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80 results for “incubation temperature”
Increased egg shell temperature during incubation leads to changes in transcriptional and epigenetic profiles in chicken lungs
<p>These RDS files contain <strong>DESeqDataSet </strong>objects subsets per broiler age and treatment. These objects are the result of DESeq2::DESeq( … ,betaPrior=FALSE).The .txt-objects contain the normalized sequencing counts per broiler age and treatment group. These objects are the result of DESeq2::counts( … , normalized=TRUE). Data was generated using STAR v2.7.10a and DESeq2 v1.36. Metadata is included as Excel file.</p> <p>Sequencing data is deposited at NCBI-SRA under BioProject: PRJNA949139. </p> <p> </p> <p><strong>Study abstract</strong></p> <p>D. Schokker, J. de Vos, P.B. Stege, O. Madsen, H.J. Wijnen, S.K. Kar, and J.M.J. Rebel</p> <p>Health and resilience against respiratory diseases are important features for broiler chicken. In this study, epigenetic and transcriptomic changes in the lungs of broiler chickens of different ages during rearing that were either exposed to elevated egg shell temperature (HIGH) of 38.9°C during mid-incubation or normal egg shell temperature (control; CON). The objective was to better understand how environmental challenges, such as heat stress during egg incubation, affect the development of the immune system and health of broiler chicken at later age. To this end we generated both epigenetic and transcriptomic data of lung tissue of elevated HIGH and CON chicken, furthermore these chicken were challenged by introducing either an infectious E. coli or an IBV vaccination to monitor the respiratory response. Thousands of differential methylated sites were observed at days 15 and 33, when comparing HIGH vs. CON. Pathway enrichment analysis of HIGH vs. CON showed that differentially expressed genes were mainly involved in cilium, cytoskeleton, and immune processes. These findings provide insight into the underlying biological mechanisms of early life conditions, like elevated EST, and their potential role in health of broilers.</p>
Data from: Soil incubation methods lead to large differences in inferred methane production temperature sensitivity
<p>Quantifying the temperature sensitivity of methane (CH4) production is crucial for predicting how wetland ecosystems will respond to climate warming. Typically, the temperature sensitivity (often quantified as a Q10 value) is derived from laboratory incubation studies and then used in biogeochemical models. However, studies report wide variation in incubation-inferred Q10 values, with a large portion of this variation remaining unexplained. Here we applied observations in Stordalen Mire, a thawing permafrost peatland, and a well-tested process-rich model, ecosys, to interpret incubation observations and investigate controls on inferred CH4 production temperature sensitivity. We developed a Field-Storage-Incubation (FSI) modeling approach to mimic the full incubation sequence, including field sampling at a particular time in the growing season,refrigerated storage, and the laboratory incubation process, followed by model evaluation. We found that CH4 production rates during incubation are regulated by seasonally-dependent substrate availability and active microbial biomass of key microbial functional groups. Applying a model sensitivity analysis, we found that storage duration, storage temperature, and field sampling time significantly affect CH4 production during incubation. Shorter storage duration and lower storage temperature led to larger CH4 production during incubation. Our findings revealed a wide range of inferred Q10 values (1.2 to 3.5), which we attribute to incubation temperatures, incubation duration, storage duration, and sampling time. Q10 of CH4 production is controlled by many interacting biological, biochemical, and physical processes, which cause the aggregated Q10 values to differ from those of the component processes. Terrestrial ecosystem models that use a constant Q10 value to represent temperature responses may therefore predict biased soil carbon cycling under future climate scenarios.</p> <p>This dataset includes all the data used to plot figures in the manuscript, including Fig.2-6 and Fig.S2-S11. Each sheet in the aggregated spreadsheet corresponds to one figure in the manuscript. The simulation experiment setup and analyses are thoroughly described in the manuscript. Here we provide a brief summary. The data includes field greenhouse gas observations and laboratory incubation measurements of CH4 production in Stordalen Mire. These datasets were already published and references were provided in the manuscript and spreadsheet. The data also includes simulation data, including modeled cumulative CH4 production, CH4 production rates, substrate concentrations, and active microbial biomass under different incubation temperature, sampling time and storage conditions. This data also includes inferred temperature sensitivity of CH4 production as Q10 values under different scenarios. Please refer to the manuscript for more detailed information.</p> <p>Please see "Related works" at the bottom of this page and the "References" tab in the spreadsheet for a full list of source datasets and associated publications.</p> <p> </p> <p>FUNDING:</p> <p>This research is a contribution of the EMERGE Biology Integration Institute, funded by the National Science Foundation, Biology Integration Institutes Program, Award # 2022070.</p> <p>We thank the Swedish Polar Research Secretariat and SITES for the support of the work done at the Abisko Scientific Research Station. SITES is supported by the Swedish Research Council’s grant 4.3-2021-00164. This research used resources of the National Energy Research Scientific Computing Center (NERSC) which is a U.S. Department of Energy Office of Science user facility. This research used the Lawrencium computational cluster resource provided by the IT Division at the Lawrence Berkeley National Laboratory (Supported by the Director, Office of Science, Office of Basic Energy Sciences, of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231). Incubation and field observation data were collected under the IsoGenie Project, which was funded by the Genomic Science Program of the United States Department of Energy Office of Biological and Environmental Research, grant #s DE-SC0004632, DE-SC0010580, and DE-SC0016440.</p>
Operating diagram of IF incubator, two identical incubators were used for eggs that were already sorted. They are made up of an isothermal enclosure and contain three tiers (100 × 60 × 17 cm). The water circulating in each tier comes from the same filtration, cooling and sterilisation device. As a result, the eggs placed in the different tiers are subject to the same temperature regime. in Reproduction of Zingel asper (Linnaeus, 1758) in controlled conditions: an assessment of the experiences realized since 2005 at the Besançon Natural History Museum
Operating diagram of IF incubator, two identical incubators were used for eggs that were already sorted. They are made up of an isothermal enclosure and contain three tiers (100 × 60 × 17 cm). The water circulating in each tier comes from the same filtration, cooling and sterilisation device. As a result, the eggs placed in the different tiers are subject to the same temperature regime.
Data from: Maternal provisioning interacts with incubation temperature to affect hatchling mercury exposure in an oviparous reptile
<p>The thermal environment experienced by developing embryos can influence the utilization of maternally-provisioned resources. Despite being particularly consequential for oviparous ectotherms, these dynamics are largely unexplored within ecotoxicological frameworks. Here, we test if incubation temperature interacts with maternally-transferred mercury to affect subsequent body burdens and tissue distributions of mercury in hatchling American alligators (<em>Alligator mississippiensis</em>). Nine clutches of alligator eggs were collected from a mercury-contaminated reservoir and incubated at either female- or male-promoting temperatures. Total mercury (THg) concentration was measured in egg yolk collected during incubation and in a suite of tissues collected from hatchlings. THg concentrations in residual yolk and blood were higher in hatchlings incubated at cooler, female-promoting temperatures compared to the warmer, male-promoting temperatures. THg concentrations in most tissues were positively correlated with THg concentrations in blood and dermis, and egg yolk THg concentration was the best predictor of THg concentration in many resultant tissues. Our results highlight a hereto unknown role of the developmental environment in mediating tissue specific uptake of contaminants in an oviparous reptile.</p>
Effects of incubation temperature on the upper thermal tolerance of the imperiled longfin smelt (Spirinchus thaleichthys)
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The influence of incubation temperature on offspring traits varies across northern and southern populations of the American alligator (Alligator mississippiensis)
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Data from: Maternal provisioning interacts with incubation temperature to affect hatchling mercury exposure in an oviparous reptile
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Incubation temperature as a constraint on clutch size evolution
<p>1. Elucidating factors that limit the number of offspring produced is fundamental to understanding life-history evolution. Here, we examine the hypothesis that parental ability to maintain an optimal physical developmental environment for all offspring constrains clutch size via effects on offspring quality.</p> <p>2. Experimental laboratory studies of birds have shown that a <1°C difference in average incubation temperature has diverse effects on fitness-related post-hatching offspring phenotypes. Thus, the inability of parents to maintain optimal incubation temperatures could constrain clutch sizes.</p> <p>3. A fundamental question that has not been sufficiently addressed is whether larger clutch sizes lead to within nest variation in egg temperature that is large enough to produce offspring with different phenotypes within a brood. This could lead to differential survival among offspring, and could create a tradeoff between offspring number and quality.</p> <p>4. We manipulated clutch size in nests of free-living wood ducks and measured incubation temperature among and within clutches using multiple temperature loggers.</p> <p>5. As clutch size increased, average incubation temperatures were lower and more variable, and eggs took longer to hatch. Notably, the range in average incubation temperature among eggs within nests increased with clutch size and exceeded 1°C in large clutches.</p> <p>6. Clutch size did not affect hatch success. In conjunction with our companion laboratory studies that used artificial incubation to document the effects of temperature variation on fitness-related traits in this species, our work suggests that suboptimal incubation temperatures could be a factor that limits clutch size through diminishing returns on post-hatch offspring quality.</p>
Data from: Experience counts: the role of female age in morning incubation and brooding behavior in relation to temperature
<p>Reproductive experience can impact how individuals allocate time and energy to reproduction and generate differences in reproductive behavior that leads to experience dependent variation in reproductive success. In order to understand if individual variation in parental behavior is related to environmental temperature and breeding experience, we observed the timing and duration of the first morning off bout in a wild, open cup nesting passerine bird during the incubation and early nestling period. We compared incubation behaviors and nest temperature of inexperienced (second year = first breeding season) and experienced (after second year) female hooded warblers <i>Setophaga citrina</i>. Females left the nest earlier on colder mornings suggesting an energetic constraint due to the long overnight on bout during colder temperatures. During incubation, females increased the duration of the first morning off bout with increasing temperature. Similarly, during the early nestling period, experienced females had shorter off bout duration on colder mornings and increased duration with warmer temperatures. In contrast, inexperienced females increased off bout duration with colder morning temperatures. Experienced females maintained higher nest temperatures and higher minimum nest temperatures compared to inexperienced females. We also found evidence that experienced females nested in microhabitats with higher minimum morning temperature which may buffer older females from colder daily extremes and enable older females to maintain higher nest temperatures. While we found no relationship between incubation and brooding behaviors and fledging success, the proportion of the clutch that hatched was positively related to minimum nest temperature. The ability of experienced females to maintain higher minimum nest temperatures and to adjust brooding behaviors during colder mornings is a potential mechanism that has consequences for nestling condition in a wild population. Our results highlight the need to examine experience related parental care behaviors in responding to environmental variation.</p>
Data from: Laying sequence interacts with incubation temperature to influence rate of embryonic development and hatching synchrony in a precocial bird
Incubation starts during egg laying for many bird species and causes developmental asynchrony within clutches. Faster development of late-laid eggs can help reduce developmental differences and synchronize hatching, which is important for precocial species whose young must leave the nest soon after hatching. In this study, we examined the effect of egg laying sequence on length of the incubation period in Wood Ducks (Aix sponsa). Because incubation temperature strongly influences embryonic development rates, we tested the interactive effects of laying sequence and incubation temperature on the ability of late-laid eggs to accelerate development and synchronize hatching. We also examined the potential cost of faster development on duckling body condition. Fresh eggs were collected and incubated at three biologically relevant temperatures (Low: 34.9°C, Medium: 35.8°C, and High: 37.6°C), and egg laying sequences from 1 to 12 were used. Length of the incubation period declined linearly as laying sequence advanced, but the relationship was strongest at medium temperatures followed by low temperatures and high temperatures. There was little support for including fresh egg mass in models of incubation period. Estimated differences in length of the incubation period between eggs 1 and 12 were 2.7 d, 1.2 d, and 0.7 d at medium, low and high temperatures, respectively. Only at intermediate incubation temperatures did development rates of late-laid eggs increase sufficiently to completely compensate for natural levels of developmental asynchrony that have been reported in Wood Duck clutches at the start of full incubation. Body condition of ducklings was strongly affected by fresh egg mass and incubation temperature but declined only slightly as laying sequence progressed. Our findings show that laying sequence and incubation temperature play important roles in helping to shape embryo development and hatching synchrony in a precocial bird.
The effect of ambient temperature on bird embryonic development: A comparison between uniparental incubating silver-throated tits and biparental incubating black-throated tits
<p>The temperature experienced by avian embryos during development has important impacts on their growth and post-hatching phenotypes. Ambient temperature can directly affect avian nest temperature and indirectly affect it through its impact on parental incubation behaviours. Because the nests of uniparental incubators are usually left unattended more frequently than the nests of biparental incubators whose nests can be attended by another bird when one bird leaves the nest, we predict that the effect of ambient temperature on nest temperature and thus on embryonic development (specifically, incubation period length and hatching success) and post-hatching phenotype (i.e. potential carry-over effect on nestling body mass and condition) should be greater in uniparental incubators than in biparental incubators. To test this prediction, we studied two congeneric species, the biparental incubating black-throated tits (<em>Aegithalos concinnus</em>) and the uniparental incubating silver-throated tits (<em>A.</em> <em>glaucogularis</em>). We found that although the two species' embryos both developed faster (shorter incubation period length) when ambient temperature was higher, the slope was significantly greater for silver-throated tits than for black-throated tits, consistent with our prediction of a greater effect of ambient temperature on embryonic development in silver-throated tits. However, the result was not due to a greater effect of ambient temperature on nest temperature because nest temperatures of the two species had positive relationships with ambient temperature in a similar way. Therefore, it implies a greater response of silver-throated tit embryos to temperature change. In addition, ambient temperature during the incubation stage did not affect either hatching success or nestling body mass and condition in both species. Although our predictions were not fully supported, our findings highlight the different responses of embryonic development to environmental changes between a uniparental incubator and a biparental incubator and suggest further research to explore the mechanisms.</p>
Data from: incubation as a driver of maternal effects: temperature influences levels of yolk maternally derived 5α-dihydrotestosterone
<p>In birds, maternal hormones deposited into eggs in response to environmental stimuli can impact offspring phenotype. Although less studied, environmental conditions can also influence females' incubation behavior, which might play a role in regulating embryo exposure to maternal hormones through changes in incubation temperature that affect the activity of the enzymes responsible for converting testosterone (T) to 5α-dihydrotestosterone (DHT) or estradiol. Here, we tested the hypothesis that the initial T content of the yolk and incubation temperature determine exposure to T metabolites during early embryo development. In the Japanese quail (<em>Coturnix japonica</em>), we experimentally manipulated yolk T and incubation temperature (38° C versus 36° C) and analyzed DHT and estradiol titers on day four of incubation. We found that eggs with experimentally increased T and those incubated at 36° C showed higher DHT concentration in egg yolk (with no synergistic effect of the two treatments). Estradiol titers were not affected by T manipulation or incubation temperature. Our study suggests that incubation temperature influences DHT titers and may act as an understudied source of maternal influence on offspring phenotype.</p>
Extended incubation recesses in Sanderlings are impacted by temperature and body condition
<p>Complex incubation strategies have evolved to solve the trade-off between parent survival and care for their eggs with often brief departures (recesses) that maximise egg survival or infrequent extended recesses maximising adult condition. Here we examined incubation behaviour of Sanderlings (<em>Calidris alba</em>), a species that exhibits both bi- and uniparental incubation behaviour. During 11 breeding seasons in Greenland, we have quantified incubation variability with thermologgers placed in nests. We estimated the impact of environmental conditions and individual characteristics on the occurrence and the duration of recesses. We found that extended recesses are a unique feature of uniparentals, and their frequency and duration increased in colder temperatures. The relationship was mediated by body condition, with individuals in poor condition performing longer extended recesses in colder temperatures. This suggests that extended recesses may represent a shift towards self-maintenance at the expense of the egg care, allowing birds to continue incubating under unfavourable conditions. Our study illustrates how extended recesses may be a key breeding strategy to overcome high energetical costs associated with incubation. Quantifying such behavioural flexibility paves the way for tracking future behavioural responses of individuals in the face of changing environments.</p>
Genome-wide DNA methylation patterns harbor signatures of hatchling sex and past incubation temperature in a species with environmental sex determination
<p>Conservation of thermally sensitive species depends on monitoring organismal and population-level responses to environmental change in real time. Epigenetic processes are increasingly recognized as key integrators of environmental conditions into developmentally plastic responses, and attendant epigenomic datasets hold potential for revealing cryptic phenotypes relevant to conservation efforts. Here, we demonstrate the utility of genome-wide DNA methylation (DNAm) patterns in the face of climate change for a group of especially vulnerable species, those with temperature-dependent sex determination (TSD). Due to their reliance on thermal cues during development to determine sexual fate, contemporary shifts in temperature are predicted to skew offspring sex ratios and ultimately destabilize sensitive populations. Using reduced-representation bisulfite sequencing, we profiled the DNA methylome in blood cells of hatchling American alligator (<em>Alligator mississippiensis</em>), a TSD species lacking reliable markers of sexual dimorphism in early life-stages. We identified 120 sex-associated differentially methylated cytosines (DMCs; FDR < 0.1) in hatchlings incubated under a range of temperatures, as well as 707 unique temperature-associated DMCs. We further developed DNAm-based models capable of predicting hatchling sex with 100% accuracy (in 20 training samples and 4 test samples) and past incubation temperature with a mean absolute error of 1.2˚C (in 4 test samples) based on the methylation status of 20 and 24 loci, respectively. Though largely independent of epigenomic patterning occurring in the embryonic gonad during TSD, DNAm patterns in blood cells may serve as non-lethal markers of hatchling sex and past incubation conditions in conservation applications. These findings also raise intriguing questions regarding tissue-specific epigenomic patterning in the context of developmental plasticity. </p>
Figure 6. Temperature, April 2014 in Assessment of the incubation period for each sex of Turkish semiwild Northern Bald Ibis (Geronticus eremita)
Figure 6. Temperature, April 2014.
Figure 2. Temperature, March 2013 in Assessment of the incubation period for each sex of Turkish semiwild Northern Bald Ibis (Geronticus eremita)
Figure 2. Temperature, March 2013.
Figure 4. Temperature, March 2015 in Assessment of the incubation period for each sex of Turkish semiwild Northern Bald Ibis (Geronticus eremita)
Figure 4. Temperature, March 2015.
Data for: The effects of embryonic incubation temperature on subsequent growth and thermal tolerance in white sturgeon throughout onset of exogenous feeding to early juveniles
<p>An organism's phenotypic characteristics can be altered by environmental variation experienced during embryonic development, potentially leading to changes that persist into adulthood. Increasing global temperatures are a current concern that may be particularly acute for species already threatened or endangered, such as the white sturgeon, <em>Acipenser</em> <em>transmontanus</em>. Given the limited information on the effects of embryonic temperatures on subsequent physiological parameters such as thermal tolerance and growth in this species, the effects of global climate change on the future of white sturgeon populations are uncertain. To investigate carryover effects resulting from early rearing temperatures, white sturgeon embryos were incubated at different environmental temperatures (T<sub>e</sub>) of 12, 15, and 18 °C until hatch, after which fish were reared at a common 15 °C for 80 days post-hatch (dph). Individuals from each temperature treatment were tested for thermal tolerance using the critical thermal maximum method (CT<sub>max</sub>) at regular intervals from 13 to 80 dph, which bridged the time from the start of exogenous feeding through the transition into early juveniles. In addition, body length measures were taken to determine the effects of embryonic T<sub>e</sub> on growth through these life stages. We found that embryonic T<sub>e</sub> affected both thermal tolerance and growth; fish that developed at 18 °C had the lowest thermal tolerance, while those that developed at 12 °C grew largest over the observation period. This research represents a window into a critical period of development during which organisms are particularly vulnerable to climatic variation. The results can inform environmental managers on the best strategies to help conserve current white sturgeon populations across their range.</p>
Heat-induced maternal effects shape avian eggshell traits and embryo development and phenotype at high incubation temperatures
<p>Phenotypic plasticity is an important avenue by which organisms may persist in the face of rapid environmental change. Environmental cues experienced by the mother can also influence the phenotype of offspring, a form of plasticity called maternal effects. Maternal effects can adaptively prepare offspring for the environmental conditions they will experience, however, their ability to buffer offspring against environmental stressors as embryos is understudied. Using captive zebra finches, we performed a maternal-offspring environmental match-mismatch experiment utilizing a 2x2x2 factorial design. Mothers were exposed to a mild heat conditioning (38 °C) or control (22 °C) treatment as juveniles, an acute high heat (42 °C) or control (22 °C) treatment as adults, then paired for breeding. The eggs produced by those females were incubated at a hyperthermic (38.5 °C) or optimal temperature (37.2 °C). We found that when mothers were exposed to a mild heat conditioning as juveniles, their embryos exhibited reduced water loss, longer development times, and produced hatchlings with heavier pectoralis muscles when incubated at high incubation temperatures, compared to embryos from control mothers. Mothers exposed to both the mild heat conditioning as juveniles and a high heat stressor as adults produced eggs with a higher density of shell pores, and embryos with lower heart rates during development. However, there was a cost when there was a mismatch between maternal and embryo environment. Embryos from these conditioned and heat-stressed mothers had reduced survival at control incubation temperatures, indicating the importance of offspring environment when interpreting potential adaptive effects.</p>
Data for: The effects of embryonic incubation temperature on subsequent growth and thermal tolerance in white sturgeon throughout onset of exogenous feeding to early juveniles
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