Low coverage sequencing of two Asian elephant (Elephas maximus) genomes.

The biotechnological potential for manipulating offspring sex in the rhinoceros and the elephant

Elephants are endangered species and threatened with extinction. They are monogastric herbivorous, hindgut fermenters and their digestive strategy requires them to consume large amounts of low quality forage. The gut microbiome is important to their metabolism, immune regulation, and ecological adaptation. Our study investigated the structure and function of the gut microbiota as well as the antibiotic resistance genes (ARGs) in captive African and Asian elephants on the same diet. Results showed that captive African and Asian elephants had distinct gut bacterial composition. MetaStats analysis showed that the relative abundance of Spirochaetes (FDR = 0.00) and Verrucomicrobia (FDR = 0.01) at the phylum level as well as Spirochaetaceae (FDR = 0.01) and Akkermansiaceae (FDR = 0.02) at the family level varied between captive African and Asian elephants. Among the top ten functional subcategories at level 2 (57 seed pathway) of Kyoto Encyclopedia of Genes and Genomes (KEGG) database, the relative gene abundance of cellular community-prokaryotes, membrane transport, and carbohydrate metabolism in African elephants were significantly lower than those in Asian elephants (0.98 vs. 1.03%, FDR = 0.04; 1.25 vs. 1.43%, FDR = 0.03; 3.39 vs. 3.63%; FDR = 0.02). Among the top ten functional subcategories at level 2 (CAZy family) of CAZy database, MetaStats analysis showed that African elephants had higher relative gene abundance of Glycoside Hydrolases family 28 (GH 28) compared to Asian elephants (0.10 vs. 0.08%, FDR = 0.03). Regarding the antibiotic resistance genes carried by gut microbes, MetaStats analysis showed that African elephants had significantly higher relative abundance of vanO (FDR = 0.00), tetQ (FDR = 0.04), and efrA (FDR = 0.04) than Asian elephants encoding resistance for glycopeptide, tetracycline, and macrolide/rifamycin/fluoroquinolone antibiotic, respectively. In conclusion, captive African and Asian elephants on the same diet have distinct gut microbial communities. Our findings established the ground work for future research on improving gut health of captive elephants.

A variant of the endotheliotropic herpesvirus in Asian elephants ( Elephas maximus) in European zoos

It has generally been assumed since the 1950s that the African elephant known to classical antiquity, and thus the one used, inter alia, by Carthage and Ptolemaic Egypt, is the forest elephant (Loxodonta cyclotis), which is even smaller in stature than the Asian or Indian elephant. Yet a recent scientific study using DNA evidence has asserted that it was the larger bush or savannah elephant (Loxodonta africana) that was used in antiquity. This study adduces literary sources pertaining to habitat and representational evidence to explore the issue of the most likely species of African elephant known to the ancient Mediterranean world.

Obesity is a common problem in captive elephants. Therefore, physical state monitoring presents a critical aspect in preventive elephant healthcare. Some institutions lack the equipment to weigh elephants regularly, so body condition scoring (BCS) is a valuable alternative tool. As yet, the BCS of both elephant species has not been assessed comprehensively for the European population. Using a previously validated visual BCS protocol, we assessed 192 African (Loxodonta africana) and 326 Asian elephants (Elephas maximus) living in European zoos (97% of the living European elephant population). The majority of elephants were in the upper score categories with 56% of adults assessed in the range 7-10 out of 10. Adult Asian elephants had significantly lower BCS (males: mean 6.2 ± 1.0, median 6.0, range 4-8; females: mean 6.6 ± 1.3, median 6.0, range 3-9) than African elephants (males: mean 6.7 ± 0.7, median 6.0, range 6-8; females: mean 6.9 ± 1.2, median 6.0, range 1-9). Comparison with samples of free-ranging populations (163 Asian elephants and 121 African elephants) revealed significantly lower scores in free-ranging elephants independent of species, age and sex category. Compared to previous reports from captive populations, the European zoo elephant population is nevertheless less obese. In adult Asian elephant females, BCS was significantly correlated to their breeding status with lower scores in current breeders; however, breeding status was also correlated to group size, enclosure size, and a diet with less vegetables. Further attention to zoo elephant weight management is recommended with regular longitudinal monitoring by body condition scoring.

Simple SummaryBoth Asian and African elephants are endangered, and conservation efforts aim to minimize negative impacts to each species, while increasing their population sizes. Understanding factors that impact reproduction are important for conservation. Tumors can negatively impact reproductive success, particularly when they are located in the reproductive system. This article reviews the prevalence of reproductive tumors in elephants and other mammals. The impact of human tumors and treatment options are also reviewed as a comparative approach to consider potential treatment approaches for elephants diagnosed with reproductive tumors. Future studies are needed to understand the impact of these tumors on elephant conservation and to establish fertility preserving treatments.Reproductive tumors can impact conception, pregnancy, and birth in mammals. These impacts are well documented in humans, while data in other mammals are limited. An urgent need exists to understand the reproductive impact of these lesions in endangered species, because some endangered species have a documented high prevalence of reproductive tumors. This article documents that the prevalence of both benign and malignant neoplasia differs between African and Asian elephants, with Asian elephants more frequently diagnosed and negatively affected by both. The prevalence of these tumors across mammalian species is compared, and impact plus treatment options in human medicine are reviewed to inform decision making in elephants. Evidence suggests that reproductive tumors can negatively impact elephant conservation. Future studies that document reproductive outcomes, including the success of various treatment approaches in elephants with tumors will benefit conservation efforts.

The ovary of female elephants has multiple corpora lutea (CL) during the estrous cycle and gestation. The previous reports clearly demonstrated that inhibin was secreted from lutein cells as well as granulosa cells of antral follicles in cyclic Asian elephants. The aim of this study is to investigate the inhibin secretion during the pregnancy in African and Asian elephants. Two African elephants and two Asian elephants were subjected to this study. Circulating levels of immunoreactive (ir-) inhibin and progesterone were measured by radioimmunoassay. Four pregnant periods of an African elephant and three pregnant periods of an Asian elephant were analyzed in this study. Circulating levels of ir-inhibin started to increase at 1 or 2 week before the ovulation and reached the peak level 3 or 4 weeks earlier than progesterone during the estrous cycle in both African and Asian elephants. After last luteal phase, the serum levels of ir-inhibin remained low throughout pregnancy in both an African and an Asian elephant. The mean levels of ir-inhibin during the pregnancy were lower than the luteal phase in the estrous cycle despite high progesterone levels were maintained throughout the pregnancy. These results strongly suggest that CL secrete a large amount of progesterone but not inhibin during the pregnancy in elephants.

Surveys are being conducted to monitor the reproductive health of elephants managed by the TAG/SSP. This study summarizes results of a 2005 survey and compares data to one conducted in 2002. Surveys were returned for 100% and 79.0% of Asian and African elephants, respectively. Of those, 79.3% of Asian and 92.1% of African elephants had weekly progestagen data to assess ovarian cyclicity. For Asian elephants, acyclicity rates were similar between the 2002 and 2005 surveys (13.3% versus 10.9%), whereas irregular cycling increased in 2005 (2.6% versus 7.6%), respectively. For African elephants, the percentages of both acyclicity (22.0% versus 31.2%) and irregular cycling females (5.2% versus 11.8%) increased. In both species, ovarian inactivity was more prevalent in the older age categories (>30 years of age), but for African elephants also occurred in the reproductive aged groups. Reproductive tract pathologies did not account for the majority of acyclicity problems. Several females changed cyclicity status between the two surveys, including from noncycling to cycling, suggesting this is not an irreversible condition. However, seven African females went from cycling to abnormal or no cyclic activity. In summary, the incidence of ovarian acyclicity in Asian elephants is low and stable, but appears to be increasing in African females. These findings reinforce the need for long-term reproductive monitoring programs and continuous reproductive surveys, even for females not being considered for breeding. With more data we hope to determine what factors are related to changes in ovarian status and how to reverse the trend towards acyclicity.

Fecal hormone analysis has become a powerful noninvasive tool for the study of animal endocrine status and stress physiology (Graham and Brown 1997; Wasser et al. 1997a; Whitten et al. 1998; Goymann et al. 1999; Mostl et al. 1999; Foley et al. 2001; Creel et al. 2002; Lynch et al. 2002; Morrow et al. 2002). Variation in field and storage conditions makes it essential to know whether fecal steroid concentrations change with the method and duration of sample storage. Lyophilization (freeze-drying) with subsequent storage at or below 20 C is generally regarded as the most reliable method of long-term fecal hormone preservation (e.g., Wasser et al. 1988; Terio et al. 2002). However, lyophilizers are not widely available, and therefore investigators have turned to a variety of other fecal storage methods, including freezing at 20 C, preservation in ethanol, and/or drying the feces with silica, ovens, solar radiation, fires, or other drying methods (Wasser et al. 1988; Whitten et al. 1998; Foley et al. 2001; Tecot 2001). Yet, some of these preservation methods may result in significant changes in immunoreactive hormone concentrations, varying with the preservation method, species, and hormone. In this article, we report effects of several commonly used fecal preservation methods on immunoreactive glucocorticoid concentrations in feces of two species, African elephant (Loxodonta africana) and grizzly bear (Ursus arctos horribilis), over a 2-yr period. Five different preservation methods were chosen for comparison: no preservative, oven-drying at 45 C, silicadrying, 90% ethanol, and lyophilization, each with subsequent storage either at room temperature or in a 20 C freezer. Con-

Trade in ivory from extant elephant species namely Asian elephant (Elephas maximus), African savanna elephant (Loxodonta africana) and African forest elephant (Loxodonta cyclotis) is regulated internationally, while the trade in ivory from extinct species of Elephantidae, including woolly mammoth, is unregulated. This distinction creates opportunity for laundering and trading elephant ivory as mammoth ivory. The existing morphological and molecular genetics methods do not reliably distinguish the source of ivory items that lack clear identification characteristics or for which the quality of extracted DNA cannot support amplification of large gene fragments. We present a PCR-sequencing method based on 116 bp target sequence of the cytochrome b gene to specifically amplify elephantid DNA while simultaneously excluding non-elephantid species and ivory substitutes, and while avoiding contamination by human DNA. The partial Cytochrome b gene sequence enabled accurate association of ivory samples with their species of origin for all three extant elephants and from mammoth. The detection limit of the PCR system was as low as 10 copy numbers of target DNA. The amplification and sequencing success reached 96.7% for woolly mammoth ivory and 100% for African savanna elephant and African forest elephant ivory. This is the first validated method for distinguishing elephant from mammoth ivory and it provides forensic support for investigation of ivory laundering cases.

Wildlife Department of Sabah, Kota Kinabalu, Sabah, MalaysiaStudy on the interaction between elephants and plantshad been conducted in Africa (Laws 1970; Wing andBuss 1970) and South Asia (Mueller-Dombois 1972;Sukumar 1989). Loxodonta africana, caused seriousdamage to trees, particularly to the Acacia spp., Baobab(Adansonia digitata), and Marula (Sclerocarya birrea)(Buechner and Dawkins 1961; Weyerhaeuser 1985;Ruess and Halter 1990; Barnes et al. 1994; Tchamba1995; Gadd 2002), while Loxodonta cyclotis has beenassumed to contribute to the complexity of the forest byspreading seed and maintaining open areas (Short 1981).However other studies in South Asia have shown thatElephas maximus did not cause serious damage to trees.Only a few literatures have been published in SoutheastAsia (Khan 1977). Macaranga (Euphorbiaceae) is agenus of approximately 280 species, distributed fromWest Africa to the south Pacific islands, with the centerof diversity in New Guinea and Borneo (Whitmore1969). Although Macaranga was listed as one of thefoods of the Asian elephant (Elephas maximus) in theMalay Peninsula (Khan 1977), little is known about thedamage they cause on the trees. The Elephas maximusis one of the largest populations of Asian elephants inBorneo (Payne and Andau 1991). To understand utili-zation of Macaranga trees by the Asian elephant, weinvestigated their foraging behavior in DeramakotForest Reserve, Sabah, Borneo.

This report discusses three areas of investigation: (1) The chemical components in the temporal gland secretion (TGS) of Asian (Elephas maximus) and African (Loxodonta africana) elephants were characterized by radioimmunoassay (RIA) for testosterone (T) and dihydrotestosterone (DHT) levels and by on-column capillary column gas chromatographic analysis of volatiles. An inverse relationship between TGS testosterone levels and (E)-farnesol levels was observed. (2). African elephants responded preferentially toward a particular constituent of African elephant TGS. (3) Urine from Asian bull elephants in musth was partially fractionated by high-performance liquid chromatography. Specific chromatographic regions elicited dramatic avoidance responses from female African elephants. These results support the suggestion that the TGS plays multiple chemocommunicative roles.

It is of great importance that zoos provide animals with enclosure space and enrichment to replicate their natural existence. The aim of this study was to examine and calculate the total distance travelled and utilisation of enclosure space by the Asian elephants housed at the Royal Melbourne Zoological Gardens (Melbourne Zoo), Victoria, Australia. The distance travelled was calculated via video analysis, using a grid overlay system to manually track an adult bull and four adult cow elephants between 0600 and midnight. The mean daily distance travelled over the 18-hour active period was 9.05±0.61 km, with an individual range of 6.21–15.00 km. In comparison, when living in non-extreme environmental conditions, wild Asian and African elephants have been estimated to travel an average of 5–10 km each day, demonstrating that Melbourne Zoo’s elephants travel at the top end of their wild counterparts’ range of daily travel distances. The techniques used in the present study allow for the approximate calculation of distance travelled by urban zoo elephants, and could potentially be applied to a range of species kept in captivity. Being able to measure distance travelled could be a very useful tool in furthering welfare considerations and management in a captive environment.

Spatial patterns of relatedness within animal populations are important in the evolution of mating and social systems, and have the potential to reveal information on species that are difficult to observe in the wild. This study examines the fine-scale genetic structure and connectivity of groups within African forest elephants, Loxodonta cyclotis, which are often difficult to observe due to forest habitat. We tested the hypothesis that genetic similarity will decline with increasing geographic distance, as we expect kin to be in closer proximity, using spatial autocorrelation analyses and Tau Kr tests. Associations between individuals were investigated through a non-invasive genetic capture-recapture approach using network models, and were predicted to be more extensive than the small groups found in observational studies, similar to fission-fusion sociality found in African savanna (Loxodonta africana) and Asian (Elephas maximus) species. Dung samples were collected in Lopé National Park, Gabon in 2008 and 2010 and genotyped at 10 microsatellite loci, genetically sexed, and sequenced at the mitochondrial DNA control region. We conducted analyses on samples collected at three different temporal scales: a day, within six-day sampling sessions, and within each year. Spatial autocorrelation and Tau Kr tests revealed genetic structure, but results were weak and inconsistent between sampling sessions. Positive spatial autocorrelation was found in distance classes of 0–5 km, and was strongest for the single day session. Despite weak genetic structure, individuals within groups were significantly more related to each other than to individuals between groups. Social networks revealed some components to have large, extensive groups of up to 22 individuals, and most groups were composed of individuals of the same matriline. Although fine-scale population genetic structure was weak, forest elephants are typically found in groups consisting of kin and based on matrilines, with some individuals having more associates than observed from group sizes alone.

Assessing the impact of climate change on the spatio-temporal distribution of foot-and-mouth disease risk for elephants