Regional Variation In Diet Research Articles

Regional variation and adaptive evolution in Bifidobacterium pseudocatenulatum: Insights into genomic and functional diversity in human gut

Bifidobacterium pseudocatenulatum is a prevalent gut microbe in humans of all ages and plays a crucial role in host health. However, its adaptive evolutionary characteristics remain poorly understood. This study analyzed the genome of 247 B. pseudocatenulatum isolates from Chinese, Vietnamese, Japanese and other region populations using population genomics and functional genomics. Our findings revealed high genetic heterogeneity and regional clustering within B. pseudocatenulatum isolates. Significant differences were observed in genome characteristics, phylogeny, and functional genes. Specifically, Chinese and Vietnamese isolates exhibited a higher abundance of genes involved in the metabolism of plant-derived carbohydrates (GH13, GH43, and GH5 enzyme families), aligning with the predominantly vegetable-, wheat- and fruit-based diets of these populations. Additionally, we found widespread transmission of antibiotic resistance genes (tetO and tetW) through mobile genetic elements, such as genomic islands (GIs), resulting in substantial intra-regional differences. Our findings highlight distinct adaptive evolution in B. pseudocatenulatum driven by gene specialization, possibly in response to regional variations in diet and lifestyle. This study sheds light on bifidobacteria colonization mechanisms in the host gut. ImportanceGut microbiota, as a key link in the gut-brain axis, helps to maintain the health of the organism, among which, Bifidobacterium pseudocatenulatum (B. pseudocatenulatum) is an important constituent member of the gut microbiota, which plays an important role in maintaining the balance of gut microbiota. The probiotic properties of B. pseudocatenulatum have been widely elaborated, and in order to excavate its evolutionary features at the genomic level, here we focused on the genetic background and evolutionary mechanism of the B. pseudocatenulatum genomes isolated from the intestinal tracts of different populations. Ultimately, based on the phylogenetic tree, we found that B. pseudocatenulatum has high genetic diversity and regional clustering phenomenon, in which plant-derived carbohydrate metabolism genes (GH13, GH43, GH5) showed significant regional differences, and this genetic differentiation drove the adaptive evolution, which likely shaped by diet and lifestyle.

Sympatric Seals, Satellite Tracking and Protected Areas: Habitat-Based Distribution Estimates for Conservation and Management

Marine predator populations are crucial to the structure and functioning of ecosystems. Like many predator taxa, pinnipeds face an increasingly complex array of natural and anthropogenic threats. Understanding the relationship between at-sea processes and trends in abundance at land-based monitoring sites requires robust estimates of at-sea distribution, often on multi-region scales. Such an understanding is critical for effective conservation management, but estimates are often limited in spatial extent by spatial coverage of animal-borne tracking data. Grey (Halichoerus grypus) and harbour seals (Phoca vitulina) are sympatric predators in North Atlantic shelf seas. The United Kingdom (UK) and Ireland represents an important population centre for both species, and Special Areas of Conservation (SACs) are designated for their monitoring and protection. Here we use an extensive high-resolution GPS tracking dataset, unprecedented in both size (114 grey and 239 harbour seals) and spatial coverage, to model habitat preference and generate at-sea distribution estimates for the entire UK and Ireland populations of both species. We found regional differences in environmental drivers of distribution for both species which likely relate to regional variation in diet and population trends. Moreover, we provide SAC-specific estimates of at-sea distribution for use in marine spatial planning, demonstrating that hotspots of at-sea density in UK and Ireland-wide maps cannot always be apportioned to the nearest SAC. We show that for grey seals, colonial capital breeders, there is a mismatch between SACs (where impacts are likely to be detected) and areas where impacts are most likely to occur (at sea). We highlight an urgent need for further research to elucidate the links between at-sea distribution during the foraging season and population trends observed in SACs. More generally, we highlight that the potential for such a disconnect needs to be considered when designating and managing protected sites, particularly for species that aggregate to breed and exhibit partial migration (e.g. grey seals), or spatial variation in migration strategies. We demonstrate the use of strategic tracking efforts to predict distribution across multiple regions, but caution that such efforts should be mindful of the potential for differences in species-environment relationships despite similar accessible habitats.

Spatial and interannual variability of juvenile coho salmon growth in the Strait of Georgia (2012-2015)

We conducted a 4 yr (2012-2015) study of regional growth of juvenile coho salmonOncorhynchus kisutchin the Strait of Georgia (British Columbia, Canada). Size (fork length) and growth (insulin-like growth factor-1 [IGF-1] concentration) varied both regionally and inter-annually. Additionally, we found a positive relationship between IGF-1 concentration and fork length that varied between years, with slopes andy-intercepts higher in 2012 and 2014, respectively, as compared to 2013 and 2015. An ordinal increase of IGF-1 concentration from the south to north in 2012 and 2014 was coupled with an increase in the prevalence of both juvenile herring and juveniles of other fish species in the diet. Across all years, there was a positive relationship between regional mean IGF-1 concentration and regional mean percent of juvenile herring in the diet. Our study demonstrates relatively small-scale spatial heterogeneity in juvenile coho salmon growth that in part, was attributed to regional variation in diet. These findings also demonstrate the utility of short-term growth measures (such as IGF-1) for assessing relatively small-scale spatial and temporal differences in growth.

Robust Clustering With Subpopulation-Specific Deviations

The National Birth Defects Prevention Study (NBDPS) is a case-control study of birth defects conducted across 10 U.S. states. Researchers are interested in characterizing the etiologic role of maternal diet, collected using a food frequency questionnaire. Because diet is multidimensional, dimension reduction methods such as cluster analysis are often used to summarize dietary patterns. In a large, heterogeneous population, traditional clustering methods, such as latent class analysis, used to estimate dietary patterns can produce a large number of clusters due to a variety of factors, including study size and regional diversity. These factors result in a loss of interpretability of patterns that may differ due to minor consumption changes. Based on adaptation of the local partition process, we propose a new method, robust profile clustering, to handle these data complexities. Here, participants may be clustered at two levels: (1) globally, where women are assigned to an overall population-level cluster via an overfitted finite mixture model, and (2) locally, where regional variations in diet are accommodated via a beta-Bernoulli process dependent on subpopulation differences. We use our method to analyze the NBDPS data, deriving prepregnancy dietary patterns for women in the NBDPS while accounting for regional variability. Supplementary materials for this article, including a standardized description of the materials available for reproducing the work, are available as an online supplement.

Hasty Pudding Versus Tasty Bread: Regional Variations in Diet and Nutrition during the Industrial Revolution

Using parish-level information from Sir F.M. Eden's The state of the poor (1797) we can identify typical diets for the counties of England. These diets varied considerably and afforded very different standards of nutrition. We compute a nutritional score for this diet, paying attention to the presence of vitamins, minerals and micronutrients shown to be essential for health and growth in constructing this measure. Other information in the reports allows us to relate county-level nutrition to factors in the local economy. In particular we find nutrition was positively related to the availability of common land in the area and to women's remunerated work if conducted from home. Lack of common land and little local supply of dairy products also pushed households into buying white wheaten bread rather than baking their own wholemeal loaf. Replicating some of this analysis with household-level data confirms these results. Diet also maps onto stature: male convicts to Australia were significantly taller if they originated in a county with a more nutritious diet. This verifies the important impact of nutrition on stature and demonstrates the sensitivity of height as a measure of key aspects of welfare.

Identifying patterns in the diet of mackerel icefish (Champsocephalus gunnari) at South Georgia using bootstrapped confidence intervals of a dietary index

Ontogenetic, inter-annual and regional variations in diet were investigated for mackerel icefish, Champsocephalus gunnari, in three successive summer seasons around South Georgia. Stomach contents from 2239 C. gunnari (130–560 mm total length) were examined. A bootstrapping technique was used to calculate confidence intervals for an index of relative importance of prey categories (% IRIDC). Diet varied significantly between years and age classes but there was little regional difference in diet. In general, diet was dominated by krill, Euphausia superba and by the amphipod Themisto gaudichaudii. Smaller (younger) fish tended to prey on a higher proportion of T. gaudichaudii and small euphausiids such as Thysanoessa sp. and took smaller quantities of E. superba. In a season of poor krill availability (summer of 2003–2004) the proportion of krill in the diet, stomach fullness and fish condition (indicated by length–weight relationships) were significantly lower than in the other summer seasons. A large reduction (>80%) in the estimated annual (2005) biomass of the C. gunnari stock directly followed the season of poor krill availability. This decline was largely because of mortality of 2+ and 3+ fish, which were more krill dependent than 1+ fish. Younger fish appear to have survived, leading to an increase in the estimated population biomass in 2006.

VARIABILITY IN THE DIET OF HARBOR PORPOISES (PHOCOENA PHOCOENA) IN SCOTTISH WATERS 1992–2003

AbstractInterannual, seasonal, and regional variation in the diet of porpoises, Phocoena phocoena, in Scottish (UK) waters was studied using stomach contents of animals stranded between 1992 and 2003. Most samples came from the east coast (including many porpoises killed by bottlenose dolphins), with smaller numbers from the west coast and from Shetland. The most important prey types, in terms of contribution by number and mass, were whiting (Merlangius merlangus) and sand eels (Ammodytidae). Multivariate analysis confirmed the existence of regional, seasonal, and interannual variation in diet, as well as differences (i. e., biases) related to cause of death. These differences were further explored using univariate analyses. Sand eels were more important in the summer months (quarters 2 and 3) and on the east coast, whereas gadids were more important in winter and in the Shetland area. Some, but not all, observed trends in the numerical importance and size of prey taken were consistent with trends in abundance and size of fish taken during research trawl surveys. There was some evidence that porpoises <1 yr old took more gobies (Gobiidae) and shrimps than did older porpoises. Clupeids (herring Clupea harengus and sprat Sprattus sprattus) formed a relatively small proportion of the diet, but their importance varied from year to year. Although possible methodological biases prevent firm conclusions, it appears that the importance of clupeids in porpoise diet may have decreased since the 1960s, mirroring the decline in North Sea herring abundance. The recovery of the North Sea herring stock in recent years is not as yet reflected in porpoise diet.

Summer Diet of Grey Seals ( Halichoerus grypus ) in Faroese Waters

The ecological role of grey seals ( Halichoerus grypus ) as predators in Faroese waters was evaluated, based on reconstruction of the diet composition from stomach contents obtained from animals taken for scientific purposes in three main sampling areas during the summer in 1993-1995. Gadoids, sandeels ( Ammodytes sp.) and catfish ( Anarhichas lupus ) dominated the seal diet. Some regional variations were found in the grey seal diet, where gadoids and sandeels were most important in the Svinoy area, catfish and gadoids were most important in the Sandoy area, and sandeels and gadoids were most important in the Northwest area. Regional variations in diet may reflect variations in the abundance and availability of potential prey. Grey seals of different ages were found to have somewhat different feeding habits. Juveniles fed most frequently on sandeels, pre-adults fed on sandeels and saithe ( Pollachius virens ) and adults fed on cod ( Gadus morhua ) and catfish. Adults also fed on larger prey than the young...

Geographical distribution of variant Creutzfeldt-Jakob disease in Great Britain, 1994–2000

Geographical variation in the distribution of variant Creutzfeldt-Jakob disease (vCJD) might indicate the transmission route of the infectious agent to man. We investigated whether regional incidences of vCJD were correlated with regional dietary data. The National CJD Surveillance Unit prospectively identified 84 people with vCJD up to Nov 10, 2000, in Great Britain. Their lifetime residential histories were obtained by interviews with a close relative. Cumulative incidences of vCJD by standard region were calculated. Grid references for places of residence in 1991 were identified and evidence of geographical clusters were sought. Data on diet in the 1980s were analysed for regional correlations with vCJD incidence. The socioeconomic status of the places of residence of people with vCJD was compared with that of the general population. vCJD incidence was higher in the north of Great Britain than the south. The rate ratio (north vs south) was 1.94 (95% CI 1.27-2.98). The mean Carstairs' deprivation score for areas of residence of people with vCJD was -0.09 (-0.73 to 0.55), which is close to the national average of zero. Regional rates of vCJD were correlated with consumption of other meat or meat products as classified and recorded by the Household Food Consumption and Expenditure Survey (r=0.72), but not with data from the Dietary and Nutritional Survey of British Adults. Five people with vCJD in Leicestershire formed a cluster (p=0.004). Regional differences in vCJD incidence are unlikely to be due to ascertainment bias. We had difficulty determining whether regional variations in diet might cause these differences, since the results of dietary analyses were inconsistent.

Feeding ecology of the lanternfish Benthosema pterotum from the Indian Ocean

The feeding ecology of lanternfish Benthosema pterotum (Alcock) from the north Arabian Sea, Mozambique and the Bay of Bengal was studied. Samples were collected on cruises carried out by R.V. “Dr. Fridtjof Nansen” during the period 1978 to 1983. A wide variety of zooplankton organisms were identified in the diet of B. pterotum with crustanceans dominating the diet. Copepods constituted ca. 40 to 90% of the diet. Dry weight analyses of the stomach contents from the Gulf of Oman in February 1983 showed copepods to be 35 to 55% in weight (average in samples). Ontogenetic differences were observed in the diet. Prey size increased as the fish length increased, but the largest fish did not exclude the smaller prey organisms from their diet. Regional variation in diet was also shown in B. pterotum. The degree of filling and the state of digestion of stomach contents revealed that this species feeds intensively at night in the epipelagic layer. All copepods indentified were epipelagic species, providing additional evidence of diurnal pattern in the feeding chronology of B. pterotum. Identification of copepods from the Gulf of Oman in February 1983, revealed that herbivorous species dominated in biomass. Quantitative analyses show that B. pterotum probably have a daily food intake of ca. 4.5% of the body weight.

Spatial and Temporal Patterns of Diet in the Cape Cormorant off Southern Africa

Diets of Cape Cormorant (Phalacrocorux cupensis) were sampled from 198 1 to 1985, between Mercury (25”43’S) and Dyer (3441’S) islands of the Benguela upwelling ecosystem off Namibia and South Africa. Over 99% of identifiable prey items were pelagic fish: cape anchovy (Engraulis japonicus capensis), 46%; pelagic goby (Suflogobius bibarbatus), 34%; and maasbanker (Truchurus truchurus), 14%. Daily, monthly, and regional variation in diet was three to four times that of annual variation, suggesting that environmental variability in the Benguela ecosystem is greatest at time intervals shorter than 1 year and that caution is necessary when inferring diets of Cape Cormorants from limited sampling.

Associations between breast-cancer mortality rates, child-bearing and diet in the United Kingdom.

Changes of breast-cancer (BC) mortality for all women in England and Wales between 1911 and 1975, and for the social-class gradient during the 1950s, were not related to changes in child-bearing. The changes in BC mortality for all women were associated with changes in consumption of fat, sugar and animal protein 1-2 decades earlier. A decline in mortality around 1935 was not obviously related to changes in fat or sugar, but dietary data were sparse. The social-class gradient of BC mortality almost disappeared during the 1950s; rates declined for the upper classes but increased for the lower. These opposite changes could have resulted from the opposite changes in diets of the upper and lower classes which occurred in the early 1940s. In contrast, the geographical variation of BC mortality within the United Kingdom, by region or by urban-rural aggregate area, was closely correlated with child-bearing but poorly correlated with diet. The poor correlation with diet might be a consequence of the small range of variation of diet between regions of the United Kingdom. The regional gradient of BC mortality was low in 1961, a decade after the period of food rationing when regional variation in diet would have been reduced. This suggested that diet did contribute to the regional variation of BC mortality within the United Kingdom, perhaps jointly with contributions from child-bearing.

The influence of calcium content of water, intake of vegetables and fruit and of other food factors upon the incidence of renal calculi.

An area of high incidence of renal calculi in Northern England and Scotland has been found to coincide with an area of soft water supply. However, in Wales and South West England the equation of soft water with high incidence of urolithiasis is lacking, and an enquiry into regional variations in diet reveals that a high intake of fruit and vegetables may protect against renal calculi.