Confirmation and variability of the Allee effect in Dictyostelium discoideum cell populations,possible role of chemical signaling within cell clusters

2021 ◽  
Author(s):  
Igor Segota ◽  
Matthew M. Edwards ◽  
Arthur Campello ◽  
Brendan H. Rappazzo ◽  
Xiaoning Wang ◽  
...  

Abstract In studies of the unicellular eukaryote Dictyostelium discoideum, many have anecdotally observed that cell dilution below a certain "threshold density” causes cells to undergo a period of slow growth (lag). However, little is documented about the slow growth phase and the reason for different growth dynamics below and above this threshold density. In this paper, we extend and correct our earlier work to report an extensive set of experiments, including the use of new cell counting technology, that set this slow-to-fast growth transition on a much firmer biological basis. We show that dilution below a certain density (around 10E4 cells/ml) causes cells to grow slower on average and exhibit a large degree of variability: sometimes a sample does not lag at all, while sometimes it takes many moderate density cell cycle times to recover back to fast growth. We perform conditioned media experiments to demonstrate that a chemical signal mediates this endogenous phenomenon. Finally, we argue that while simple models involving fluid transport of signal molecules or cluster-based signaling explain typical behavior, they do not capture the high degree of variability between samples but nevertheless favor an intra-cluster mechanism.

2001 ◽  
Vol 31 (11) ◽  
pp. 2049-2057 ◽  
Author(s):  
Tongli Wang ◽  
Sally N Aitken

Variation in xylem anatomy among selected populations of lodgepole pine (Pinus contorta Dougl. ex Loud. var. latifolia Engelm.) was examined using digital image analysis based on an annual growth ring (age 10) per tree. Four subpopulations were selected using the following criteria for height growth and wood density: (i) fast growth and high density; (ii) slow growth and high density; (iii) fast growth and low density; and (iv) slow growth and low density. Significant differences were found among subpopulations for several anatomical parameters including tracheid density, lumen size, and cell wall thickness that may affect the economic value and utilization of wood. Principal component analysis indicate that the first four principal components (PCs) were associated with (i) ring area (PC1), (ii) earlywood density (PC2), (iii) latewood density (PC3), and (iv) lumen shape in earlywood (PC4), suggesting that these aspects of wood properties and growth are controlled by different sets of genes. Relative contributions of total number of tracheids, tracheid lumen size, and cell wall thickness to ring area and correlations between cell wall area proportion and X-ray density are discussed.


Microbiome ◽  
2020 ◽  
Vol 8 (1) ◽  
Author(s):  
M. Carla Piazzon ◽  
Fernando Naya-Català ◽  
Erick Perera ◽  
Oswaldo Palenzuela ◽  
Ariadna Sitjà-Bobadilla ◽  
...  

Abstract Background The key effects of intestinal microbiota in animal health have led to an increasing interest in manipulating these bacterial populations to improve animal welfare. The aquaculture sector is no exception and in the last years, many studies have described these populations in different fish species. However, this is not an easy task, as intestinal microbiota is composed of very dynamic populations that are influenced by different factors, such as diet, environment, host age, and genetics. In the current study, we aimed to determine whether the genetic background of gilthead sea bream (Sparus aurata) influences the intestinal microbial composition, how these bacterial populations are modulated by dietary changes, and the effect of selection by growth on intestinal disease resistance. To that aim, three different groups of five families of gilthead sea bream that were selected during two generations for fast, intermediate, or slow growth (F3 generation) were kept together in the same open-flow tanks and fed a control or a well-balanced plant-based diet during 9 months. Six animals per family and dietary treatment were sacrificed and the adherent bacteria from the anterior intestinal portion were sequenced. In parallel, fish of the fast- and slow-growth groups were infected with the intestinal parasite Enteromyxum leei and the disease signs, prevalence, intensity, and parasite abundance were evaluated. Results No differences were detected in alpha diversity indexes among families, and the core bacterial architecture was the prototypical composition of gilthead sea bream intestinal microbiota, indicating no dysbiosis in any of the groups. The plant-based diet significantly changed the microbiota in the intermediate- and slow-growth families, with a much lower effect on the fast-growth group. Interestingly, the smaller changes detected in the fast-growth families potentially accounted for more changes at the metabolic level when compared with the other families. Upon parasitic infection, the fast-growth group showed significantly lower disease signs and parasite intensity and abundance than the slow-growth animals. Conclusions These results show a clear genome-metagenome interaction indicating that the fast-growth families harbor a microbiota that is more flexible upon dietary changes. These animals also showed a better ability to cope with intestinal infections.


2009 ◽  
Vol 49 (6) ◽  
pp. 504 ◽  
Author(s):  
B. L. McIntyre ◽  
G. D. Tudor ◽  
D. Read ◽  
W. Smart ◽  
T. J. Della Bosca ◽  
...  

Growth, carcass characteristics and meat quality of the steer and heifer progeny of autumn (AC: March–April) and winter (WC: June–July) calving cows following weaning in January in each of 3 years (2003–05) were measured. The cows were mated to sires with a high estimated breeding value for either retail beef yield (RBY), intramuscular fat (IMF) or both RBY and IMF. After weaning, the progeny entered one of three growth paths until slaughter at an average steer liveweight of 500 kg: (i) fast – fast growth from weaning on a high concentrate feedlot diet; (ii) slow – slow growth from weaning (~0.6 kg/day) to 400 kg liveweight followed by growth at over 1 kg/day on high quality pasture; or (iii) comp. – 10% weaning weight loss, immediately after weaning followed by compensatory or rapid growth of over 1 kg/day on high quality pasture. Steers on the fast growth path had higher (P < 0.001) P8 fat thickness than those on the slow or comp. growth paths whereas heifers on the fast growth path only had higher (P < 0.001) P8 fat thickness than those on the slow growth path. Animals on the fast growth treatment had higher (P < 0.001) levels of IMF% than the slow animals which were higher (P < 0.001) than the comp. growth treatment. AUS-MEAT and US marbling scores were not different among growth paths. Animals finished on the fast growth path had a lower (P < 0.001) RBY% than those on either the slow or comp. growth paths. The RBY-sired progeny had higher (P < 0.001) finishing liveweight and hot standard carcass weight than either RBY and IMF or IMF-sired animals. IMF-sired progeny had higher (P < 0.01) rib fat thickness than either RBY or RBY- and IMF-sired animals. There was also a similar trend for P8 fat thickness but the effects were not significant. The RBY-sired animals had lower AUS-MEAT marbling scores (P < 0.01), US marbling scores (P < 0.001) and levels of IMF% (P < 0.01) than either of the other two sire treatments. RBY-sired animals also had higher (P < 0.001) estimated RBY% than those from the IMF sires while those by RBY and IMF sires were intermediate and not significantly different from either. Calving time had little influence on most carcass characteristics. However, WC animals tended to be fatter and have higher marbling scores than AC animals. The IMF% was higher (P < 0.01) in WC animals from RBY and IMF sires than in the corresponding AC animals. Heifers had lighter slaughter liveweight, carcass weight, were fatter and had higher marbling scores than steers. Heifers also had lower (P < 0.001) RBY% than the steers. Ossification scores for heifers were higher (P < 0.001) than for steers by ~30 units in AC calves and by 20 units in WC calves. The results of this experiment confirm the effectiveness of using sires with high estimated breeding value for the required characteristics in producing the desired improvements in the progeny. The absence of any interactions of sire type with growth path indicates that differences between sire types will be similar regardless of environmental conditions. Animals raised on a faster growth path after weaning produce carcasses with more fat and more IMF% than those grown on slower growth paths.


2020 ◽  
Vol 13 (1) ◽  
Author(s):  
Catherine P. Chia ◽  
Noriko Inoguchi ◽  
Kyle C. Varon ◽  
Bradley M. Bartholomai ◽  
Hideaki Moriyama

Abstract Objective The nuclear and mitochondrial genomes of Dictyostelium discoideum, a unicellular eukaryote, have relatively high A+T-contents of 77.5% and 72.65%, respectively. To begin to investigate how the pyrimidine biosynthetic pathway fulfills the demand for dTTP, we determined the catalytic properties and structure of the key enzyme deoxyuridine triphosphate nucleotidohydrolase (dUTPase) that hydrolyzes dUTP to dUMP, the precursor of dTTP. Results The annotated genome of D. discoideum identifies a gene encoding a polypeptide containing the five conserved motifs of homotrimeric dUTPases. Recombinant proteins, comprised of either full-length or core polypeptides with all conserved motifs but lacking residues 1-37 of the N-terminus, were active dUTPases. Crystallographic analyses of the core enzyme indicated that the C-termini, normally flexible, were constrained by interactions with the shortened N-termini that arose from the loss of residues 1-37. This allowed greater access of dUTP to active sites, resulting in enhanced catalytic parameters. A tagged protein comprised of the N-terminal forty amino acids of dUTPase fused to green fluorescent protein (GFP) was expressed in D. discoideum cells. Supporting a prediction of mitochondrial targeting information within the N-terminus, localization and subcellular fractionation studies showed GFP to be in mitochondria. N-terminal sequencing of immunoprecipitated GFP revealed the loss of the dUTPase sequence upon import into the organelle.


2007 ◽  
Vol 124-126 ◽  
pp. 539-542
Author(s):  
Eui Tae Kim ◽  
Anupam Madhukar

We discuss the growth kinetics of InAs/GaAs self-assembled quantum dots (QDs) using two different InAs deposition rates, relatively fast growth rate of 0.22 ML/sec and slow growth rate of 0.054 ML/sec. With increasing InAs deposition amount to 3.0 ML, the QD density was almost constant after 2D to 3D island transition at the slow deposition rate while the QD density kept increasing and the QD size distribution was relatively broad at the fast growth rate. After the 2D to 3D transition, at the slow growth rate, further deposited In adatoms seemed to incorporate primarily into already formed islands, and thus contribute to equalize island size. The photoluminescence (PL) full-width at half maximum (FWHM) of 2.5 ML InAs QDs at 0.054 ML/sec was 23 meV at 78K. The PL characteristics of InAs/GaAs QDs were degraded significantly after thermal annealing at 550 oC for 3 hours.


Metabolites ◽  
2021 ◽  
Vol 11 (8) ◽  
pp. 555
Author(s):  
Jüri Lieberg ◽  
Anders Wanhainen ◽  
Aigar Ottas ◽  
Mare Vähi ◽  
Mihkel Zilmer ◽  
...  

Abdominal aortic aneurysm (AAA) is characterized by structural deterioration of the aortic wall, leading to aortic dilation and rupture. The aim was to compare 183 low molecular weight metabolites in AAA patients and aorta-healthy controls and to explore if low molecular weight metabolites are linked to AAA growth. Blood samples were collected from male AAA patients with fast (mean 3.3 mm/year; range 1.3–9.4 mm/year; n = 39) and slow growth (0.2 mm/year; range −2.6–1.1 mm/year; n = 40), and from controls with non-aneurysmal aortas (n = 79). Targeted analysis of 183 metabolites in plasma was performed with AbsoluteIDQ p180 kit. The samples were measured on a QTRAP 4500 coupled to an Agilent 1260 series HPLC. The levels of only four amino acids (histidine, asparagine, leucine, isoleucine) and four phosphatidylcholines (PC.ae.C34.3, PC.aa.C34.2, PC.ae.C38.0, lysoPC.a.C18.2) were found to be significantly lower (p < 0.05) after adjustment for confounders among the AAA patients compared with the controls. There were no differences in the metabolites distinguishing the AAA patients with slow or fast growth from the controls, or distinguishing the patients with slow growth from those with fast growth. The current study describes novel significant alterations in amino acids and phosphatidylcholines metabolism associated with AAA occurrence, but no associations were found with AAA growth rate.


HortScience ◽  
1996 ◽  
Vol 31 (4) ◽  
pp. 649d-649
Author(s):  
Guofan Liu ◽  
Kent D. Kobayashi

Four turfgrasses (Z-3, Seashore Paspalum, Common Bermuda, and Tif dwarf Bermuda) were grown outdoors in pots under different shade conditions (0%, 30%, and 50% shade) from August to December 1995. Dry weight of clippings taken every two weeks was determined. Turfgrass growth in the three shade treatments were significantly different, and the growth of the turfgrasses were highly significantly different. In the 0% and 30% shade treatments, Common Bermuda and Seashore Paspalum grew similarly, and their dry weights were significantly greater than those of Z-3 and Tif dwarf Bermuda. However, under 50% shade, only Seashore Paspalum grew significantly greater than the others. Comparing growth among the shade treatments for each turfgrass, we found no significantly differences. Only Common Bermuda grew significantly less under 50% shade than under 0% and 30% shade. Common Bermuda is good for golf courses because of its fast growth and attractiveness. Seashore Paspalum can be used for home lawns because of its vigorous growth and shade tolerance. Z-3 turfgrass, an attractive new variety for home lawns, despite its slow growth, is tolerant of different shade conditions.


Genes ◽  
2019 ◽  
Vol 10 (7) ◽  
pp. 539 ◽  
Author(s):  
Fuxiang Chen ◽  
Pengfei Wu ◽  
Manman Shen ◽  
Mingliang He ◽  
Lan Chen ◽  
...  

The growth traits are important traits in chickens. Compared to white feather broiler breeds, Chinese local broiler breeds have a slow growth rate. The main genes affecting the growth traits of local chickens in China are still unclear and need to be further explored. This experiment used fast-growth and slow-growth groups of the Jinghai Yellow chicken as the research objects. Three males and three females with similar body weights were selected from the two groups at four weeks old and eight weeks old, respectively, with a total of 24 individuals selected. After slaughter, their chest muscles were taken for transcriptome sequencing. In the differentially expressed genes screening, all of the genes obtained were screened by fold change ≥ 2 and false discovery rate (FDR) < 0.05. For four-week-old chickens, a total of 172 differentially expressed genes were screened in males, where there were 68 upregulated genes and 104 downregulated genes in the fast-growth group when compared with the slow-growth group. A total of 31 differentially expressed genes were screened in females, where there were 11 upregulated genes and 20 downregulated genes in the fast-growth group when compared with the slow-growth group. For eight-week-old chickens, a total of 37 differentially expressed genes were screened in males. The fast-growth group had 28 upregulated genes and 9 downregulated genes when compared with the slow-growth group. A total of 44 differentially expressed genes were screened in females. The fast-growth group had 13 upregulated genes and 31 downregulated genes when compared with the slow-growth group. Through gene ontology (GO) enrichment analysis and Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis, many genes were found to be related to cell proliferation and differentiation, muscle growth, and cell division such as SNCG, MCL1, ARNTL, PLPPR4, VAMP1, etc. Real-time PCR results were consistent with the RNA-Seq data and validated the findings. The results of this study will help to understand the regulation mechanism of the growth and development of Jinghai Yellow chicken and provide a theoretical basis for improving the growth rate of Chinese local chicken breeds.


IAWA Journal ◽  
1998 ◽  
Vol 19 (1) ◽  
pp. 3-23 ◽  
Author(s):  
Marc Herman ◽  
Pierre Dutilleul ◽  
Tomas Avella-Shaw

Our study was conducted on 40 Norway spruces [Picea abies (L.) Karst.] from a stand located in the Belgian Ardennes. Twenty trees were randomly sampled from a slow-growth category, and twenty others from a fast -growth category. The hypothesis under testing is fourfold: increased tree growth rate may affect 1) the intra-ring weighted frequency distribution of tracheid length, 2) the inter-ring variation (from pith to bark) of the parameters describing this frequency distribution, 3) the interring variation of the mean tracheid length, and 4) the correlation between yearly mean tracheid length and yearly ring width.


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