Detecting intraannual dietary variability in wild mountain gorillas by stable isotope analysis of feces

The prospects of poop: a review of past achievements and future possibilities in faecal isotope analysis

What can the stable isotope values of human and animal faeces tell us? This often under-appreciated waste product is gaining recognition across a variety of disciplines. Faecal isotopes provide a means of monitoring diet, resource partitioning, landscape use, tracking nutrient inputs and cycling, and reconstructing past climate and environment. Here, we review what faeces are composed of, their temporal resolution, and how these factors may be impacted by digestive physiology and efficiency. As faeces are often used to explore diet, we clarify how isotopic offsets between diet and faeces can be calculated, as well as some differences among commonly used calculations that can lead to confusion. Generally, faecal carbon isotope (δ13 C) values are lower than those of the diet, while faecal nitrogen isotope values (δ15 N) values are higher than in the diet. However, there is considerable variability both within and among species. We explore the role of study design and how limitations stemming from a variety of factors can affect both the reliability and interpretability of faecal isotope data sets. Finally, we summarise the various ways in which faecal isotopes have been applied to date and provide some suggestions for future research. Despite remaining challenges, faecal isotope data are poised to continue to contribute meaningfully to a variety of fields.

An Experimental Study in Wild Wood Mice Testing Elemental and Isotope Analysis in Faeces to Determine Variations in Food Intake Amount

The analysis of carbon and nitrogen elemental (C, N) and isotopic compositions (δ13C, δ15N) in faeces are considered reliable methodologies for the study of diet in wildlife. Here, we tested the suitability of these techniques to detect variations in the amount of food intake. We captured wild wood mice (Apodemus sylvaticus) with Sherman live traps where bait access was initially free, and later it was experimentally limited inside by four different devices to cause intended variations in the amount ingested. The total C and N (%) and stable δ13C and δ15N isotopic values were determined for the bait and in mice faecal samples. Faecal values were lower than bait ones except for N, likely due to animal matter ingested before capture. No significant differences in total C, N and δ13C were found due to individual traits. However, breeding males showed higher δ15N values than breeding females, probably due to differences in energy and protein demands between both sexes during the breeding season. Only δ13C detected food intake variations (≥2 g). Despite further research being needed, these results initially support the potential of δ13C to provide information on the amount ingested, thus being useful to complement trophic ecology studies.

A skew in poo: Biases in primate fecal isotope analysis and recommendations for standardized sample preparation

Feces are a treasure trove in the study of animal behavior and ecology. Stable carbon and nitrogen isotope analysis allows to assess the dietary niches of elusive primate species and primate breastfeeding behavior. However, some fecal isotope data may unwillingly be biased toward the isotope ratios of undigested plant matter, requiring more consistent sample preparation protocols. We assess the impact of this potential data skew in 114 fecal samples of wild bonobos (Pan paniscus) by measuring the isotope differences (Δ¹³ C, Δ¹⁵ N) between bulk fecal samples containing larger particles (>1 mm) and filtered samples containing only small particles (<1 mm). We assess the influence of fecal carbon and nitrogen content (ΔC:N) and sample donor age (subadult, adult) on the resulting Δ¹³ C, Δ¹⁵ N values (n = 228). Additionally, we measure the isotope ratios in three systematically sieved fecal samples of chimpanzees (Pan troglodytes verus), with particle sizes ranging from 20 μm to 8 mm (n = 30). We found differences in fecal carbon and nitrogen content, with the smaller fecal fraction containing more nitrogen on average. While the Δ¹³ C values were small and not affected by age or ΔC:N, the Δ¹⁵ N values were significantly influenced by fecal ΔC:N, possibly resulting from the differing proportions of undigested plant macroparticles. Significant relationships between carbon stable isotope ratios (δ¹³ C) values and %C in large fecal fractions of both age groups corroborated this assessment. Δ¹⁵ N values were significantly larger in adults than subadults, which should be of concern in isotope studies comparing adult females with infants to assess breastfeeding. We found a random variation of up to 3.0‰ in δ¹³ C and 2.0‰ in nitrogen stable isotope ratios within the chimpanzee fecal samples separated by particle sizes. We show that particle size influences isotope ratios and propose a simple, cost-effective filtration method for primate feces to exclude larger undigested food particles from the analysis, which can easily be adopted by labs worldwide.

Mammalian mycophagy: A global review of ecosystem interactions between mammals and fungi

The consumption of fungi by animals is a significant trophic interaction in most terrestrial ecosystems, yet the role mammals play in these associations has been incompletely studied. In this review, we compile 1 154 references published over the last 146 years and provide the first comprehensive global review of mammal species known to eat fungi (508 species in 15 orders). We review experimental studies that found viable fungal inoculum in the scats of at least 40 mammal species, including spores from at least 58 mycorrhizal fungal species that remained viable after ingestion by mammals. We provide a summary of mammal behaviours relating to the consumption of fungi, the nutritional importance of fungi for mammals, and the role of mammals in fungal spore dispersal. We also provide evidence to suggest that the morphological evolution of sequestrate fungal sporocarps (fruiting bodies) has likely been driven in part by the dispersal advantages provided by mammals. Finally, we demonstrate how these interconnected associations are widespread globally and have far-reaching ecological implications for mammals, fungi and associated plants in most terrestrial ecosystems. Citation: Elliott TF, Truong C, Jackson S, Zúñiga CL, Trappe JM, Vernes K (2022). Mammalian mycophagy: a global review of ecosystem interactions between mammals and fungi. Fungal Systematics and Evolution 9: 99-159. doi: 10.3114/fuse.2022.09.07.

Maternal lactational investment is higher for sons in chimpanzees

Abstract

Maternal lactational investment can affect female reproductive rates and offspring survival in mammals and can be biased towards infants of one sex. We compared estimates of lactation effort among mothers, assessed as their potential milk contribution to age-specific infant diets (mother-infant differences in fecal stable nitrogen isotopes, δ15N), to the timing of weaning (infant age at last nursing bout) and to maternal inter-birth interval lengths for male and female infant chimpanzees (Pan troglodytes) at Ngogo, Uganda. Infant males had greater proportions of milk in their age-specific diets, indicated by higher mother-infant differences in δ15N (Generalized Estimating Equation, GEE: p < 0.01). This may mean that mothers of sons showed greater lactation effort than mothers of daughters. Infant males stopped nursing at older ages than infant females (Kaplan–Meier product limit estimate, Breslow estimator: p < 0.05). Mothers of sons showed longer interbirth intervals than mothers of daughters (GEE: p < 0.01). All three measures indicated maternal lactational investment was higher for sons. Male infants may cost mothers more to ensure infant survival than female infants because males are more vulnerable and/or because maternal genetic returns on investment are greater for sons than daughters, as male philopatry means that chimpanzee mothers can have more influence on the reproductive success of sons. Chimpanzee females may trade off growth-related benefits of high lactational investment in male offspring against reduced reproductive rates.

Significance statement

Maternal investment via lactation affects the reproductive success of female mammals and their offspring and can be biased towards infants of one sex. We investigated lactational variation among wild chimpanzees in relation to infant sex using three proxies for maternal lactational investment: fecal stable nitrogen isotopes, a physiological biomarker that may provide an estimate of lactation effort; observations of nursing, which we used to establish weaning ages; and the lengths of intervals between births of surviving infants. Chimpanzee mothers biased lactational investment toward sons on all three indicators and showed reduced fecundity due to longer inter-birth intervals for mothers of sons than for mothers of daughters. These results would be expected if greater maternal investment toward sons leads to better condition and higher reproductive success for sons later in life, thus to greater inclusive fitness for mothers.

Stable isotopes reveal seasonal dietary responses to agroforestry in a venomous mammal, the Hispaniolan solenodon (Solenodon paradoxus)

While trends in tropical deforestation are alarming, conservation biologists are increasingly recognizing the potential for species survival in human-modified landscapes. Identifying the factors underlying such persistence, however, requires basic ecological knowledge of a species' resource use. Here, we generate such data to guide conservation of an understudied venomous mammal, the Hispaniolan solenodon (Solenodon paradoxus), that occupies a mosaic landscape of agriculture and forest fragments in the western Dominican Republic. Using feces collected in both wet and dry seasons, we found significant differences in the stable isotope values of carbon (δ13C) between pasture (-24.63 ± 2.31‰, Las Mercedes) and agroforestry (-28.07 ± 2.10‰, Mencia). Solenodon populations in agricultural areas occupied wider isotopic niche spaces, which may be explained by more diverse resource within these patches or individuals combining resources across habitats. We detected elevated δ15N values in the dry season of pasture areas (8.22 ± 2.30‰) as compared to the wet season (5.26 ± 2.44‰) and overall narrower isotopic niche widths in the dry season, suggestive of the impacts of aridity on foraging behavior. Our work highlights the importance of considering a more nuanced view of variations in 'modified' or "agricultural" landscapes as compared with strictly protected national parks. We suggest that seasonal differences in foraging should be considered as they intersect with landscape modification by landowners for maintaining resources for focal consumers. This work adds to a growing body of literature highlighting that fecal stable isotopes are a non-invasive and cost-effective monitoring tool that is particularly well-suited for cryptic small mammal species, ensuring actionable and evidenced-based conservation practices in the tropic's rapidly changing landscapes.

A chimpanzee enamel-diet δ13C enrichment factor and a refined enamel sampling strategy: Implications for dietary reconstructions

Reconstructing diets from stable carbon isotopic signals in enamel bioapatite requires the application of a δ¹³C enamel-diet enrichment factor, or the isotopic offset between diet and enamel, which has not been empirically determined for any primate. In this study, an enamel-diet enrichment factor (ε∗_enamel-diet) of 11.8 ± 0.3‰ is calculated for chimpanzees (Pan troglodytes) at Ngogo in Kibale National Park, Uganda, based on a comprehensive isotopic assessment of previously analyzed dietary plant data and new isotopic analyses of enamel apatite. Different enamel sampling methods are evaluated to determine the potential influence of weaning on isotopic enamel values and dietary interpretations. The new chimpanzee enrichment factor and a sampling strategy that excludes teeth that formed before weaning completion are applied to all known chimpanzee δ¹³C_enamel data, either previously published or newly derived in this study, resulting in a dietary range of almost 6‰ across all chimpanzees sampled. This new chimpanzee enamel-diet enrichment factor is then used to reassess dietary reconstructions of 12 fossil hominin species whose isotopic enamel signatures have been determined. Results reveal hominin diets that are isotopically more positive than previously reconstructed, highlighting the widespread contribution of ¹³C-enriched C₄/crassulacean acid metabolism (CAM) resources in fossil hominin diets and emphasizing the broad use of these resources during human evolution. These findings stress the importance of ascertaining and employing an appropriate enrichment factor for dietary reconstructions of specific taxa as well as standardizing the sampling protocol for tooth enamel in isotopic paleodietary reconstructions.

Carbon and nitrogen stable isotopic offsets between diet and hair/feces in captive orangutans

Estimating stable isotopic offset values is crucial for dietary reconstructions. Although research into stable isotope ecology of wild nonhuman primates is increasing overall, only a minority of studies involve laboratory experiments. This study is the first to report the carbon and nitrogen stable isotopic offset values in hair and feces of orangutans. During an experiment lasting 1 week, the weight of each consumed food item was recorded for each of six captive Bornean orangutan (Pongo pygmaeus) individuals. The food, hair, and fecal samples were collected for a few days, and their stable carbon and nitrogen isotope ratios were measured using an elemental analyzer/isotope ratio mass spectrometer. Subsamples of feces were treated with ethanol during the preservation process. Monte Carlo analyses showed that the 95% confidence intervals (CIs) of the carbon and nitrogen offset values between hair and diet were +0.9‰ to +3.9‰ and +2.3‰ to +4.5‰, respectively. The 95% CIs of the carbon and nitrogen offset values between feces and diet were -3.7‰ to -0.9‰ and +0.3‰ to +2.7‰, respectively. The effect of ethanol treatment on the stable isotope ratios of feces was unclear and inconclusive. The computed offset values of hair in captive orangutans are similar to those reported in other nonhuman primates, although those of feces showed greater interspecies variations. The offset values estimated in this study contribute to isotopic studies into the feeding ecology of free-ranging orangutans who are critically endangered in most wild settings.

Faecal proteomics as a novel method to study mammalian behaviour and physiology

Mammalian faeces can be collected noninvasively during field research and provide valuable information on the ecology and evolution of the source individuals. Undigested food remains, genome/metagenome, steroid hormones, and stable isotopes obtained from faecal samples provide evidence on diet, host/symbiont genetics, and physiological status of the individuals. However, proteins in mammalian faeces have hardly been studied, which hinders the molecular investigations into the behaviour and physiology of the source individuals. Here, we apply mass spectrometry-based proteomics to faecal samples (n = 10), collected from infant, juvenile, and adult captive Japanese macaques (Macaca fuscata), to describe the proteomes of the source individual, of the food it consumed, and its intestinal microbes. The results show that faecal proteomics is a useful method to: (i) investigate dietary changes along with breastfeeding and weaning, (ii) reveal the taxonomic and histological origin of the food items consumed, and (iii) estimate physiological status inside intestinal tracts. These types of insights are difficult or impossible to obtain through other molecular approaches. Most mammalian species are facing extinction risk and there is an urgent need to obtain knowledge on their ecology and evolution for better conservation strategy. The faecal proteomics framework we present here is easily applicable to wild settings and other mammalian species, and provides direct evidence of their behaviour and physiology.

Isotopic and elemental corroborates for wild bearded capuchin (Sapajus libidinosus) omnivorous dietary adaptation at Fazenda Boa Vista, Brazil

RATIONALE

This study analyzes variability in the diets of wild bearded capuchin monkeys, Sapajus libidinosus, by analyzing stable carbon (δ¹³ C) and nitrogen (δ¹⁵ N) isotope ratios and elemental concentrations (%C and %N) of fecal samples and food items. Developing isotopic and elemental correlates for diets of habituated subjects is a necessary step towards applying similar methods to interpret diets of unhabituated or cryptic subjects.

METHODS

Fecal samples from wild capuchins and their foods were collected at Fazenda Boa Vista, Brazil. Fecal samples from laboratory-housed Sapajus spp. and their foods were analyzed to establish diet-feces offsets for δ¹³ C, δ¹⁵ N, %C, and %N. Samples were dried, powdered, and measured for isotopic and elemental values. A Bayesian mixing model commutes isotopic and elemental data from wild capuchins into likely proportions of different food categories.

RESULTS

The captive study shows small diet-feces spaces for Sapajus spp. of -0.8 ± 0.7‰ for δ¹³ C, -0.2 ± 0.4‰ for δ¹⁵ N, -6.1 ± 1.7% for %C, and -1.0 ± 0.6% for %N. The wild study shows omnivorous diets based on C₃ , C₄ , and CAM plants, and fauna. Subject diets are highly varied within and between days. Fecal data show age-related differences in diet and crop-raiding. There is no consistent isotopic or elemental difference between mothers and infants.

CONCLUSIONS

Fecal stable isotope and elemental evidence employed in a Bayesian mixing model reflects the highly varied diets of capuchin monkeys in an isotopically heterogeneous environment. The isotopic and elemental variability reported here will aid similar diet reconstructions among unhabituated subjects in the future, but precludes tracking weaning isotopically among capuchins in this environment.

Causal Analysis of Accuracy Obtained Using High-Resolution Global Forest Change Data to Identify Forest Loss in Small Forest Plots

Identifying areas of forest loss is a fundamental aspect of sustainable forest management. Global Forest Change (GFC) datasets developed by Hansen et al. (in Science 342:850–853, 2013) are publicly available, but the accuracy of these datasets for small forest plots has not been assessed. We used a forest-wide polygon-based approach to assess the accuracy of using GFC data to identify areas of forest loss in an area containing numerous small forest plots. We evaluated the accuracy of detection of individual forest-loss polygons in the GFC dataset in terms of a “recall ratio”, the ratio of the spatial overlap of a forest-loss polygon determined from the GFC dataset to the area of a corresponding reference forest-loss polygon, which we determined by visual interpretation of aerial photographs. We analyzed the structural relationships of recall ratio with area of forest loss, tree species, and slope of the forest terrain by using linear non-Gaussian acyclic modelling. We showed that only 11.1% of forest-loss polygons in the reference dataset were successfully identified in the GFC dataset. The inferred structure indicated that recall ratio had the strongest relationships with area of forest loss, forest tree species, and height of the forest canopy. Our results indicate the need for careful consideration of structural relationships when using GFC datasets to identify areas of forest loss in regions where there are small forest plots. Moreover, further studies are required to examine the structural relationships for accuracy of land-use classification in forested areas in various regions and with different forest characteristics.

Does faecal matter reflect location? An initial assessment of isotopic variability between consumed prey remains and faecal matter for wild jaguars. ISOTOPES IN ENVIRONMENTAL AND HEALTH STUDIES 2019;55:478-498. [PMID: 31402710 DOI: 10.1080/10256016.2019.1648263]

Faecal isotopic analysis may complement other non-invasive wildlife survey tools for monitoring landscape use by carnivores, such as motion-detecting cameras and non-invasive genetic sampling. We analysed carbon, nitrogen, and strontium isotopes in faecal matter produced by jaguars (Panthera onca) as well as bones from consumed prey at the Mountain Pine Ridge Forest Reserve (MPR) in Belize, Central America. The MPR is ideally suited for a spatial isotope study as vegetation and geology both vary considerably. The isotopic composition of faecal matter should reflect the habitat and geology where consumed prey lived. We used bone from consumed prey recovered from jaguar scats as a proxy for diet. Faecal matter and bone showed comparable spatial isotopic trends, suggesting that the isotopic composition of jaguar faeces can be used to detect foraging in different habitats (pine forest versus broadleaf forest) or on different geologies (Mesozoic carbonates; Palaeozoic granite, contact metamorphics, and metasediments). This result is reassuring as bones are not always present in carnivore scats. Studying landscape use by cryptic and wide-ranging carnivore species like jaguars remains challenging. Isotopic analysis of faecal matter complements the existing array of non-invasive spatial monitoring tools.

Assessing Contributions of Agricultural and Nonagricultural Emissions to Atmospheric Ammonia in a Chinese Megacity

Ammonia (NH₃) is the predominant alkaline gas in the atmosphere contributing to formation of fine particles-a leading environmental cause of increased morbidity and mortality worldwide. Prior findings suggest that NH₃ in the urban atmosphere derives from a complex mixture of agricultural (mainly livestock production and fertilizer application) and nonagricultural (e.g., urban waste, fossil fuel-related emissions) sources; however, a citywide holistic assessment is hitherto lacking. Here we show that NH₃ from nonagricultural sources rivals agricultural NH₃ source contributions in the Shanghai urban atmosphere. We base our conclusion on four independent approaches: (i) a full-year operation of a passive NH₃ monitoring network at 14 locations covering urban, suburban, and rural landscapes; (ii) model-measurement comparison of hourly NH₃ concentrations at a pair of urban and rural supersites; (iii) source-specific NH₃ measurements from emission sources; and (iv) localized isotopic signatures of NH₃ sources integrated in a Bayesian isotope mixing model to make isotope-based source apportionment estimates of ambient NH₃. Results indicate that nonagricultural sources and agricultural sources are both important contributors to NH₃ in the urban atmosphere. These findings highlight opportunities to limit NH₃ emissions from nonagricultural sources to help curb PM_2.5 pollution in urban China.

Isotopic assessment of marine food consumption by natural-foraging chacma baboons on the Cape Peninsula, South Africa

OBJECTIVES

Stable isotope analysis has been used to investigate consumption of marine resources in a variety of terrestrial mammals, including humans, but not yet in extant nonhuman primates. We sought to test the efficacy of stable isotope analysis as a tool for such studies by comparing isotope- and observation-based estimates of marine food consumption by a troop of noncommensal, free-ranging chacma baboons.

MATERIALS AND METHODS

We determined δ¹³ C and δ¹⁵ N values of baboon hair (n = 9) and fecal samples (n = 144), and principal food items (n = 362). These values were used as input for diet models, the outputs of which were compared to observation-based estimates of marine food consumption.

RESULTS

Fecal δ¹³ C values ranged from -29.3‰ to -25.6‰. δ¹⁵ N values ranged from 0.9‰ to 6.3‰ and were positively correlated with a measure of marine foraging during the dietary integration period. Mean (± SD) δ¹³ C values of adult male and female baboon hairs were -21.6‰ (± 0.1) and -21.8‰ (± 0.3) respectively, and corresponding δ¹⁵ N values were 5.0‰ (± 0.3) and 3.9‰ (± 0.2). Models indicated that marine contributions were ≤10% of baboon diet within any season, and contributed ≤17% of dietary protein through the year.

DISCUSSION

Model output and observational data were in agreement, both indicating that despite their abundance in the intertidal region, marine foods comprised only a small proportion of baboon diet. This suggests that stable isotope analysis is a viable tool for investigating marine food consumption by natural-foraging primates in temperate regions.

The diet of open-habitat chimpanzees (Pan troglodytes schweinfurthii) in the Issa valley, western Tanzania

Comparative data on the diets of extant primates inform hypotheses about hominin resource use. Historically, data describing chimpanzee diets stem primarily from forest-dwelling communities, and we lack comparative data from chimpanzees that live in mosaic habitats that more closely resemble those reconstructed for Plio-Pleistocene hominins. We present data on the diet of a partially-habituated community of open habitat chimpanzees (Pan troglodytes schweinfurthii) from the Issa valley, western Tanzania, collected over a four-year period. Based mostly on macroscopic faecal analysis, Issa chimpanzees consumed a minimum of 69 plant species. There was no relationship between plant consumption and either fruit availability or feeding tree density; the most frequently consumed plant species were found in riverine forests, with woodland species consumed more frequently during the late dry season. We conclude by contextualising these findings with those of other open-habitat chimpanzee sites, and also by discussing how our results contribute towards reconstructions of early hominin exploitation of mosaic landscapes.

Discrimination factors of carbon and nitrogen stable isotopes in meerkat feces

Stable isotope analysis of feces can provide a non-invasive method for tracking the dietary habits of nearly any mammalian species. While fecal samples are often collected for macroscopic and genetic study, stable isotope analysis can also be applied to expand the knowledge of species-specific dietary ecology. It is somewhat unclear how digestion changes the isotope ratios of animals' diets, so more controlled diet studies are needed. To date, most diet-to-feces controlled stable isotope experiments have been performed on herbivores, so in this study I analyzed the carbon and nitrogen stable isotope ratios in the diet and feces of the meerkat (Suricata suricatta), a small omnivorous mammal. The carbon trophic discrimination factor between diet and feces (Δ¹³C_feces) is calculated to be 0.1 ± 1.5‰, which is not significantly different from zero, and in turn, not different than the dietary input. On the other hand, the nitrogen trophic discrimination factor (Δ¹⁵N_feces) is 1.5 ± 1.1‰, which is significantly different from zero, meaning it is different than the average dietary input. Based on data generated in this experiment and a review of the published literature, carbon isotopes of feces characterize diet, while nitrogen isotope ratios of feces are consistently higher than dietary inputs, meaning a discrimination factor needs to be taken into account. The carbon and nitrogen stable isotope values of feces are an excellent snapshot of diet that can be used in concert with other analytical methods to better understand ecology, diets, and habitat use of mammals.

Non-dietary analytical features of chimpanzee scats

Non-dietary aspects of ape scats such as scat weight and diameter are correlated with age and sex of defaecator for gorillas and orangutans. Defaecation rates of primates, including apes, illuminate their role as primary seed dispersers. We assess if non-dietary features of scats for East African chimpanzees (Pan troglodytes schweinfurthii) reveal such insights for members of the Kanyawara community in Kibale National Park, Uganda. Our objective is to see if such data yield useful perspectives for future census work on unhabituated chimpanzees, that is, what can scats tell us about a wild study population, beyond diet? We followed ten adults from this community, as well as travelling parties, comparing observed vs. unobserved defaecations, and collected data on scat weight and dimensions, defaecation rate, scat encounter rate, and interval between defaecations. Few non-dietary features of chimpanzee scats significantly differentiated sex or age of the defaecator, but total scat length and height distinguished adults from juveniles/infants. Defaecation rates and distance travelled were similar for adult males and females, indicating the importance of both sexes as potential primary seed dispersers. Observed travelling parties vs. non-observed travelling parties yielded similar data, indicating the potential to assess party size from scat encounter rates over a set distance. We provide detailed measurements of scat dimensions for this ape taxon which previously have been lacking. This research builds upon prior work by recording more in-depth data for focal subjects and travelling parties on defaecation and scat encounter rates. The findings presented should assist in the interpretation of scat data when censusing unhabituated chimpanzees.

Isotopic ecology of coyotes from scat and road kill carcasses: A complementary approach to feeding experiments

Scat is frequently used to study animal diets because it is easy to find and collect, but one concern is that gross fecal analysis (GFA) techniques exaggerate the importance of small-bodied prey to mammalian mesopredator diets. To capitalize on the benefits of scat, we suggest the analysis of scat carbon and nitrogen isotope values (δ¹³C and δ¹⁵N). This technique offers researchers a non-invasive method to gather short-term dietary information. We conducted three interrelated studies to validate the use of isotopic values from coyote scat: 1) we determined tissue-to-tissue apparent C and N isotope enrichment factors (ε¹³* and ε¹⁵*) for coyotes from road kill animals (n = 4); 2) we derived diet-to-scat isotope discrimination factors for coyotes; and 3) we used field collected coyote scats (n = 12) to compare estimates of coyote dietary proportions from stable isotope mixing models with estimates from two GFA techniques. Scat consistently had the lowest δ¹³C and δ¹⁵N values among the tissues sampled. We derived a diet-to-scat Δ¹³C value of -1.5‰ ± 1.6‰ and Δ¹⁵N value of 2.3‰ ± 1.3‰ for coyotes. Coyote scat δ¹³C and δ¹⁵N values adjusted for discrimination consistently plot within the isotopic mixing space created by known dietary items. In comparison with GFA results, we found that mixing model estimates of coyote dietary proportions de-emphasize the importance of small-bodied prey. Coyote scat δ¹³C and δ¹⁵N values therefore offer a relatively quick and non-invasive way to gain accurate dietary information.

Carbon and nitrogen stable isotopic offsets between diet and hair/feces in captive chimpanzees

RATIONALE

Estimation of the stable isotopic offsets between tissue and diet is important for dietary reconstructions. Although stable isotopic studies of chimpanzees (Pan troglodytes) are increasing, the isotopic offsets in chimpanzees have never been studied. In this study, the carbon and nitrogen stable isotopic offset values in hair and feces were measured for 13 captive chimpanzees for the first time.

METHODS

All consumed food items and quantities were recorded for each individual for 1 week. Food samples were typically collected three times, hair was collected 3 weeks after the experimental week, and feces were collected ad libitum during the experimental week. The stable carbon and nitrogen isotope ratios were measured using elemental analyzer-isotope ratio mass spectrometry (EA-IRMS).

RESULTS

As the results of Monte Carlo analysis, the estimated carbon and nitrogen offsets between the hair and diet were +3.0 to +3.9‰ and +2.8 to +3.7‰, respectively, for the 95% confidence intervals (CIs). The 95% CIs of the carbon and nitrogen offset values between the feces and diet were -1.6 to 0.0‰ and +1.2 to +2.7‰, respectively.

CONCLUSIONS

These offset values are generally consistent with those of the other primate species reported in previous studies. However, potential variations in the offset values due to dietary and physiological factors should be studied in detail in the future. Copyright © 2016 John Wiley & Sons, Ltd.

A novel fecal stable isotope approach to determine the timing of age-related feeding transitions in wild infant chimpanzees

OBJECTIVES

Determining nutritional development in wild primates is difficult through observations because confirming dietary intake is challenging. Physiological measures are needed to determine the relative contributions of maternal milk and other foods at different ages, and time of weaning. We used fecal stable carbon and nitrogen isotopes (δ¹³ C, δ¹⁵ N) and fecal nitrogen concentrations (%N) from wild chimpanzees at Ngogo, Uganda, to derive physiological dietary indicators during the transition from total reliance on maternal milk to adult foods after weaning.

MATERIALS AND METHODS

We analyzed 560 fecal samples collected non-invasively from 48 infants, their mothers, and 6 juvenile siblings. Most infant and juvenile samples (90%) were matched to samples collected from mothers on the same day. Isotopic assessments were compared with observations of nursing and feeding.

RESULTS

Infants ≤1 year old showed average δ¹⁵ N, δ¹³ C and %N ratios that were 2.0‰, 0.8‰ and 1.3% greater than their mothers, respectively, interpreted as trophic level effects. Although data collected on newborns were few, results suggest that solid foods were consumed within 2-5 months after birth. Trophic level differences decreased steadily after 1 year, which indicates a decreasing relative contribution of milk to the diet. Isotopic results indicated infants were weaned by 4.5 years old-more than a year earlier than observations of nipple contacts ceased, which revealed the occurrence of "comfort nursing." Juvenile isotopic signatures indicate no nursing overlap between siblings.

DISCUSSION

Our results resemble the stable isotope differences of human babies. This study contributes to a model of chimpanzee nutritional development required to understand early life history patterns in hominins.

Comparative isotope ecology of African great apes

The isotope ecology of great apes is a useful reference for palaeodietary reconstructions in fossil hominins. As extant apes live in C₃-dominated habitats, variation in isotope signatures is assumed to be low compared to hominoids exploiting C₄-plant resources. However, isotopic differences between sites and between and within individuals are poorly understood due to the lack of vegetation baseline data. In this comparative study, we included all species of free-ranging African great apes (Pan troglodytes, Pan paniscus, Gorilla sp.). First, we explore differences in isotope baselines across different habitats and whether isotopic signatures in apes can be related to feeding niches (faunivory and folivory). Secondly, we illustrate how stable isotopic variations within African ape populations compare to other extant and extinct primates and discuss possible implications for dietary flexibility. Using 701 carbon and nitrogen isotope data points resulting from 148 sectioned hair samples and an additional collection of 189 fruit samples, we compare six different great ape sites. We investigate the relationship between vegetation baselines and climatic variables, and subsequently correct great ape isotope data to a standardized plant baseline from the respective sites. We obtained temporal isotopic profiles of individual animals by sectioning hair along its growth trajectory. Isotopic signatures of great apes differed between sites, mainly as vegetation isotope baselines were correlated with site-specific climatic conditions. We show that controlling for plant isotopic characteristics at a given site is essential for faunal data interpretation. While accounting for plant baseline effects, we found distinct isotopic profiles for each great ape population. Based on evidence from habituated groups and sympatric great ape species, these differences could possibly be related to faunivory and folivory. Dietary flexibility in apes varied, but temporal variation was overall lower than in fossil hominins and extant baboons, shifting from C₃ to C₄-resources, providing new perspectives on comparisons between extinct and extant primates.

The Steady State Great Ape? Long Term Isotopic Records Reveal the Effects of Season, Social Rank and Reproductive Status on Bonobo Feeding Behavior

Dietary ecology of extant great apes is known to respond to environmental conditions such as climate and food availability, but also to vary depending on social status and life history characteristics. Bonobos (Pan paniscus) live under comparatively steady ecological conditions in the evergreen rainforests of the Congo Basin. Bonobos are an ideal species for investigating influences of sociodemographic and physiological factors, such as female reproductive status, on diet. We investigate the long term dietary pattern in wild but fully habituated bonobos by stable isotope analysis in hair and integrating a variety of long-term sociodemographic information obtained through observations. We analyzed carbon and nitrogen stable isotopes in 432 hair sections obtained from 101 non-invasively collected hair samples. These samples represented the dietary behavior of 23 adult bonobos from 2008 through 2010. By including isotope and crude protein data from plants we could establish an isotope baseline and interpret the results of several general linear mixed models using the predictors climate, sex, social rank, reproductive state of females, adult age and age of infants. We found that low canopy foliage is a useful isotopic tracer for tropical rainforest settings, and consumption of terrestrial herbs best explains the temporal isotope patterns we found in carbon isotope values of bonobo hair. Only the diet of male bonobos was affected by social rank, with lower nitrogen isotope values in low-ranking young males. Female isotope values mainly differed between different stages of reproduction (cycling, pregnancy, lactation). These isotopic differences appear to be related to changes in dietary preference during pregnancy (high protein diet) and lactation (high energy diet), which allow to compensate for different nutritional needs during maternal investment.

Hippopotamus (H. amphibius) diet change indicates herbaceous plant encroachment following megaherbivore population collapse

Megaherbivores (>1000 kg) are critical for ecosystem health and function, but face population collapse and extinction globally. The future of these megaherbivore-impoverished ecosystems is difficult to predict, though many studies have demonstrated increasing representation of C3 woody plants. These studies rely on direct observational data, however, and tools for assessing decadal-scale changes in African ecology without observation are lacking. We use isotopic records of historical common hippopotamus (Hippopotamus amphibius) canines to quantify herbaceous vegetation change in Queen Elizabeth National Park, Uganda following a period of civil unrest and poaching. This poaching event led to population collapse of two threatened African megaherbivore species: hippopotamus and African elephants (Loxodonta africana). Serial carbon isotope ratios (δ(13)C) in canine enamel from individuals that lived between 1960-2000 indicated substantial increases in C3 herbaceous plants in their diet (<20% C3 in the 1960s to 30-45% C3 in the 80s and 90s), supported by other observational and ecological data. These data indicate megaherbivore loss results in succession of both woody and herbaceous C3 vegetation and further reaching effects, such as decreased grazing capacity and herbivore biodiversity in the area. Given multiple lines of evidence, these individuals appear to accurately capture herbaceous vegetation change in Mweya.

Implications of lemuriform extinctions for the Malagasy flora

Madagascar's lemurs display a diverse array of feeding strategies with complex relationships to seed dispersal mechanisms in Malagasy plants. Although these relationships have been explored previously on a case-by-case basis, we present here the first comprehensive analysis of lemuriform feeding, to our knowledge, and its hypothesized effects on seed dispersal and the long-term survival of Malagasy plant lineages. We used a molecular phylogenetic framework to examine the mode and tempo of diet evolution, and to quantify the associated morphological space occupied by Madagascar's lemurs, both extinct and extant. Using statistical models and morphometric analyses, we demonstrate that the extinction of large-bodied lemurs resulted in a significant reduction in functional morphological space associated with seed dispersal ability. These reductions carry potentially far-reaching consequences for Malagasy ecosystems, and we highlight large-seeded Malagasy plants that appear to be without extant animal dispersers. We also identify living lemurs that are endangered yet occupy unique and essential dispersal niches defined by our morphometric analyses.

Isotopic reconstructions of habitat change surrounding the extinction of Oreopithecus, the last European ape

OBJECTIVE

Oreopithecus bambolii was the last hominoid to survive in Europe. The purpose of this investigation was to reconstruct, through stable isotope analyses, Oreopithecus' habitat, subsistence behavior, and changes in habitat that may have led to its extinction.

METHODS

Carbon and oxygen stable isotopes from inorganic carbonate in tooth enamel from Oreopithecus and its contemporaneous faunas from localities in Tuscany and Sardinia were sampled. Also the fauna from localities in Tuscany shortly after Oreopithecus went extinct were sampled.

RESULTS

Results indicated that Oreopithecus, compared with most modern hominoids, inhabited forests that probably had a more open canopy. At Tuscan localities, Oreopithecus yields some of the highest carbon isotope values but some of the lowest oxygen, suggesting a diet that may have included tubers or aquatic vegetation. Relatively higher oxygen values in Sardinia suggested that its diet included arboreal foods as well. Among modern and fossil hominoids, Oreopithecus only resembled chimpanzees living outside of rainforests. It also resembled Ardipithecus in carbon isotope values, suggesting possible similarities in feeding strategies concordant with shared skeletal features between Oreopithecus and early hominins. Isotope values from post-Oreopithecus faunas indicated a shift to more forested conditions, unlike other hominoid extinctions associated with loss of forest.

CONCLUSIONS

Isotopic reconstructions of Oreopithecus' habitat and changes associated with its extinction indicated that its paleoecology was unique among hominoids. However, these reconstructions also suggested that like other hominoids, Oreopithecus was susceptible to changes in seasonality of precipitation, and it may have used wetlands as a buffer to seasonal regimes. Am J Phys Anthropol 160:254-271, 2016. © 2016 Wiley Periodicals, Inc.

Variation in carbon isotope values among chimpanzee foods at Ngogo, Kibale National Park and Bwindi Impenetrable National Park, Uganda

Stable isotope values in primate tissues can be used to reconstruct diet in the absence of direct observation. However, in order to make dietary inferences, one must first establish isotopic variability for potential food sources. In this study we examine stable carbon isotope (δ(13) C) values for chimpanzee (Pan troglodytes) food resources from two Ugandan forests: Ngogo (Kibale National Park), and Bwindi Impenetrable National Park. Mean δ(13) C values for plant samples are equivalent at both sites. Plant δ(13) C values are best explained by a multivariate linear model including plant part (leaves, pith, flowers, and fruit), vertical position within the canopy (canopy vs. ground), and taxon (R(2)  = 0.6992). At both sites, leaves had the lowest δ(13) C values followed by pith and fruit. Canopy resources have comparable δ(13) C values at the two sites but ground resources have lower δ(13) C values at Ngogo than Bwindi (-30.7 vs. -28.6‰). Consequently, isotopic differences between ground and canopy resources (4.2 vs. 2.2‰), and among plant parts are more pronounced at Ngogo. These results demonstrate that underlying environmental differences between sites can produce variable δ(13) C signatures among primate food resources. In the absence of observation data or isotope values for local vegetation, caution must be taken when interpreting isotopic differences among geographically or temporally separated populations or species. Am. J. Primatol. 78:1031-1040, 2016. © 2016 Wiley Periodicals, Inc.

Advances in primate stable isotope ecology-Achievements and future prospects

Stable isotope biogeochemistry has been used to investigate foraging ecology in non-human primates for nearly 30 years. Whereas early studies focused on diet, more recently, isotopic analysis has been used to address a diversity of ecological questions ranging from niche partitioning to nutritional status to variability in life history traits. With this increasing array of applications, stable isotope analysis stands to make major contributions to our understanding of primate behavior and biology. Most notably, isotopic data provide novel insights into primate feeding behaviors that may not otherwise be detectable. This special issue brings together some of the recent advances in this relatively new field. In this introduction to the special issue, we review the state of isotopic applications in primatology and its origins and describe some developing methodological issues, including techniques for analyzing different tissue types, statistical approaches, and isotopic baselines. We then discuss the future directions we envision for the field of primate isotope ecology. Am. J. Primatol. 78:995-1003, 2016. © 2015 Wiley Periodicals, Inc.

Who is who matters-The effects of pseudoreplication in stable isotope analyses

Stable isotope analysis in free-ranging primates is a promising new avenue in reconstructing feeding niches and temporal dietary variation. Particularly, the large sample sizes obtained from non-invasively collected hair and fecal samples from nests of great apes offer great potential. However, analyzing repeated observations of the same individuals without controlling for potential differences among them means to "pseudoreplicate" and can lead to a greatly inflated probability of erroneous significance. We here test the effects of pseudoreplication in stable isotope data of great ape hair by means of simulations. We show that pseudoreplication can severely affect the probability of erroneous significance as well as non-significance. We suggest several strategies to avoid pseudoreplication in primate isotope ecology. First, if applicable, information on individual identity should be included in statistical analyses. Second, if samples derive from unhabituated animals, sampling at far apart locations or territories should avoid resampling of the same animal. In great apes, sampling of independent nests within nest groups can ensure that each sample derives from a different individual. Third, we encourage the combination of genetic surveys with sampling for isotope analyses to ensure the (genetic) identification of individuals. Am. J. Primatol. 78:1017-1030, 2016. © 2015 Wiley Periodicals, Inc.

Stable isotopic variation in tropical forest plants for applications in primatology

Stable isotope analysis is a promising tool for investigating primate ecology although nuanced ecological applications remain challenging, in part due to the complex nature of isotopic variability in plant-animal systems. The aim of this study is to investigate sources of carbon and nitrogen isotopic variation at the base of primate food webs that reflect aspects of primate ecology. The majority of primates inhabit tropical forest ecosystems, which are dominated by C3 vegetation. We used stable isotope ratios in plants from Kibale National Park, Uganda, a well-studied closed-canopy tropical forest, to investigate sources of isotopic variation among C3 plants related to canopy stratification, leaf age, and plant part. Unpredictably, our results demonstrate that vertical stratification within the canopy does not explain carbon or nitrogen isotopic variation in leaves. Leaf age can be a significant source of isotopic variation, although the direction and magnitude of this difference is not consistent across tree species. Some plant parts are clearly differentiated in carbon and nitrogen isotopic composition, particularly leaves compared to non-photosynthetic parts such as reproductive parts and woody stem parts. Overall, variation in the isotopic composition of floral communities, plant species, and plant parts demonstrates that stable isotope studies must include analysis of local plant species and parts consumed by the primates under study from within the study area. Am. J. Primatol. 78:1041-1054, 2016. © 2015 Wiley Periodicals, Inc.

Quantifying seasonal fallback on invertebrates, pith, and bromeliad leaves by white-faced capuchin monkeys (Cebus capucinus) in a tropical dry forest

OBJECTIVES

Fallback foods (FBFs) are hypothesized to shape the ecology, morphology, and behavior of primates, including hominins. Identifying FBFs is therefore critical for revealing past and present foraging adaptations. Recent research suggests invertebrates act as seasonal FBFs for many primate species and human populations. Yet, studies measuring the consumption of invertebrates relative to ecological variation are widely lacking. We address this gap by examining food abundance and entomophagy by primates in a seasonal forest.

MATERIALS AND METHODS

We study foraging behavior of white-faced capuchins (Cebus capucinus)-a species renowned for its intelligence and propensity for extractive foraging-along with the abundance of invertebrates, dietary ripe fruits, pith, and bromeliads. Consumption events and processing time are recorded during focal animal samples. We determine abundance of vegetative foods through phenological and density records. Invertebrates are collected in malaise, pan, and terrestrial traps; caterpillar abundance is inferred from frass traps.

RESULTS

Invertebrates are abundant throughout the year and capuchins consume invertebrates-including caterpillars-frequently when fruit is abundant. However, capuchins spend significantly more time processing protected invertebrates when fruit and caterpillars are low in abundance.

DISCUSSION

Invertebrate foraging patterns are not uniform. Caterpillar consumption is consistent with a preferred strategy, whereas capuchins appear to fallback on invertebrates requiring high handling time. Capuchins are convergent with hominins in possessing large brains and high levels of sensorimotor intelligence, thus our research has broad implications for primate evolution, including factors shaping cognitive innovations, brain size, and the role of entomophagy in the human diet.

Seasonal variation in stable carbon and nitrogen isotope values of bats reflect environmental baselines

The stable carbon and nitrogen isotope composition of animal tissues is commonly used to trace wildlife diets and analyze food chains. Changes in an animal's isotopic values over time are generally assumed to indicate diet shifts or, less frequently, physiological changes. Although plant isotopic values are known to correlate with climatic seasonality, only a few studies restricted to aquatic environments have investigated whether temporal isotopic variation in consumers may also reflect environmental baselines through trophic propagation. We modeled the monthly variation in carbon and nitrogen isotope values in whole blood of four insectivorous bat species occupying different foraging niches in southern Spain. We found a common pattern of isotopic variation independent of feeding habits, with an overall change as large as or larger than one trophic step. Physiological changes related to reproduction or to fat deposition prior to hibernation had no effect on isotopic variation, but juvenile bats had higher δ13C and δ15N values than adults. Aridity was the factor that best explained isotopic variation: bat blood became enriched in both 13C and 15N after hotter and/or drier periods. Our study is the first to show that consumers in terrestrial ecosystems reflect seasonal environmental dynamics in their isotope values. We highlight the danger of misinterpreting stable isotope data when not accounting for seasonal isotopic baselines in food web studies. Understanding how environmental seasonality is integrated in animals' isotope values will be crucial for developing reliable methods to use stable isotopes as dietary tracers.

Stable Isotope Analyses and the Evolution of Human Diets

Stable isotope analysis of carbon and nitrogen has revolutionized anthropology's approach and understanding of the evolution of human diet. A baseline comparison across extant nonhuman primates reveals that they all depend on C3 plants in forests, forest patches, and woodlands except during rare seasonal intake, in marginal regions, or where maize fields exist. Even large-bodied hominoids that could theoretically rely on hard-to-digest C4 plants do not do so. Some Plio-Pleistocene hominins, however, apparently relied heavily on C4 and/or CAM plants, which suggests that they relied extensively on cecal-colon microbial fermentation. Neanderthals seem less carnivorous than is often assumed when we compare their δ15Nbone collagen values with those of recent human populations, including recent human foragers who also fall at or near the top of their local trophic system. Finally, the introduction of maize into North America is shown to have been more sporadic and temporally variable than previously assumed.

Chimpanzee isotopic ecology: a closed canopy C3 template for hominin dietary reconstruction

The most significant hominin adaptations, including features used to distinguish and/or classify taxa, are critically tied to the dietary environment. Stable isotopic analyses of tooth enamel from hominin fossils have provided intriguing evidence for significant C4/CAM (crassulacean acid metabolism) resource consumption in a number of Plio-Pleistocene hominin taxa. Relating isotopic tooth signatures to specific dietary items or proportions of C3 versus C4/CAM plants, however, remains difficult as there is an ongoing need to document and quantify isotopic variability in modern ecosystems. This study investigates the ecological variables responsible for carbon isotopic discrimination and variability within the C3-dominated dietary niche of a closed canopy East African hominoid, Pan troglodytes, from Ngogo, Kibale National Park, Uganda. δ(13)C values among C3 resources utilized by Ngogo chimpanzees were highly variable, ranging over 13‰. Infrequent foraging on papyrus (the only C4 plant consumed by chimpanzees at the site) further extended this isotopic range. Variation was ultimately most attributable to mode of photosynthesis (C3 versus C4), food type, and elevation, which together accounted for approximately 78% of the total sample variation. Among C3 food types, bulk carbon values ranged from -24.2‰ to -31.1‰ with intra-plant variability up to 12.1‰. Pith and sapling leaves were statistically more (13)C depleted than pulp, seeds, flowers, cambium, roots, leaf buds, and leaves from mature trees. The effect of elevation on carbon variation was highly significant and equivalent to an approximately 1‰ increase in δ(13)C for every 150 m of elevation gain, likely reflecting habitat variability associated with topography. These results indicate significant δ(13)C variation attributable to food type and elevation among C3 resources and provide important data for hominin dietary interpretations based on carbon isotopic analyses.