Homology of a 130-kb region enclosing the α-globin gene cluster,the α-locus controlling region,and two non-globin genes in human and mouse

The human -globin gene cluster (30 kb) is embedded in a GC-rich isochore very close to the telomere of Chromosome (Chr) 16p. The -Locus Controlling Region (-LCR) is located upstream of the adult -globin genes and has been shown to be essential for their expression. In this study we have been looking for expressed genes in the region upstream of the -globin cluster to understand the role of the LCR-like element in the expression and replication timing of flanking gene clusters. We show that the upstream -globin region is conserved over a 75-kb range and includes at least two oppositely transcribed non-globin genes, here referred to as Mid1 and Dist1. Complementary DNA sequences of 250 bp and 2.5 kb from Mid1 (coordinate-68) and Dist1 (coordinate-90 to-99), respectively, were isolated from human and mouse. The deduced partial amino acid sequences of these cDNAs are 81% and 95% identical for the Mid1 and Dist1 gene respectively. We have cloned a mouse cosmid contig which includes Dist1, Mid1, and the entire murine -globin cluster. The murine homolog of the -LCR was mapped upstream of the mouse globin genes at approximately the same position as in the human locus. Our results indicate that, in mouse and human, the -globin loci and their flanking sequences are homologous over a range of at least 130 kb. The structural homology of this region in both mammals suggests also a functional one and indicates the mouse as a potential model for studying the role of the -LCR controlling element in the regulation of expression and replication timing of the flanking gene clusters.The nucleotide sequence data reported in this paper have been submitted to GenBank and have been assigned the accession numbers M99623, M99624, M99625, and M99626.     

Distribution, abundance, and utilization of wild berries by the gwich’in people in the Mackenzie River Delta region

This paper examines the abundance and Aboriginal use of botanical non-timber forest products in the Gwich’in Settlement Area in the Northwest Territories, Canada. Informants indicated that wild berries are important to Gwich’in diets and an important factor in culture and traditional land use. People collected mostly cloudberries (Rubus chamaemorus), blueberries (Vaccinium uliginosum), and lingonberries (Vaccinium vitisidaea). The total quantities collected were estimated to be greater than other published accounts of berry gathering by northern Aboriginal peoples in North America. The total collected by the 450 households in the year 2000 was about 16,000 L. Inventories of wild berries on the landscape suggest that substantial quantities could be collected for commercial production, although the between-year supply can show considerable variation.     

Leafless autumnal-flowering geophytes in the Mediterranean region — phytogeographical,ecological and evolutionary aspects

Numerous Mediterranean geophytes are hysteranthous, i.e. they flower in a leafless stage during autumn. On the basis of their life cycles and other features two types can be recognized: In the Crocus type flowers with subterranean ovary develop at the start of the new reproductive cycle from an annual storage organ; seed dispersal and germination are delayed to the spring and the next autumn. In the Urginea type, flowers with supraterranean ovary originate from a perennial storage organ at the end of the life cycle; seed dispersal and germination follow flowering immediately. Similar rhythms exist in other seasonal climates. Field observations and some experiments demonstrate flower stimulation by temperature decrease or increase in different geophytes, and relationships between water supply and synanthous versus hysteranthous leaf development. The origin, ecological importance, and horticultural implication of the hysteranthous syndrome is discussed.     

Farming,fishing, and fire in the history of the upper Río Negro region of Venezuela

Studies of Río Negro subsistence farming and fishing activities are used to estimate the human carrying capacity for the region and the likely pattern of human land-use during prehistory. Ceramic evidence suggests human presence in the region more than 3000 years ago. Traditional farming is labor intensive and relatively unproductive. Nevertheless, farmers achieve an energy return of 15.21, and produce 2600 kcal per work hour. Fish are the major protein source, but fish catch per unit of effort and fish yield per hectare of floodplain are very low; fishermen are probably exploiting local fish resources very close to their limit. The low human population density would suggest that the Río Negro forest has been relatively undisturbed. Nevertheless, charcoal is widespread and abundant in forest soils. This charcoal is probably from anthropogenic or natural wildfires. These results suggest a much more complex history for Amazonia than previously thought.K. Clark is a free-lance biologist residing in Lima, Peru     

Seroprevalence of Toxoplasma gondii infection in goats by the indirect haemagglutination, immunofluorescence and immunoenzymatic tests in the region of Uberlândia, Brazil

A comparative study of the indirect haemagglutination (IHA), immunofluorescence (IFAT) and immunoenzymatic (ELISA) tests was carried out to determine the prevalence of Toxoplasma gondii antibodies in goats. One hundred seventy-four serum samples were obtained from four goat herds from the region of Uberlandia, State of Minas Gerais. The distribution of the animals, according to their origin, was as follow: 71 from herd I; 39 from herd II; 37 from herd III; and 27 from herd IV. Serum samples were analyzed by IHA, IFAT and ELISA, considering the reactivity of the serum samples at dilution > or = 1:64 as cut off titer for the three tests. A global seroprevalence of 18.4% was observed, with significantly higher positivity rate in the herd II (66.7%) and older animals (> 36 months). A high and significant positive correlation was found between the titers obtained by the IHA versus IFAT, IHA versus ELISA, and ELISA versus IFAT. Therefore, it can be concluded that the three analyzed tests have shown to be highly concordant and appropriate for epidemiological surveys of Toxoplasma infection in goats. Although the seroprevalence of T. gondii infection in goats is relatively low in this region as compared to other regions of the country, adequate management might be useful and essential to control the infection in the goat herds.     

Role of the hydrophobic and charged residues in the 218–226 region of apoA-I in the biogenesis of HDL

We investigated the significance of hydrophobic and charged residues 218–226 on the structure and functions of apoA-I and their contribution to the biogenesis of HDL. Adenovirus-mediated gene transfer of apoA-I[L218A/L219A/V221A/L222A] in apoA-I^−/− mice decreased plasma cholesterol and apoA-I levels to 15% of wild-type (WT) control mice and generated pre-β- and α4-HDL particles. In apoA-I^−/− × apoE^−/− mice, the same mutant formed few discoidal and pre-β-HDL particles that could not be converted to mature α-HDL particles by excess LCAT. Expression of the apoA-I[E223A/K226A] mutant in apoA-I^−/− mice caused lesser but discrete alterations in the HDL phenotype. The apoA-I[218–222] and apoA-I[E223A/K226A] mutants had 20% and normal capacity, respectively, to promote ABCA1-mediated cholesterol efflux. Both mutants had ∼65% of normal capacity to activate LCAT in vitro. Biophysical analyses suggested that both mutants affected in a distinct manner the structural integrity and plasticity of apoA-I that is necessary for normal functions. We conclude that the alteration of the hydrophobic 218–222 residues of apoA-I disrupts apoA-I/ABCA1 interactions and promotes the generation of defective pre-β particles that fail to mature into α-HDL subpopulations, thus resulting in low plasma apoA-I and HDL. Alterations of the charged 223, 226 residues caused milder but discrete changes in HDL phenotype.     

Carbon storage and potentials of the broad-leaved forest in alpine region of the Qinghai-Xizang Plateau,China北大核心CSCD

Aims Our objective was to explore the vegetation carbon storages and their variations in the broad-leaved forests in the alpine region of the Qinghai-Xizang Plateau that includes Qinghai Province and Xizang Autonomous Region. Methods Based on forest resource inventory data and field sampling, this paper studied the carbon storage, its sequestration rate, and the potentials in the broad-leaved forests in the alpine region of the Qinghai-Xizang Plateau. Important findings The vegetation carbon storage in the broad-leaved forest accounted for 310.70 Tg in 2011, with the highest value in the broad-leaved mixed forest and the lowest in Populus forest among the six broad-leaved forests that include Quercus, Betula, Populus, other hard broad-leaved species, other soft broad-leaved species, and the broadleaved mixed forest. The carbon density of the broad-leaved forest was 89.04 Mg•hm2, with the highest value in other hard broad-leaved species forest and the lowest in other soft broad-leaved species forest. The carbon storage and carbon density in different layers of the forests followed a sequence of overstory layer > understory layer > litter layer > grass layer > dead wood layer, which all increased with forest age. In addition, the carbon storage of broad-leaved forest increased from 304.26 Tg in 2001 to 310.70 Tg in 2011. The mean annual carbon sequestration and its rate were 0.64 Tg•a1 and 0.19 Mg•hm2•a1, respectively. The maximum and minimum of the carbon sequestration rate were respectively found in other soft broad-leaved species forest and other hard broad-leaved species forest, with the highest value in the mature forest and the lowest in the young forest. Moreover, the carbon sequestration potential in the tree layer of broad-leaved forest reached 19.09 Mg•hm2 in 2011, with the highest value found in Quercus forest and the lowest in Betula forest. The carbon storage increased gradually during three inventory periods, indicating that the broad-leaved forest was well protected to maintain a healthy growth by the forest protection project of Qinghai Province and Xizang Autonomous Region.     

Effect of point substitutions in the MnSOD, GPX1, and GSTP1 genes on the risk of familial and sporadic breast cancers in residents of the Altaĭ region of the Russian Federation

The frequencies of the polymorphic gene variants MnSOD Ala9Val, GPX1 Pro198Leu, and GSTP1 Ile105 Val were estimated in female residents of Altai krai with breast cancer. The frequency distributions of the genotypes for all genes studied in both patients and control subjects fit the Hardy-Weinberg equilibrium. The estimated frequencies of the genotypes for the studied genes in the control group did not differ from those earlier reported for Caucasoid women living in Europe. The T(rs1050450) allele of the GPX1 gene was demonstrated to protect against sporadic breast cancer (OR = 0.74 (95% CI = 0.58-0.94), p = 0.012). Carriers of the genotype combination MnSOD CC + GPX1 CC were found to have a 1.6 times higher risk of sporadic breast cancer compared to the control group (OR = 1.59 (1.05-2.41), p = 0.0258). The polymorphic loci GSTP1 (rs1695) and MnSOD (rs4880) were not found to be significantly associated with the risk of familial or sporadic breast cancer.     

Hsp70 Interacts with the Retroviral Restriction Factor TRIM5�� and Assists the Folding of TRIM5��

Tripartite motif (TRIM) protein TRIM5α has been shown to restrict human immunodeficiency virus, type 1 infection in Old World monkey cells at the early post-entry step by poorly understood mechanisms. Currently, the physiological function of TRIM5α is not known. In this study, we showed that transiently overexpressed TRIM5α causes a morphological change in HEK293T cells. A proteomics analysis of the protein complexes that were pulled down with hemagglutinin-tagged TRIM5α suggested that the heat shock protein 70 (Hsp70) may serve as a TRIM5α-binding partner. The interaction between Hsp70 and TRIM5α was confirmed by co-localization and co-immunoprecipitation assays. Co-expression of Hsp70 reversed the TRIM5α-induced morphological change in HEK293T cells. Another heat shock protein Hsc70 also bound to TRIM5α, but unlike Hsp70, Hsc70 was not able to reverse the TRIM5α-induced morphological change, suggesting that Hsp70 specifically reverses the morphological change caused by TRIM5α. Studies using a series of TRIM5α deletion mutants demonstrate that, although the PRYSPRY domain is critical for binding to Hsp70, the entire TRIM5α structure is necessary to induce the morphological change of cells. When the ATPase domain of Hsp70 was mutated, the mutated Hsp70 could not counteract the morphological change induced by TRIM5α, indicating that the catalytic activity of Hsp70 protein is important for this function. Co-expression of Hsp70 elevated the levels of TRIM5α in the detergent-soluble fraction with a concomitant decrease in the detergent-insoluble fraction. Together these results suggest that Hsp70 plays critical roles in the cellular management against the TRIM5α-induced cellular insults.     

Occurrence of cyclopoid copepods and faecal material in the Halley Bay region,Antarctica, during January–February 1991

Faecal material and cyclopoid copepods were collected during the expedition ANT IX/3, in the Halley Bay area (Weddell Sea, Antarctica), between January and February 1991. Faecal material comprised pellets produced by krill, copepods, ostracods and appendicularians. Cyclopoid copepods were represented by two genera, Oithona and Oncaea. In the Halley Bay area, higher concentrations of krill faecal material (420.9 mm³ m^–2) and chl.-a (39.3 mg m^–2) were found within the upper 200 m of the water column of the polynya than in ice-covered open-ocean areas (58.2 mm³m^–2 and 25.5 mg m^–2, respectively). At an ice-drift station, high concentrations of krill faecal strings under fest-ice were found. In addition, similarities between diatom assemblages in the pack-ice algae and krill faecal strings contents suggest an active utilization of ice-algae by krill populations. Sedimented material collected at 50 m depth by a sediment trap was dominated by krill faecal strings. Contents of small oval pellets (of probable cyclopoid copepod origin) resemble those of krill faecal pellets suggesting that coprophagy was involved. This suggestion is supported by: (1) The small quantity of food particles (other than krill faecal matter) available in the water column (< 0.3 g chl.-al^–1). (2) The negative in situ correlation between krill faecal strings and cyclopoid copepods. (3) The structure of cyclopoid copepod buccal appendages, which are more adapted for raptorial feeding.     

Extensive sequence variation in the 3′ untranslated region of the KRAS gene in lung and ovarian cancer cases

While cancer is a serious health issue, there are very few genetic biomarkers that predict predisposition, prognosis, diagnosis, and treatment response. Recently, sequence variations that disrupt microRNA (miRNA)-mediated regulation of genes have been shown to be associated with many human diseases, including cancer. In an early example, a variant at one particular single nucleotide polymorphism (SNP) in a let-7 miRNA complementary site in the 3′ untranslated region (3′ UTR) of the KRAS gene was associated with risk and outcome of various cancers. The KRAS oncogene is an important regulator of cellular proliferation, and is frequently mutated in cancers. To discover additional sequence variants in the 3′ UTR of KRAS with the potential as genetic biomarkers, we resequenced the complete region of the 3′ UTR of KRAS in multiple non-small cell lung cancer and epithelial ovarian cancer cases either by Sanger sequencing or capture enrichment followed by high-throughput sequencing. Here we report a comprehensive list of sequence variations identified in cases, with some potentially dysregulating expression of KRAS by altering putative miRNA complementary sites. Notably, rs712, rs9266, and one novel variant may have a functional role in regulation of KRAS by disrupting complementary sites of various miRNAs, including let-7 and miR-181.     

Local knowledge,use, and conservation of wild birds in the semi-arid region of Paraíba state,northeastern Brazil

Background

The use of wild birds, for several purposes, is directly associated with cultural, ecological, and conservation issues. This study aimed to inventory the wild birds known and used in three communities in Paraíba state, northeast Brazil, and to investigate the sociocultural context in which these activities occur.

Methods

A total of 179 people (98 women and 81 men) were interviewed. Data were collected through free interviews, using semi-structured forms, and posing questions about the use of local wild birds. The species were identified by direct observation of the birds, analysis of photographic records, and the use of a scientific guide.

Results

Each species’ use value (UV) was calculated in three different ways: UV_general, UV_current, and UV_potential. These UVs ranged from 0.01 to 1.15 for UV_g, 0 to 0.21 for UV_c, and 0.01 to 1.02 for UV_p. A total of 99 species, 81 genera, and 40 families were recorded and classified into the use categories of food, breeding, and medicinal. Thraupidae (12 species), Columbidae, Accipitridae, and Icteridae (8 species each) were the most diverse families.

Conclusions

The use of wild birds is a widespread activity in the studied areas, where many species are used. This demonstrates the need to conduct studies to assess the pressure suffered by these bird species, as well as the need to create public policies that intervene in the use and conservation of wild birds.

     

Physical mapping in the region of the Bruton's tyrosine kinase and α-galactosidase A gene loci in proximal Xq22

We have produced physical maps of the proximal part of Xq22, containing the Bruton's tyrosine kinase (BTK) and -galactosidase A (GLA) gene loci, using long range physical mapping techniques and yeast artificial chromosomes (YACs). These maps reveal five previously unidentified CpG islands which could indicate the presence of other genes in this region.     

Is there a relationship between crop farming and the Alnus decline in the eastern Baltic region?

Data from 59 sequences studied through pollen analysis were used to examine the decline in Alnus in Estonia during the Iron Age. Between a.d. 300 and 1300, the Alnus pollen frequency declined markedly in 30 records distributed evenly across the investigated area. The beginning of the decline was time transgressive, coincidental with the start of extensive cultivation, and was frequently connected with the commencement of rye cultivation and the availability of land suitable for cultivation. The greatest reduction in Alnus abundance occurred during the Late Iron Age between a.d. 900 and 1000. This spatially random asynchrony suggests that one or more factors affected Alnus populations across the whole northern region. Human impact is discussed as a plausible cause of the decline. To determine the initiation of extensive crop farming in the eastern Baltic area, pollen diagrams from Latvia, Lithuania and the Novgorod region were also examined.