyces cerevisiae genes influencing fermentation kinetics is of interest for winemaking. We selected 28 S. cerevisiae BY4743 single deletants, from a prior list of open reading frames (ORFs) mapped to quantitative trait loci (QTLs) on chromosomes VII and XIII, influencing the duration of fermentative lag time. Five BY4743 deletants, Δapt1, Δcgi121, Δclb6, Δrps17a, and Δvma21, differed significantly in their fermentative lag duration compared to BY4743 in synthetic grape must (SGM) at 15 °C, over 72 h. Fermentation at 12.5 °C for 528 h confirmed the longer lag times of BY4743 Δcgi121, Δrps17a, and Δvma21. These three candidate ORFs were deleted in S. cerevisiae RM11-1a and S288C to perform single reciprocal hemizygosity analysis (RHA). RHA hybrids and single deletants of RM11-1a and S288C were fermented at 12.5 °C in SGM and lag time measurements confirmed that the S288C allele of CGI121 on chromosome XIII, encoding a component of the EKC/KEOPS complex, increased fermentative lag phase duration. Nucleotide sequences of RM11-1a and S288C CGI121 alleles differed by only one synonymous nucleotide, suggesting that intron splicing, codon bias, or positional effects might be responsible for the impact on lag phase duration. This research demonstrates a new role of CGI121 and highlights the applicability of QTL analysis for investigating complex phenotypic traits in yeast.

scholarly journals The Impact of Dental Implant Surface Modifications on Osseointegration and Biofilm Formation

2021 ◽  
Vol 10 (8) ◽  
pp. 1641
Author(s):  
Stefanie Kligman ◽  
Zhi Ren ◽  
Chun-Hsi Chung ◽  
Michael Angelo Perillo ◽  
Yu-Cheng Chang ◽  
...  
Keyword(s):  
Dental Implant ◽  
Biofilm Formation ◽  
Bacterial Colonization ◽  
Surface Modifications ◽  
Implant Surface ◽  
Oral Rehabilitation ◽  
Surface Design ◽  
Polyether Ether Ketone ◽  
Dental Implant Surface ◽  
The Impact

Implant surface design has evolved to meet oral rehabilitation challenges in both healthy and compromised bone. For example, to conquer the most common dental implant-related complications, peri-implantitis, and subsequent implant loss, implant surfaces have been modified to introduce desired properties to a dental implant and thus increase the implant success rate and expand their indications. Until now, a diversity of implant surface modifications, including different physical, chemical, and biological techniques, have been applied to a broad range of materials, such as titanium, zirconia, and polyether ether ketone, to achieve these goals. Ideal modifications enhance the interaction between the implant’s surface and its surrounding bone which will facilitate osseointegration while minimizing the bacterial colonization to reduce the risk of biofilm formation. This review article aims to comprehensively discuss currently available implant surface modifications commonly used in implantology in terms of their impact on osseointegration and biofilm formation, which is critical for clinicians to choose the most suitable materials to improve the success and survival of implantation.

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