Determining minimum sample size for the conditioned Latin hypercube sampling algorithm

In digital soil mapping (DSM), a fundamental assumption is that the spatial variability of the target variable can be explained by the predictors or environmental covariates. Strategies to adequately sample the predictors have been well documented, with the conditioned Latin hypercube sampling (cLHS) algorithm receiving the most attention in the DSM community. Despite advances in sampling design, a critical gap remains in determining the number of samples required for DSM projects. We propose a simple workflow and function coded in R language to determine the minimum sample size for the cLHS algorithm based on histograms of the predictor variables using the Freedman-Diaconis rule for determining optimal bin width. Data preprocessing was included to correct for multimodal and non-normally distributed data, as these can affect sample size determination from the histogram. Based on a user-selected quantile range (QR) for the sample plan, the densities of the histogram bins at the upper and lower bounds of the QR were used as a scaling factor to determine minimum sample size. This technique was applied to a field-scale set of environmental covariates for a well-sampled agricultural study site near Guelph, Ontario, Canada, and tested across a range of QRs. The results showed increasing minimum sample size with an increase in the QR selected. Minimum sample size increased from 44 to 83 when the QR increased from 50% to 95% and then increased exponentially to 194 for the 99% QR. This technique provides an estimate of minimum sample size that can be used as an input to the cLHS algorithm.     

Comparison of an early and normal weaning management system on cow and calf performance while grazing endophyte-infected tall fescue pastures

A 3-yr study used 16 cows and their spring-born calves (yr 1) and 48 first-calf heifers (yr 2, n = 24; yr 3, n = 24) and their spring-born calves in a completely randomized design. All cows and heifers were Angus x Beefmaster, and calves were sired by Angus bulls. Cow-calf pairs were assigned randomly to one of two management systems: 1) an early-weaning system, in which steer and heifer calves were weaned at 108 d of age and fed a postweaning growing diet (EW), or 2) a normal weaning system, in which calves were weaned at 205 d without supplementation (NW). Before early weaning and within each management system, calves and their dams were maintained in two 1.4-ha, endophyte-infected tall fescue pastures for 35 d (yr 1) or 14 d (yr 2 and 3). Early-weaned calves and cow-calf pairs were then randomly allotted to 1.4-ha, endophyte-infected tall fescue pastures with two (yr 1) or three (yr 2 and 3) calves or cow-calf pairs per pasture (four pastures per management system). Cow weights and BCS changes and calf gains were measured from early to normal weaning. Dietary intakes and nutrient digestibilities by EW and NW calves were determined during two periods of yr 1 and three periods of yr 2 and 3. Total gains and BCS changes were greater (P < 0.01) for cows that produced EW calves in all years. Calf ADG from early to normal weaning did not differ (P = 0.32). Similar to ADG, BW of calves at normal weaning were not different (P = 0.11). Forage intake was greater (P < 0.01) by NW calves during Periods 2 and 3 of yr 1 and Periods 1 and 2 of yr 2 and 3; however, total DM and CP intakes were greater (P < 0.01) for EW calves in Periods 2 and 3 of each year. Intakes of NDF tended (P = 0.11) to be greater by EW calves across all years. Estimates of CP and NDF digestibilities were higher (P < 0.01) for EW calves during yr 1 and 2; however, all components of the diet consumed by NW calves in yr 3 were more digestible (P < 0.05) than those consumed by EW calves. These results show the condition of cows with EW calves was improved by early weaning and gains by calves weaned at 108 d to pasture plus a commercial grower diet were comparable to those by calves continuing to nurse dams until weaned at 205 d.     

Ontogenetic variability of maternal effects in an iteroparous fish

Maternal effects have been observed to interact with genotypic and environmental influences to structure offspring phenotypes across a wide variety of taxa. In fishes, maternal effects may be especially important due to their potential influence on development and survival during early ontogeny – a period with high potential for population regulation. While previous studies have confirmed that maternal effects on offspring phenotype are common in fishes, the consistency with which they positively affect offspring fitness throughout early ontogeny remains largely unknown. We examined maternal effects on offspring fitness by quantifying relationships between maternal (length, mass and age), egg (diameter, mass and density) and larval traits (length, yolk‐sac volume and survival) in yellow perch (Perca flavescens). Consistent with several past studies, positive relationships among maternal and egg traits were evident. While egg mass was positively related to larval size at hatching, direct relationships between maternal and larval metrics were not apparent. Larval survival appeared to have two critical periods; in contrast with expectations, survival in the first 5 days posthatch was strongly negatively related to female size and age, while survival over the following 9 days was unrelated to maternal traits. Throughout the study, survival was positively related to yolk‐sac volume. Our unexpected observation of a negative relationship between maternal size and age and initial larval survival indicates that maternal effects may not be consistent throughout larval ontogeny. In fact, maternal effects appear to be dynamic influences on offspring fitness, and may have complex effects on individual‐ and population‐level reproductive success.     

Comparing strategies for modeling individual-tree height and height-to-crown base increment in mixed-species Acadian forests of northeastern North America

Various methods for predicting annual tree height increment (?ht) and height-to-crown base increment (?hcb) were developed and evaluated using remeasured data from permanent sample plots compiled across the Acadian Forest of northeastern North America. Across these plots, 25 species were represented upon which total height (ht) measurements were collected from mixed-species stands displaying both single- and multi-cohort structures. For modeling ?ht, development of a unified equation form was found to result in higher accuracy and less bias compared to a maximum-modifier approach. Incorporating species as a random effect resulted in predictions that were not significantly different compared to predictions from species-specific equations for nine of the ten most abundant species examined. For ?hcb, equations that modeled changes in hcb over two time periods (i.e., an incremental approach) were either not significantly different from or significantly closer to zero compared to predictions that estimated hcb at two time periods (i.e., a static approach). Results highlight the advantages of incorporating species as a random effect in individual-tree models and demonstrate the effectiveness of modeling tree crown recession directly for application in mixed-species forest growth and yield models.     

The effect of short-term phytase supplementation on the apparent total tract digestibility of calcium and phosphorus and the reproductive performance of late gestation and lactating sows fed diets without mineral phosphorus

The objective of this study was to measure apparent total tract digestibility (ATTD) of Ca and P as well as reproductive performance in late gestation and lactating sows supplemented with a novel phytase and to compare the response to phytase supplementation between late gestation and lactating sows. A total of 45 late gestation sows and 45 lactating sows were used in experiments 1 and 2, respectively, in a completely randomized design. The sows were provided with a control diet or the control diet supplemented with 187.5 or 375 FYT phytase/kg feed for 10 days. The diets were prepared according to the formulas in use for production but without any inorganic P supplement. Titanium dioxide was included at 3 g/kg feed as an indigestible marker. Each dietary treatment was replicated with 15 sows individually housed in farrowing stalls. The sows were allowed to adapt to the experimental diets for 5 days before a 5-d fecal collection by grab sampling, and the performance of the sows and their litters were measured until weaning. The results showed that the ATTD of Ca increased linearly (P < 0.001), while the ATTD of P increased both linearly and quadratically (P < 0.01) with increasing supplementation of phytase in both late gestation and lactating sows. There was no significant effect of phytase on the ATTD of dry matter, crude protein, and gross energy, and the performance of the sows and their progenies. The phytase added at 187.5 and 375 FYT/kg feed released 0.07% and 0.10% digested P, respectively, in late gestation sows, which compared with 0.09% and 0.12% digested P in lactating sows. In conclusion, a novel phytase at 187.5–375 FYT/kg feed could release 0.07–0.12% digestible P for sows. It appeared that using the P digestibility values of feed ingredients listed by NRC to formulate a diet for sows might overestimate dietary P supply and a greater response to phytase supplementation could be expected in lactating sows than in late gestation sows.     

Observation of backward pulse propagation through a medium with a negative group velocity

The nature of pulse propagation through a material with a negative value of the group velocity has been mysterious, as simple models seem to predict that pulses will propagate "backward" through such a material. Using an erbium-doped optical fiber and measuring the time evolution of the pulse intensity at many points within the fiber, we demonstrate that the peak of the pulse does propagate backward inside the fiber, even though the energy flow is always in the forward direction.