Gut Microbial Ecology of Five Species of Sympatric Desert Rodents in Relation to Herbivorous and Insectivorous Feeding Strategies.

The gut microbial communities of mammals provide numerous benefits to their hosts. However, given the recent development of the microbiome field, we still lack a thorough understanding of the variety of ecological and evolutionary factors that structure these communities across species. Metabarcoding is a powerful technique that allows for multiple microbial ecology questions to be investigated simultaneously. Here, we employed DNA metabarcoding techniques, predictive metagenomics, and culture-dependent techniques to inventory the gut microbial communities of several species of rodent collected from the same environment that employ different natural feeding strategies [granivorous pocket mice (Chaetodipus penicillatus); granivorous kangaroo rats (Dipodomys merriami); herbivorous woodrats (Neotoma albigula); omnivorous cactus mice (Peromyscus eremicus); and insectivorous grasshopper mice (Onychomys torridus)]. Of particular interest were shifts in gut microbial communities in rodent species with herbivorous and insectivorous diets, given the high amounts of indigestible fibers and chitinous exoskeleton in these diets, respectively. We found that herbivorous woodrats harbored the greatest microbial diversity. Granivorous pocket mice and kangaroo rats had the highest abundances of the genus Ruminococcus and highest predicted abundances of genes related to the digestion of fiber, representing potential adaptations in these species to the fiber content of seeds and the limitations to digestion given their small body size. Insectivorous grasshopper mice exhibited the greatest inter-individual variation in the membership of their microbiomes, and also exhibited the highest predicted abundances of chitin-degrading genes. Culture-based approaches identified 178 microbial isolates (primarily Bacillus and Enterococcus), with some capable of degrading cellulose and chitin. We observed several instances of strain-level diversity in these metabolic capabilities across isolates, somewhat highlighting the limitations and hidden diversity underlying DNA metabarcoding techniques. However, these methods offer power in allowing the investigation of several questions concurrently, thus enhancing our understanding of gut microbial ecology.

Identification of an integrated stress and growth response signaling switch that directs vertebrate intestinal regeneration.

BACKGROUND: Snakes exhibit extreme intestinal regeneration following months-long fasts that involves unparalleled increases in metabolism, function, and tissue growth, but the specific molecular control of this process is unknown. Understanding the mechanisms that coordinate these regenerative phenotypes provides valuable opportunities to understand critical pathways that may control vertebrate regeneration and novel perspectives on vertebrate regenerative capacities. RESULTS: Here, we integrate a comprehensive set of phenotypic, transcriptomic, proteomic, and phosphoproteomic data from boa constrictors to identify the mechanisms that orchestrate shifts in metabolism, nutrient uptake, and cellular stress to direct phases of the regenerative response. We identify specific temporal patterns of metabolic, stress response, and growth pathway activation that direct regeneration and provide evidence for multiple key central regulatory molecules kinases that integrate these signals, including major conserved pathways like mTOR signaling and the unfolded protein response. CONCLUSION: Collectively, our results identify a novel switch-like role of stress responses in intestinal regeneration that forms a primary regulatory hub facilitating organ regeneration and could point to potential pathways to understand regenerative capacity in vertebrates.

Modest Regulation of Digestive Performance Is Maintained through Early Ontogeny for the American Alligator, Alligator mississippiensis.

The American alligator, Alligator mississippiensis, is an opportunistic carnivore that experiences an ontogenetic shift in food and feeding habits with an increase in body size. Alligators frequently feed on invertebrates and small fish as neonates and transition to feeding less frequently on larger vertebrates as they grow. We hypothesized that alligators experience an ontogenetic shift in the regulation of intestinal performance-modest regulation with frequent feeding early in life and wider regulation with less frequent feeding as they increase in body size. We tested this hypothesis by comparing postprandial responses in metabolic rate, organ masses, intestinal histology, digestive hydrolase activities, and intestinal nutrient uptake rates among neonate, juvenile, and subadult alligators. With feeding, alligators of all three age classes experienced a rapid increase in metabolic rate that peaked within 2 d and thereafter declined more slowly to prefeeding rates. Specific dynamic action increased with body mass and was equivalent to 32% of meal energy. For each age class, the majority of organs did not change in wet and dry mass with feeding. For subadult alligators, luminal gut pH varied regionally due to the acidic stomach, which continued to remain acidic with fasting. With feeding, epithelial enterocytes are remodeled from a pseudostratified to a stratified architecture and become infiltrated with lipid droplets. Feeding did not generate any significant change in the thickness of intestinal tissues, though it did induce an increase in enterocyte width and volume for subadults. For each age class, feeding generally did not result in significant changes in pancreatic trypsin, intestinal aminopeptidase, and intestinal nutrient uptake activities and capacities. Mass-specific nutrient uptake rates varied among age classes due to the higher rates exhibited by neonates. Among age classes, intestinal uptake capacities scaled allometrically (mass exponents <1) with body mass. Across these three age classes, the modest regulation of digestive performance with feeding and fasting for alligators appears to be ontogenetically conserved.

Defensive Venoms: Is Pain Sufficient for Predator Deterrence?

Pain, though unpleasant, is adaptive in calling an animal's attention to potential tissue damage. A long list of animals representing diverse taxa possess venom-mediated, pain-inducing bites or stings that work by co-opting the pain-sensing pathways of potential enemies. Typically, such venoms include toxins that cause tissue damage or disrupt neuronal activity, rendering painful stings honest indicators of harm. But could pain alone be sufficient for deterring a hungry predator? Some venomologists have argued "no"; predators, in the absence of injury, would "see through" the bluff of a painful but otherwise benign sting or bite. Because most algogenic venoms are also toxic (although not vice versa), it has been difficult to disentangle the relative contributions of each component to predator deterrence. Southern grasshopper mice (Onychomys torridus) are voracious predators of arthropods, feeding on a diversity of scorpion species whose stings vary in painfulness, including painful Arizona bark scorpions (Centruroides sculpturatus) and essentially painless stripe-tailed scorpions (Paravaejovis spinigerus). Moreover, southern grasshopper mice have evolved resistance to the lethal toxins in bark scorpion venom, rendering a sting from these scorpions painful but harmless. Results from a series of laboratory experiments demonstrate that painful stings matter. Grasshopper mice preferred to prey on stripe-tailed scorpions rather than bark scorpions when both species could sting; the preference disappeared when each species had their stingers blocked. A painful sting therefore appears necessary for a scorpion to deter a hungry grasshopper mouse, but it may not always be sufficient: after first attacking and consuming a painless stripe-tailed scorpion, many grasshopper mice went on to attack, kill, and eat a bark scorpion even when the scorpion was capable of stinging. Defensive venoms that result in tissue damage or neurological dysfunction may, thus, be required to condition greater aversion than venoms causing pain alone.

Multi-species comparisons of snakes identify coordinated signalling networks underlying post-feeding intestinal regeneration.

Several snake species that feed infrequently in nature have evolved the ability to massively upregulate intestinal form and function with each meal. While fasting, these snakes downregulate intestinal form and function, and upon feeding restore intestinal structure and function through major increases in cell growth and proliferation, metabolism and upregulation of digestive function. Previous studies have identified changes in gene expression that underlie this regenerative growth of the python intestine, but the unique features that differentiate this extreme regenerative growth from non-regenerative post-feeding responses exhibited by snakes that feed more frequently remain unclear. Here, we leveraged variation in regenerative capacity across three snake species-two distantly related lineages ( Crotalus and Python) that experience regenerative growth, and one ( Nerodia) that does not-to infer molecular mechanisms underlying intestinal regeneration using transcriptomic and proteomic approaches. Using a comparative approach, we identify a suite of growth, stress response and DNA damage response signalling pathways with inferred activity specifically in regenerating species, and propose a hypothesis model of interactivity between these pathways that may drive regenerative intestinal growth in snakes.

Seasonal Shifts in Reproduction Depend on Prey Availability for an Income Breeder.

The evolution of reproductive strategies depends on local environmental conditions. When environments are seasonal, selection favors individuals that align changes in key reproductive traits with seasonal shifts in habitat quality. Offspring habitat quality can decline through the season, and increased maternal provisioning to late-produced offspring may compensate. This shift, however, may depend on environmental factors that influence reproduction and are, themselves, subject to temporal changes (e.g., food abundance). We studied the brown anole lizard (Anolis sagrei) to demonstrate how prey abundance modifies seasonal changes in key reproductive traits. We bred lizards in controlled laboratory conditions across the reproductive season and manipulated the availability of food by providing some breeding pairs high prey availability and some low. Halfway through the season, we switched half of the breeding pairs to the opposite treatment. We measured growth of male and female lizards as well as latency to oviposit, fecundity, egg size, egg content (yolk, water, shell mass), and egg quality (steroid hormones, yolk caloric content) over this period. Higher prey availability enhanced lizard growth and some key reproductive traits (egg size, fecundity) but not others (egg content and quality). Moreover, we found that seasonal patterns of reproduction were modified by prey treatment in ways that have consequences for offspring survival. Our results demonstrate that seasonal changes in reproduction are dependent on fluctuations in local environmental conditions. Moreover, researchers must account for seasonal shifts in environmental factors and reproductive traits (and their interactions) when designing experiments and drawing conclusions about how the environment influences reproduction.

Growth and stress response mechanisms underlying post-feeding regenerative organ growth in the Burmese python.

BACKGROUND: Previous studies examining post-feeding organ regeneration in the Burmese python (Python molurus bivittatus) have identified thousands of genes that are significantly differentially regulated during this process. However, substantial gaps remain in our understanding of coherent mechanisms and specific growth pathways that underlie these rapid and extensive shifts in organ form and function. Here we addressed these gaps by comparing gene expression in the Burmese python heart, liver, kidney, and small intestine across pre- and post-feeding time points (fasted, one day post-feeding, and four days post-feeding), and by conducting detailed analyses of molecular pathways and predictions of upstream regulatory molecules across these organ systems. RESULTS: Identified enriched canonical pathways and upstream regulators indicate that while downstream transcriptional responses are fairly tissue specific, a suite of core pathways and upstream regulator molecules are shared among responsive tissues. Pathways such as mTOR signaling, PPAR/LXR/RXR signaling, and NRF2-mediated oxidative stress response are significantly differentially regulated in multiple tissues, indicative of cell growth and proliferation along with coordinated cell-protective stress responses. Upstream regulatory molecule analyses identify multiple growth factors, kinase receptors, and transmembrane receptors, both within individual organs and across separate tissues. Downstream transcription factors MYC and SREBF are induced in all tissues. CONCLUSIONS: These results suggest that largely divergent patterns of post-feeding gene regulation across tissues are mediated by a core set of higher-level signaling molecules. Consistent enrichment of the NRF2-mediated oxidative stress response indicates this pathway may be particularly important in mediating cellular stress during such extreme regenerative growth.

Physiological Responses to Fasting and Estivation for the Three-Toed Amphiuma (Amphiuma tridactylum).

Species of Amphiuma enter a state of subterranean estivation with the drying of their aquatic habitat. Characteristic of amphibian fasting and estivation is an initial depression of metabolism and tissue mass and function with fasting, followed by a more pronounced adaptive decrease in metabolism and tissue function with estivation. We hypothesized that Amphiuma likewise experiences a two-stage set of responses to estivation. Therefore, we examined the physiological responses of the three-toed amphiuma (Amphiuma tridactylum) to fasting and estivation treatments. Recently fed A. tridactylum served as controls for fasting treatments of 1, 3, and 6 mo (in water) and estivation treatments of 3 and 6 mo (buried in dried substrate). After a 1-mo fast, A. tridactylum experienced no further depression of metabolic rate following 3 or 6 mo of fasting or estivation. For all fasting and estivation trials, A. tridactylum maintained blood chemistry homeostasis, with the exception of an increase in blood urea following 6 mo of estivation. Compared with fed controls, the mass of most organs did not vary even after 6 mo of fasting and estivation. Only the small intestine (decreasing) and the full gall bladder (increasing) experienced significant changes in mass with fasting or estivation. The fasting decrease in small intestinal mass was in part due to enterocyte atrophy, which resulted in a decrease in mucosa/submucosa thickness. In contrast to many estivating anurans and the ecologically convergent sirens, A. tridactylum does not surround itself in a cocoon of dried skin or mucus during estivation. The thickness and architecture of their skin remains unchanged even after 6 mo of estivation. Following months of fasting or estivation, individuals still maintain gastric acid production, pancreatic enzyme activity, and intestinal enzyme and transporter activities. Contrary to our hypothesis that A. tridactylum experiences two stages of metabolic depression and tissue downregulation, first with fasting and second with estivation, we observed a relatively modest single-stage response to both. Rather than becoming dormant and engaging in mechanisms to depress metabolism and tissue performance with estivation, A. tridactylum employs an alternative strategy of remaining alert and possibly eating to survive extended periods when their aquatic habitats become dry.

Integrative Physiology of Fasting.

Extended bouts of fasting are ingrained in the ecology of many organisms, characterizing aspects of reproduction, development, hibernation, estivation, migration, and infrequent feeding habits. The challenge of long fasting episodes is the need to maintain physiological homeostasis while relying solely on endogenous resources. To meet that challenge, animals utilize an integrated repertoire of behavioral, physiological, and biochemical responses that reduce metabolic rates, maintain tissue structure and function, and thus enhance survival. We have synthesized in this review the integrative physiological, morphological, and biochemical responses, and their stages, that characterize natural fasting bouts. Underlying the capacity to survive extended fasts are behaviors and mechanisms that reduce metabolic expenditure and shift the dependency to lipid utilization. Hormonal regulation and immune capacity are altered by fasting; hormones that trigger digestion, elevate metabolism, and support immune performance become depressed, whereas hormones that enhance the utilization of endogenous substrates are elevated. The negative energy budget that accompanies fasting leads to the loss of body mass as fat stores are depleted and tissues undergo atrophy (i.e., loss of mass). Absolute rates of body mass loss scale allometrically among vertebrates. Tissues and organs vary in the degree of atrophy and downregulation of function, depending on the degree to which they are used during the fast. Fasting affects the population dynamics and activities of the gut microbiota, an interplay that impacts the host's fasting biology. Fasting-induced gene expression programs underlie the broad spectrum of integrated physiological mechanisms responsible for an animal's ability to survive long episodes of natural fasting.

Ontogenetic shifts and spatial associations in organ positions for snakes.

Snakes possess an elongated body form and serial placement of organs which provides the opportunity to explore historic and adaptive mechanisms of organ position. We examined the influence of body size and sex on the position of, and spatial associations between, the heart, liver, small intestine, and right kidney for ten phylogenetically diverse species of snakes that vary in body shape and habitat. Snake snout-vent length explained much of the variation in the position of these four organs. For all ten species, the position of the heart and liver relative to snout-vent length decreased as a function of size. As body size increased from neonate to adult, these two organs shifted anteriorly an average of 4.7% and 5.7% of snout-vent length, respectively. Similarly, the small intestine and right kidney shifted anteriorly with an increase in snout-vent length for seven and five of the species, respectively. The absolute and relative positioning of these organs did not differ between male and female Burmese pythons (Python molurus). However, for diamondback water snakes (Nerodia rhombifer), the liver and small intestine were more anteriorly positioned in females as compared to males, whereas the right kidney was positioned more anteriorly for males. Correlations of residuals of organ position (deviation from predicted position) demonstrated significant spatial associations between organs for nine of the ten species. For seven species, individuals with hearts more anterior (or posterior) than predicted also tended to possess livers that were similarly anteriorly (or posteriorly) placed. Positive associations between liver and small intestine positions and between small intestine and right kidney positions were observed for six species, while spatial associations between the heart and small intestine, heart and right kidney, and liver and right kidney were observed in three or four species. This study demonstrates that size, sex, and spatial associations may have potential interacting effects when testing evolutionary scenarios for the position of snake organs.

Rapid changes in gene expression direct rapid shifts in intestinal form and function in the Burmese python after feeding.

Snakes provide a unique and valuable model system for studying the extremes of physiological remodeling because of the ability of some species to rapidly upregulate organ form and function upon feeding. The predominant model species used to study such extreme responses has been the Burmese python because of the extreme nature of postfeeding response in this species. We analyzed the Burmese python intestine across a time series, before, during, and after feeding to understand the patterns and timing of changes in gene expression and their relationship to changes in intestinal form and function upon feeding. Our results indicate that >2,000 genes show significant changes in expression in the small intestine following feeding, including genes involved in intestinal morphology and function (e.g., hydrolases, microvillus proteins, trafficking and transport proteins), as well as genes involved in cell division and apoptosis. Extensive changes in gene expression occur surprisingly rapidly, within the first 6 h of feeding, coincide with changes in intestinal morphology, and effectively return to prefeeding levels within 10 days. Collectively, our results provide an unprecedented portrait of parallel changes in gene expression and intestinal morphology and physiology on a scale that is extreme both in the magnitude of changes, as well as in the incredibly short time frame of these changes, with up- and downregulation of expression and function occurring in the span of 10 days. Our results also identify conserved vertebrate signaling pathways that modulate these responses, which may suggest pathways for therapeutic modulation of intestinal function in humans.

Physiological responses to short-term fasting among herbivorous, omnivorous, and carnivorous fishes.

We explored the integrated role of dietary specialization and feeding periodicity on the response of the gastrointestinal tract of teleosts fishes to short-term (7-10 days) fasting and refeeding. Fasted and fed herbivorous grass carp (Ctenopharyngodon idella), omnivorous channel catfish (Ictalurus punctatus), and carnivorous largemouth bass (Micropterus salmoides) were compared for digestive organ masses, intestinal morphology, gastrointestinal pH, and the specific activities and total intestinal capacities of the intestinal hydrolases aminopeptidase (APN) and maltase and intestinal nutrient transporters. All three species experience intestinal hypertrophy with feeding as noted by significant increases in enterocyte dimensions. Of the three, only I. punctatus experienced a postprandial increase in intestinal length, and only C. idella experienced significant modulation of intestinal microvillus length. Feeding resulted in acidification of the stomachs of I. punctatus and M. salmoides. Predicted to exhibit a relatively modest set of postprandial responses because of their more frequent feeding habits, C. idella only experienced increases in APN and maltase activity with feeding and no significant regulation of nutrient uptake. Significant regulation of hydrolase activities and nutrient uptake were exhibited by I. punctatus and M. salmoides, with I. punctatus experiencing the most comprehensive set of responses. As predicted by food habits, there was an interspecific gradient in intestinal length and glucose uptake extending from longer intestines and greater glucose uptake for the herbivorous C. idella, intermediate lengths and glucose uptake for the omnivorous I. punctatus, and shorter intestines and reduced glucose uptake for the carnivorous M. salmoides. Among teleosts fishes, short episodes of fasting lead to significant alterations in intestinal form and function that are rapidly restored with feeding.

Determinants and repeatability of the specific dynamic response of the corn snake, Pantherophis guttatus.

Ingesting, digesting, absorbing, and assimilating a meal are all energy consuming processes that accumulate to form the specific dynamic action (SDA) of the meal. Sensitive to digestive demand, SDA is theoretically fixed to a given meal size and type. In this study, we altered relative meal size to explore the effects of digestive demand on the postprandial metabolic profile and SDA of the corn snake, Pantherophis guttatus. We also examined the effects of body temperature on the SDA response while controlling for meal size and type and assessed whether these responses are highly repeatable under the same conditions. Additionally, the effects of body mass on SDA were investigated by feeding snakes the same relative and absolute meal size. With increases in digestive demand (meals from 5% to 45% of body mass), P. guttatus responded with incremental increases in the postprandial peak in oxygen consumption (VO2), the duration of the significantly elevated VO2, and SDA. Body temperature had an observable impact on the postprandial metabolic profile, decreasing the duration and increasing the peak VO2, however, body temperature did not significantly alter SDA. Regardless of temperature, and hence duration, snakes expended the same amount of energy in digesting a given meal. This was additionally borne out when testing the individual repeatability of the SDA response, individual P. guttatus exhibited nearly identical postprandial responses to the same meal. Over a 90-fold range in body mass, and fed meals equaling 25% of body mass, P. guttatus exhibited an isometric relationship between SDA and body mass. When fed a set 10-gram meal, snakes regardless of body size expended the same amount of energy on digestion and assimilation. Characteristically, P. guttatus experience a rapid postprandial increase in metabolic rate that peaks and gradually descends to prefeeding levels. The magnitude of that response (quantified as SDA) varies as a function of digestive demand (i.e., meal size); however, when demand is fixed, SDA is constant regardless of body temperature and body size.

The Burmese python genome reveals the molecular basis for extreme adaptation in snakes.

Snakes possess many extreme morphological and physiological adaptations. Identification of the molecular basis of these traits can provide novel understanding for vertebrate biology and medicine. Here, we study snake biology using the genome sequence of the Burmese python (Python molurus bivittatus), a model of extreme physiological and metabolic adaptation. We compare the python and king cobra genomes along with genomic samples from other snakes and perform transcriptome analysis to gain insights into the extreme phenotypes of the python. We discovered rapid and massive transcriptional responses in multiple organ systems that occur on feeding and coordinate major changes in organ size and function. Intriguingly, the homologs of these genes in humans are associated with metabolism, development, and pathology. We also found that many snake metabolic genes have undergone positive selection, which together with the rapid evolution of mitochondrial proteins, provides evidence for extensive adaptive redesign of snake metabolic pathways. Additional evidence for molecular adaptation and gene family expansions and contractions is associated with major physiological and phenotypic adaptations in snakes; genes involved are related to cell cycle, development, lungs, eyes, heart, intestine, and skeletal structure, including GRB2-associated binding protein 1, SSH, WNT16, and bone morphogenetic protein 7. Finally, changes in repetitive DNA content, guanine-cytosine isochore structure, and nucleotide substitution rates indicate major shifts in the structure and evolution of snake genomes compared with other amniotes. Phenotypic and physiological novelty in snakes seems to be driven by system-wide coordination of protein adaptation, gene expression, and changes in the structure of the genome.

Effects of feeding on luminal pH and morphology of the gastroesophageal junction of snakes.

At the gastroesophageal junction, most vertebrates possess a functional lower esophageal sphincter (LES) which may serve to regulate the passage of liquids and food into the stomach and prevent the reflux of gastric contents into the esophagus. Snakes seemingly lack an LES and consume meals large enough to extend anteriorly from the stomach into the esophagus thereby providing the opportunity for the reflux of gastric juices. To explore whether snakes experience or can prevent gastric reflux, we examined post-feeding changes of luminal pH of the distal esophagus and stomach, the fine scale luminal pH profile at the gastroesophageal junction, and the morphology of the gastroesophageal junction for the Burmese python (Python molurus), the African brown house snake (Lamprophis fuliginosus), and the diamondback water snake (Nerodia rhombifer). For each species fasted, there was no distension of the gastroesophageal junction and only modest changes in luminal pH from the distal esophagus into the stomach. Feeding resulted in marked distension and changes in tissue morphology of the gastroesophageal junction. Simultaneously, there was a significant decrease in luminal pH of the distal esophagus for pythons and house snakes, and for all three species a steep gradient in luminal pH decreasing across a 3-cm span from the distal edge of the esophagus into the proximal edge of the stomach. The moderate acidification of the distal most portion of the esophagus for pythons and house snakes suggests that there is some anterior movement of gastric juices across the gastroesophageal junction. Given that this modest reflux of gastric fluid is localized to the most distal region of the esophagus, snakes are apparently able to prevent and protect against acid reflux in the absence of a functional LES.

Selected regulation of gastrointestinal acid-base secretion and tissue metabolism for the diamondback water snake and Burmese python.

Snakes exhibit an apparent dichotomy in the regulation of gastrointestinal (GI) performance with feeding and fasting; frequently feeding species modestly regulate intestinal function whereas infrequently feeding species rapidly upregulate and downregulate intestinal function with the start and completion of each meal, respectively. The downregulatory response with fasting for infrequently feeding snakes is hypothesized to be a selective attribute that reduces energy expenditure between meals. To ascertain the links between feeding habit, whole-animal metabolism, and GI function and metabolism, we measured preprandial and postprandial metabolic rates and gastric and intestinal acid-base secretion, epithelial conductance and oxygen consumption for the frequently feeding diamondback water snake (Nerodia rhombifer) and the infrequently feeding Burmese python (Python molurus). Independent of body mass, Burmese pythons possess a significantly lower standard metabolic rate and respond to feeding with a much larger metabolic response compared with water snakes. While fasting, pythons cease gastric acid and intestinal base secretion, both of which are stimulated with feeding. In contrast, fasted water snakes secreted gastric acid and intestinal base at rates similar to those of digesting snakes. We observed no difference between fasted and fed individuals for either species in gastric or intestinal transepithelial potential and conductance, with the exception of a significantly greater gastric transepithelial potential for fed pythons at the start of titration. Water snakes experienced no significant change in gastric or intestinal metabolism with feeding. Fed pythons, in contrast, experienced a near-doubling of gastric metabolism and a tripling of intestinal metabolic rate. For fasted individuals, the metabolic rate of the stomach and small intestine was significantly lower for pythons than for water snakes. The fasting downregulation of digestive function for pythons is manifested in a depressed gastric and intestinal metabolism, which selectively serves to reduce basal metabolism and hence promote survival between infrequent meals. By maintaining elevated GI performance between meals, fasted water snakes incur the additional cost of tissue activity, which is expressed in a higher standard metabolic rate.

Report from the first snake genomics and integrative biology meeting.

This report summarizes the proceedings of the 1st Snake Genomics and Integrative Biology Meeting held in Vail, CO USA, 5-8 October 2011. The meeting had over twenty registered participants, and was conducted as a single session of presentations. Goals of the meeting included coordination of genomic data collection and fostering collaborative interactions among researchers using snakes as model systems.

Fatty acids identified in the Burmese python promote beneficial cardiac growth.

Burmese pythons display a marked increase in heart mass after a large meal. We investigated the molecular mechanisms of this physiological heart growth with the goal of applying this knowledge to the mammalian heart. We found that heart growth in pythons is characterized by myocyte hypertrophy in the absence of cell proliferation and by activation of physiological signal transduction pathways. Despite high levels of circulating lipids, the postprandial python heart does not accumulate triglycerides or fatty acids. Instead, there is robust activation of pathways of fatty acid transport and oxidation combined with increased expression and activity of superoxide dismutase, a cardioprotective enzyme. We also identified a combination of fatty acids in python plasma that promotes physiological heart growth when injected into either pythons or mice.

A multi-organ transcriptome resource for the Burmese Python (Python molurus bivittatus).

BACKGROUND: Snakes provide a unique vertebrate system for studying a diversity of extreme adaptations, including those related to development, metabolism, physiology, and venom. Despite their importance as research models, genomic resources for snakes are few. Among snakes, the Burmese python is the premier model for studying extremes of metabolic fluctuation and physiological remodelling. In this species, the consumption of large infrequent meals can induce a 40-fold increase in metabolic rate and more than a doubling in size of some organs. To provide a foundation for research utilizing the python, our aim was to assemble and annotate a transcriptome reference from the heart and liver. To accomplish this aim, we used the 454-FLX sequencing platform to collect sequence data from multiple cDNA libraries. RESULTS: We collected nearly 1 million 454 sequence reads, and assembled these into 37,245 contigs with a combined length of 13,409,006 bp. To identify known genes, these contigs were compared to chicken and lizard gene sets, and to all Genbank sequences. A total of 13,286 of these contigs were annotated based on similarity to known genes or Genbank sequences. We used gene ontology (GO) assignments to characterize the types of genes in this transcriptome resource. The raw data, transcript contig assembly, and transcript annotations are made available online for use by the broader research community. CONCLUSION: These data should facilitate future studies using pythons and snakes in general, helping to further contribute to the utilization of snakes as a model evolutionary and physiological system. This sequence collection represents a major genomic resource for the Burmese python, and the large number of transcript sequences characterized should contribute to future research in this and other snake species.

Sequencing the genome of the Burmese python (Python molurus bivittatus) as a model for studying extreme adaptations in snakes.

The Consortium for Snake Genomics is in the process of sequencing the genome and creating transcriptomic resources for the Burmese python. Here, we describe how this will be done, what analyses this work will include, and provide a timeline.