Genetic adaptation to high altitude in the Ethiopian highlands

Background

Genomic analysis of high-altitude populations residing in the Andes and Tibet has revealed several candidate loci for involvement in high-altitude adaptation, a subset of which have also been shown to be associated with hemoglobin levels, including EPAS1, EGLN1, and PPARA, which play a role in the HIF-1 pathway. Here, we have extended this work to high- and low-altitude populations living in Ethiopia, for which we have measured hemoglobin levels. We genotyped the Illumina 1M SNP array and employed several genome-wide scans for selection and targeted association with hemoglobin levels to identify genes that play a role in adaptation to high altitude.

Results

We have identified a set of candidate genes for positive selection in our high-altitude population sample, demonstrated significantly different hemoglobin levels between high- and low-altitude Ethiopians and have identified a subset of candidate genes for selection, several of which also show suggestive associations with hemoglobin levels.

Conclusions

We highlight several candidate genes for involvement in high-altitude adaptation in Ethiopia, including CBARA1, VAV3, ARNT2 and THRB. Although most of these genes have not been identified in previous studies of high-altitude Tibetan or Andean population samples, two of these genes (THRB and ARNT2) play a role in the HIF-1 pathway, a pathway implicated in previous work reported in Tibetan and Andean studies. These combined results suggest that adaptation to high altitude arose independently due to convergent evolution in high-altitude Amhara populations in Ethiopia.     

Control of breathing and adaptation to high altitude in the bar-headed goose

The bar-headed goose flies over the Himalayan mountains on its migratory route between South and Central Asia, reaching altitudes of up to 9,000 m. We compared control of breathing in this species with that of low-altitude waterfowl by exposing birds to step decreases in inspired O(2) under both poikilocapnic and isocapnic conditions. Bar-headed geese breathed substantially more than both greylag geese and pekin ducks during severe environmental (poikilocapnic) hypoxia (5% inspired O(2)). This was entirely due to an enhanced tidal volume response to hypoxia, which would have further improved parabronchial (effective) ventilation. Consequently, O(2) loading into the blood and arterial Po(2) were substantially improved. Because air convection requirements were similar between species at 5% inspired O(2), it was the enhanced tidal volume response (not total ventilation per se) that improved O(2) loading in bar-headed geese. Other observations suggest that bar-headed geese depress metabolism less than low-altitude birds during hypoxia and also may be capable of generating higher inspiratory airflows. There were no differences between species in ventilatory sensitivities to isocapnic hypoxia, the hypoxia-induced changes in blood CO(2) tensions or pH, or hypercapnic ventilatory sensitivities. Overall, our results suggest that evolutionary changes in the respiratory control system of bar-headed geese enhance O(2) loading into the blood and may contribute to this species' exceptional ability to fly high.     

Effect of adaptation to high altitude on components of blood and urine of lowlanders compared with high altitude natives

Some of the blood and urinary constituents, oral glucose tolerance and urea clearance were determined in lowlanders at sea level (200 m) and at an altitude of 4, 000 m after their stay of two years. These data were compared with those of natives of high altitude area. The concentration of proteins, cholesterol, creatinephosphokinase and aspartate aminotransferase in blood among lowlanders after 2 year acclimatization were similar to that observed among highlanders. The urinary excretion of creatine and creatinine was of similar magnitude in highlanders and in acclimatized lowlanders but that of 17-keto and 17-hydroxysteroids was higher among highlanders. High altitude acclimatization among lowlanders facilitated appearance of a sharp peak in oral glucose tolerance curves and a decreased fasting blood glucose values. It also induced a restriction in renal filtration as indicated by a depressed urea clearance among lowlanders.     

Changes in neutral peptide hydrolase levels in the blood and catecholamine levels in the tissues during adaptation to high altitude hypoxia

Activity of neutral peptide-hydrolases in blood plasma and content of catecholamines in the tissues of rats under conditions of their stay in mountains at different height have been studied in dynamics. Unidirectional phase changes in activity of proteolytic enzymes of blood plasma and content of catecholamines in adrenal glands are revealed. A conclusion is made on participation of neutral blood peptide-hydrolases in organism adapted to Alpine hypoxia. Relations between neutral blood peptide-hydrolases and catecholamines in the organism and possibility of their direct mutual effect are under discussion.     

Erythrocyte 2,3-diphosphoglycerate and hemoglobin electrophoretic characteristics in rodent adaptation to high mountains

Adaptation of the erythropoetic system to hypoxia was shown to be different in different populations of montaine rodents of the Central Caucasus. One type of adaptation includes the increase in 2,3-diphosphoglycerate content of erythrocytes, the hemoglobin structure remaining apparently unchanged. This pattern was found in two groups of animals -- in one population of the ground squirrel Citellus suslicus whose ancestors were introduced to the mountains some 25 years ago, and in the wood mouse Apodemus sylvaticus which is a usual inhabitant of highland, although it does not form there any isolated populations. The other type of adaptation was found in the ground squirrel Citellus pygmaeus musicus, which is native to high altitude. The content of 2,3-diphosphoglycerate in the erythrocytes in this animal is the same as in the sea-level subspecies C. p. planicola, whereas the electrophoretic picture of hemoglobin in these two subspecies was found to be different.     

Hypoxia and the CNS: Maturation and adaptation at high altitude

The well known circulatory, including hemopoetic, and respiratory adjustments to high altitude often serve as classic examples of adaptation to specific environmental conditions. Less extensively studied are the contributions of the nervous and endocrine systems to such adaptive mechanisms even though their involvement in humans and animals is indisputed. Observations from our and other laboratories have identified in the rat a number of neurologic and endocrine responses to acute and prolonged exposure to high altitude attributable primarily to its hypoxic component. These responses include general retardation in maturation and function of the central nervous system as manifested by alterations in spontaneous and evoked electrical activity particularly in the limbic structures and involving selectively the synapse and are associated with impairment of brain protein and lipid metabolism, myelinogenesis and neurotransmission. Together with these neurologic disturbances, endocrine dysfunctions lead to alterations in growth, fertility and metabolism. Thus hypoxia, even of moderate severity, would affect profoundly the biochemical and functional maturation and activity of the brain and endocrines, and, reciprocally, prevention and treatment of these neuroendocrine imbalances might strengthen the adaptive competence of the individual.     

Changes in fibrinolysis components during short-term adaptation to high altitude]

In studying hemocoagulation in dogs under conditions of Frunze (760 m above the sea level) and Tuya-Ashu (3200 m above the sea level) it was shown that in the "emergency" phase of adaptation (the first three days) there was seen activation of fibrinolysin and profibrinolysin with depression of antifibrinolysins and inhibitors of profibrinolysin activators. The concentration of plasma fibrinogen at that period decreased by 100 mg%, which could promote an increase in the vascular permeability and improvement of oxygen approach to the tissues. Later, along with elevation of fibrinolysin and profibrinolysin activators there was a marked increase in the level of fibrinolysis inhibitors. Correlation of all the fibrinolysis components was established at a new level.     

Strain and sex differences in the cardiopulmonary adaptation of rats to high altitude

On chronic exposure to hypoxia, the commercially available Hilltop (H) strain of male Sprague-Dawley rats develops severe pulmonary hypertension, right ventricular hypertrophy (RVH), and polycythemia. These signs of chronic mountain sickness are associated with a high mortality rate. In contrast, the Madison (M) strain of Sprague-Dawley rats remains healthy with significantly less severe cardiopulmonary and hematological responses. Breeding experiments under locally controlled conditions were undertaken to determine if the differences between the two strains were genetically determined and to look for possible sex differences. Following 30 to 50 days exposure to a simulated altitude of 18,000 ft, the first generation of male H rats exhibited a higher right ventricular peak systolic pressure (RVPP), a more pronounced RVH, and a greater degree of polycythemia than the male M rats. The H rats had a mortality rate of 40% in contrast to a rate of 0% in the male M rats. The first generation of female H rats also developed a higher RVPP, a greater RVH, and more severe polycythemia than that in the female M rats. There were no differences in RVPP or RVH between the males and females of either strain. Females of both strains tolerated the hypoxic exposure with a 0% mortality rate. The data suggest that the differences between the males of H and M strains in their cardiopulmonary and hematological responses and in their susceptibilities to chronic hypoxia are genetic in nature. They further suggest that the female resistance to hypoxia is not due to milder cardiopulmonary responses. Perhaps female rats tolerate RVH better than male rats, at least of the H strain.     

Effect of fluorescamine modification of purple membranes on exciton coupling and light-to-dark adaptation

Purple membranes of $\text{Halobacterium}\text{,}\text{halobium}$ were modified with fluorescamine. At pH 8.8, with a molar ratio of fluorescamine to bacteriorhodopsin of 170, about 6 residues of lysine were modified while the arginines were not affected at all. Except for the appearance of the fluorescamine peak at 394 nm and some broadening of the chromophore peak at 570 nm, the absorption spectrum of bacteriorhodopsin was not significantly changed after modification. After fluorescamine modification, circular dichroism studies indicated loss of exciton coupling between bacteriorhodopsin molecules in the purple membrane. Rotational diffusion studies suggested enhanced mobility of the chromophore after modification. However, the spectral changes accompanying the light-to-dark adaptation of purple membranes were not prevented by fluorescamine modification. The implications of these findings are that exciton coupling between neighboring bacteriorhodopsin molecules in the purple membrane is not required for light-to-dark adaptation.     

Predicted structural change in erythropoietin of plateau zokors--adaptation to high altitude

Erythropoietin (EPO) is a glycoprotein hormone, expressed mainly in fetus liver and adult kidneys. EPO plays an important role in enhancing red blood cell formation in bone marrow under hypoxia. Plateau zokor (Myospalax baileyi), an subterranean burrowing endemic rodent inhabiting areas of 2 800-4 200 m above sea level on Qinghai-Tibet Plateau, is a typical high hypoxia tolerant mammal with high ratio of oxygen utilization in adaptation to the harsh plateau environment. To investigate the possible mechanisms of adaptation of plateau zokor EPO to high altitude, the complete cDNA and amino acid sequences of plateau zokor EPO have been described. Phylogenetic tree of Epo showed the convergence of the Spalax and Myospalax, indicating that, the convergent evolution was driven by similar hypoxic ecological niches. Our results showed that some common sites under positive selection in zokor (116M and 144A) and Spalax (102R, 116M, 144A and 152P) are the important sites for Epo biological activity. This study thus reports a gene level observation which may be involved in adaptation to underground life at high altitude.     

Genome sequence of ground tit Pseudopodoces humilis and its adaptation to high altitude

Background

The mechanism of high-altitude adaptation has been studied in certain mammals. However, in avian species like the ground tit Pseudopodoces humilis, the adaptation mechanism remains unclear. The phylogeny of the ground tit is also controversial.

Results

Using next generation sequencing technology, we generated and assembled a draft genome sequence of the ground tit. The assembly contained 1.04 Gb of sequence that covered 95.4% of the whole genome and had higher N50 values, at the level of both scaffolds and contigs, than other sequenced avian genomes. About 1.7 million SNPs were detected, 16,998 protein-coding genes were predicted and 7% of the genome was identified as repeat sequences. Comparisons between the ground tit genome and other avian genomes revealed a conserved genome structure and confirmed the phylogeny of ground tit as not belonging to the Corvidae family. Gene family expansion and positively selected gene analysis revealed genes that were related to cardiac function. Our findings contribute to our understanding of the adaptation of this species to extreme environmental living conditions.

Conclusions

Our data and analysis contribute to the study of avian evolutionary history and provide new insights into the adaptation mechanisms to extreme conditions in animals.     

A proposed classification of environmental adaptation: the example of high altitude

Extreme environments are defined as the opposite of usual environments where the evoked physiological responses are unperceivable, repeatable and adjusted to the constraint. Adaptation strategies to a given environment show three levels: cultural or technological, where a buffer space is built to protect the organism from the hostile milieu, physiological, where temporary adaptive mechanisms are developed, and genetic, where full adaptation is possible with normal life and reproduction. The cost of adaptation increases from the genetic level (minimal cost) to the technological level. These concepts are illustrated by the example of adaptation to altitude hypoxia. The technological level is given by the use of oxygen bottles by high altitude climbers. The physiological level involves various physiological and biological systems (increase in heart rate, ventilation, erythropoiesis, expression of hypoxia-inducible factors, etc.). The genetic level has been reached by some animal species such as Yaks, Llamas, Pikas but has not yet been demonstrated in humans. Diseases developed during exposure to acute or chronic hypoxia may be considered as “adaptive crises” that mimic the transition to a lower energy level of adaptation.