HLA class I nucleotide sequences, 1992

The HLA class I sequences included in this compilation are taken from publications listed in the papers: Nomenclature for factors of the HLA system, 1991 (Bodmer et al. 1992); Nomenclature for factors of the HLA system, 1990 (Bodmer et al. 1991); and Nomenclature for factors of the HLA system, 1989 (Bodmer et al. 1990). Due to the increased number of sequences we have only included sequences for exons 2, 3, and 4 in this compilation. Where discrepancies have arisen between reported sequences, the original authors have been contacted where possible, and necessary amendments to published sequences have been incorporated into this alignment. Future sequencing may identify errors in this list and we would welcome any evidence that helps to maintain the accuracy of this compilation. In the sequence alignments, identify between nucleotides is indicated by a hyphen (-). An unavailable sequence is indicated by a period (.). Gaps in the sequence are inserted to maintain the alignment between different alleles showing variation in amino acid number. *** DIRECT SUPPORT *** A4903038 00002     

HLA class II nucleotide sequences, 1992

The HLA class II sequences included in this compilation are taken from publications listed in the papers: Nomenclature for factors of the HLA system, 1989, Nomenclature for factors of the HLA system, 1990, and Nomenclature for factors of the HLA system, 1991 (WHO Nomenclature Committee 1990, 1991, 1992). Where discrepancies have arisen between reported sequences, the original authors have been contacted where possible, and necessary amendments to published sequences have been incorporated into this alignment. Future sequencing may identify errors in this list, and we would welcome any evidence that helps to maintain the accuracy of this compilation. In the sequence alignments, identity between residues is indicated by a hyphen (-), an unavailable sequence is indicated by an asterisk (*), and gaps in the sequence are inserted to maintain the alignment between different alleles showing variation in amino acid number. Correspondence to: S. G. E. Marsh.     

Counting the spots: a molecular and morphological phylogeny of the spotted darner Boyeria (Odonata: Anisoptera: Aeshnidae) with an emphasis on European taxa

Boyeria irene and Boyeria cretensis are species of spotted dragonflies belonging to the ‘darner’ family, Aeshnidae. In 1991, Peters classified Boyeria from Crete as B. cretensis, based on adult morphological characters. In this study, we used molecular evidence to determine if indeed B. irene and B. cretensis are different species. DNA was sequenced from samples of B. irene (from France, Switzerland, Tunisia, Spain and Italy) and B. cretensis (from Crete). These species were recovered as two different clades with strong support. We conclude that B. irene and B. cretensis are different species, with evidence based on molecular and morphological differences. In addition, we present the first phylogenetic hypothesis for Boyeria for which we have sequenced all but three species. Lastly, we discuss different scenarios that may have led to the present‐day distribution and speciation patterns of Mediterranean Boyeria.     

Nomenclature,redescription, and new record from Okinawa of Cymbasoma moriiSekiguchi,1982 (Monstrilloida)

In 1990 and 1991 the distribution of the genus Gammarus was examined in the River Hunte and its tributaries (Lower Saxony, northern Germany). In contrast to data from the literature, Gammarus fossarum and G. roeseli were just as abundant as G. pulex, which had been known to inhabit rivers and brooks in northern Germany. G. pulex was most frequent (1900 at 57 out of 70 and 1991 at 37 out of 39 sampling sites) followed by G. fossarum (at 52 and 32 sampling sites, respectively), whereas G. roeseli was locally restricted (at 7 and 6 sampling sites, respectively). G. fossarum and G. pulex were distributed up to the level of the city of Oldenburg; further north their distribution is limited by tidal influences and they are replaced by G. zaddachi. The possibility of using gammarids as indicators of water quality, as it has been done in low mountain ranges, is discussed.     

Seasonal succession of Copepoda in the Bahía Blanca estuary

The abundance and species composition of Copepoda with respect to other mesozooplanktonic groups were studied at the harbour of Ingeniero White in the inner zone of the Bahfa Blanca estuary, between July 1990 and August 1991. Maximal copepod abundances of 4.7 × 10 m^–3 and 4.9 × 10 m^–3 were observed in January 1991 and May 1991, respectively. Minimal abundances of 6 m^–3 were found in June 1990. Acartia tonsa was present throughout the year with high dominance in summer-autumn (December to May). Eurytemora affinis was present from July to October 1990 (first pulse) and from July to September 1991 (second pulse). Euterpina acutifrons was most abundant during spring 1990, whereas Paracalanus parvus was most abundant during winter-spring (July–October) 1990 and April–May 1991. The rest of the copepods were observed during winter and spring 1990 and July–August 1991. Calanoides carinatus and Labidocera fluviatilis, both species from the outer estuarine waters, were only found on two sampling dates. The proportion of meroplanktonic forms was high in certain months of the annual period considered. Differences between the copepod seasonal succession studied here and those observed during several years in the 1980's are discussed.     

Handedness in great apes: A review of findings

We present data on hand preference in great apes and discuss them in the context of theoretical models of hand preference in nonhuman primates presented by MacNeilageet al. (1987) and by Fagot and Vauclair (1991). We also discuss several methodological and statistical issues as they pertain to the assessment of hand preference in great apes and other primate species. Finally, we present a comparative framework for the study of hand preference, emphasizing the importance of studies with great apes in developing evolutionary models of hemispheric specialization.     

Dietary patterns and changes in body weight in women

Objective: Our objective was to examine the association between adherence to dietary patterns and weight change in women. Research Methods and Procedures: Women (51,670, 26 to 46 years old) in the Nurses’ Health Study II were followed from 1991 to 1999. Dietary intake and body weight were ascertained in 1991, 1995, and 1999. A Western pattern, characterized by high intakes of red and processed meats, refined grains, sweets and desserts, and potatoes, and a prudent pattern, characterized by high intakes of fruits, vegetables, whole grains, fish, poultry, and salad dressing, were identified with principal component analysis, and associations between patterns and change in body weight were estimated. Results: Women who increased their Western pattern score had greater weight gain (multivariate adjusted means, 4.55 kg for 1991 to 1995 and 2.86 kg for 1995 to 1999) than women who decreased their Western pattern score (2.70 and 1.37 kg for the two time periods), adjusting for baseline lifestyle and dietary confounders and changes in confounders over time (p < 0.001 for both time periods). Furthermore, among women who increased their prudent pattern score, weight gain was smaller (multivariate‐adjusted means, 1.93 kg for 1991 to 1995 and 0.66 kg for 1995 to 1999) than among women who decreased their prudent pattern score (4.83 and 3.35 kg for the two time periods) (p < 0.001). The largest weight gain between 1991 and 1995 and between 1995 and 1999 was observed among women who decreased their prudent pattern score while increasing their Western pattern score (multivariate adjusted means, 6.80 and 4.99 kg), whereas it was smallest for the opposite change in patterns (0.87 and ?0.64 kg) (p < 0.001). Discussion: Adoption of a Western dietary pattern is associated with larger weight gain in women, whereas a prudent dietary pattern may facilitate weight maintenance.     

Trends in overweight and obesity in Chinese adults: between 1991 and 1999-2000

Objective: The aim of this study was to evaluate trends in BMI and the prevalence of overweight (BMI ≥ 25 kg/m²) and obesity (BMI ≥ 30 kg/m²) between 1991 and 1999–2000 among Chinese adults. Methods and Procedures: In this study, two population‐based samples of Chinese adults aged between 45 and 79 years (n = 7,858 during each period), and comparable in the distributions of age, gender, degree of urbanization, and region (North/South) were used. Height and weight were measured using identical procedures at each period, and BMI was calculated as weight (in kilogram) divided by height (in square meter). Results: From 1991 to 1999–2000, the mean BMI increased from 21.8 to 23.4 kg/m² among men and from 21.8 to 23.5 kg/m² among women (each P < 0.001). Among men, the prevalence of overweight and obesity increased from 9.6 and 0.6%, respectively, in 1991 to 20.0 and 3.0%, respectively, in 1999–2000 (each P < 0.001). Among women, the prevalence of overweight and obesity increased from 14.5 and 1.8%, respectively, in 1991 to 26.5 and 5.2%, respectively, in 1999–2000 (each P < 0.001). The prevalence of overweight and obesity increased in all age groups, in rural and urban areas, and in North and South China, with greater relative increases in obesity among older age groups, South China, and rural areas (P interaction < 0.05). Discussion: Overweight and obesity increased tremendously during the 1990s in China. These data underscore the need for national programs in weight maintenance and reduction, to prevent obesity‐related outcomes in China.     

Neoascarophis macrouri n. sp. (Nematoda: Cystidicolidae) from the stomach of Macrourus berglax (Macrouridae) in the eastern Greenland Sea

A new species of parasitic nematode, Neoascarophis macrouri n. sp. (Cystidicolidae), is described from the stomach and stomach wall of the marine deep-water fish Macrourus berglax (onion-eye grenadier) in the eastern Greenland Sea (North Atlantic Ocean). The new species, studied using both light and scanning electron microscopy, is characterised mainly by the location of the vulva near the posterior end of the body (a short distance anterior to the anus), non-filamented eggs, the structure of the mouth, a short vestibule and the length of the spicules (567–615 and 144–156 μm). Metabronema insulanum Solov’eva, 1991 is transferred to Neoascarophis as N. insulana (Solov’eva, 1991) n. comb.     

Finding of Pleuroxus smirnovi sp. nov. from the Pamir Region Revealed Today's Imperfect State of Systematics and Biogeography of the Chydorinae (Cladocera: Chydoridae)

Pleuroxus smirnovi sp. nov. (Cladocera: Chydoridae) is found in a temporary freshwater body near Lake Zor‐Kul, the Pamirs (territory of Tajikistan). This large, brownish chydorine, with especially high body compressed laterally and supplied with a sharp dorsal keel, “untypical” of the genus Pleuroxus, at the same time, has the number of setae in filter plates of gnathobases II–V typical of this genus, namely 8‐8‐6‐4. My finding of P. smirnovi sp. nov. is a new evidence of an incomplete faunistic coverage and an imperfect state of today's systematics of the subfamily Chydorinae, because this new species has a set of characters apparently intermediate between the genera Pleuroxus Baird, 1843, Plurispina Frey, 1991 and Planicirculus Frey, 1991. Previously, large, compressed, and keeled chydorines were regarded as exclusively Australian, agreeing with ideas on a high endemism of the Australian cladoceran fauna. But after my finding of P. smirnovi sp. nov. we can speak only on “a predominantly Australian” distribution of such forms. (© 2008 WILEY‐VCH Verlag GmbH & Co. KGaA, Weinheim)     

Regional localization of th human EGF-like growth factor CRIPTO gene (TDGF-1) to chromosome 3p21

The CRIPTO gene encodes a novel human growth factor structurally related to epidermal growth factor. We localized the CRIPTO gene to chromosome 3p21 by fluorescence in situ hybridization with a cosmid clone containing 40 kb of the CRIPTO genomic region (TDGF-1). To suppress hybridization to CRIPTO-related sequences, present in multiple copies in the human genome, hybridization was carried out in the presence of unlabeled CRIPTO cDNA in excess over the probe. Our finding confirms the provisional mapping of the CRIPTO gene to chromosome 3, and assigns it precisely to a chromosomal region involved in several rearrangements occurring in malignancy.CRIPTO-specific sequences are present in multiple copies in the human genome (Dono et al. 1991). Two genomic CRIPTO-encoding sequences, TDGF-1 and TDGF-3, have been isolated and characterized. TDGF-1 corresponds to the structural gene encoding the protein expressed in teratocarcinoma cells (Ciccodicola et al. 1989). TDGF-3, possibly a functional pseudogene, corresponds to a complete copy of the TDGF-1 mRNA that contains seven base changes representing both silent and replacement substitutions in the coding region (Dono et al. 1991). By somatic cell hybrid analysis TDGF-1 has been assigned to chromosome 3, and TDGF-3 to the Xq21–22 region (Dono et al. 1991).     

Total gene deletions and mutant frequency of the HPRT gene as indicators of radiation exposure in Chernobyl liquidators

This study was conducted to determine the utility of deletion spectrum and mutant frequency (MF) of the hypoxanthine phosphoribosyl transferase gene (HPRT) as indicators of radiation exposure in Russian Liquidators who served in 1986 or 1987 in the clean up effort following the nuclear power plant accident at Chernobyl. HPRT MF was determined using the cloning assay for 117 Russian Controls and 122 Liquidators whose blood samples were obtained between 1991 and 1998. Only subjects from whom mutants were obtained for deletion analysis are included. Multiplex PCR analysis was performed on cell extracts of 1080 thioguanine resistant clones from Controls and 944 clones from Liquidators. Although the deletion spectra of Liquidators and Controls were similar overall, the Liquidator deletion spectrum was heterogeneous over time. Most notable, the proportion of total gene deletions was higher in 1991–1992 Liquidators than in Russian Controls (χ²=10.5, p=0.001) and in 1993–1994 Liquidators (χ²=8.3, p=0.004), and was marginally elevated relative to 1995–1996 Liquidators (χ²=3.3, p=0.07). This type of mutation has been highly associated with radiation exposure. Total gene deletions were not increased after 1992. Band shift mutations were also increased in the 1991–1992 Liquidators but were associated with increased MF of both Liquidators and Controls (p=0.009), not with increased MF in 1991–1992 Liquidators (p=0.7), and hence are not believed to be associated with radiation exposure. Regression analysis demonstrated that relative to Russian Controls HPRT MF was elevated in Liquidators overall when adjusted for age and smoking status (37%, p=0.0001), and also was elevated in Liquidators sampled in 1991–1992 (72%, p=0.0076), 1993–1994 (22%, p=0.037), and 1995–1996 (62%, p=0.0001). In summary, HPRT MF was found to be the more sensitive and persistent indicator of radiation exposure, but the specificity of total gene deletions led to detection of probable heterogeneity of radiation exposure within the exposed population.     

On the Centenary of the Spanish Flu: Being Prepared for the Next Pandemic

正Influenza is one of the oldest infectious diseases affecting humans. Every influenza pandemic in history has ended with disastrous outcomes regarding public health and the social economy. This year marks the 100th anniversary of the Spanish flu (H1N1) outbreak of 1918, which is recognized as the most lethal natural event in recent history. In     

DNA/DNA hybridization studies of carnivorous marsupials. III. Relationships among species ofDidelphis (Didelphidae)

We report three sets of DNA hybridization experiments conducted to determine relationships among species ofDidelphis (D. albiventris, D. marsupialis, D. virginiana). The 1989 and 1991 sets had fewer replicates per cell than the 1990 series (3.4 and 5.4 vs 9), but in 1991 we distinguished two populations ofD. marsupialis and utilized several individuals for each heterologous comparison. BothPhilander opossum andLutreolina crassicaudata were used as outgroups in 1989, but onlyLutreolina was included in subsequent sets. For each set, we calculated all four standard indices of thermal stability (T _mode,T _m,T ₅₀ H, and NPH) and constructed trees by least-squares (FITCH) and neighbor-joining methods, both before and after correction for asymmetric reciprocal cell values. Subsets of the 1989 data lacking eitherPhilander orLutreolina were analyzed similarly. To explore measurement imprecision, the corrected and uncorrected matrices for each of the four indices were bootstrapped 100 times for the 1989 set and subsets and 1000 times for the 1990 and 1991 sets. Again, for the 1990 and 1991 data, an additional 100 bootstrapped distances were fitted to user trees representing the three possible pairings ofDidelphis spp. to determine the significance of the FITCH branch lengths. The successive experimental sets generated increasingly consistent evidence for pairingD. marsupialis withD. albiventris. The 1989 experiments involved just 85 comparisons, and only T _mode's pairedD. marsupialis withD. albiventris (at bootstrap percentages of 70% or above), but did so whetherPhilander orLutreolina or both were included as the outgroup(s). FITCH and neighbor-joining trees had identical topologies for T _mode's but sometimes differed for the other measures. In contrast, all but one of the corresponding FITCH and neighborjoining trees matched for the 1990 and 1991 data, and three of the four distance measures (T _mode, T _m, and T ₅₀ H) unitedD. marsupialis withD. albiventris at bootstrap percentages averaging 81%; NPH gave a different result for 1990, associatingD. marsupialis withD. virginiana. Further, all but 2 of the 16 matrices for 1990 and 1991 gave mean bootstrapped branch lengths for a consensus pairing that were positive and at least one standard deviation from zero, despite the very short internodes recovered. These results illustrate that the potential of DNA hybridization for resolving very close relationships depends on both the index and the experimental design employed. We conclude that of the three species,D. albiventris andD. marsupialis shared a more recent common ancestor and estimate thatDidelphis spp. have diverged at about 0.39% in nucleotide sequence per myr.Deceased.     

Analysis of chemotactic bacterial distributions in population migration assays using a mathematical model applicable to steep or shallow attractant gradients

The mathematical model developed by Riveroet al. (1989,Chem. Engng Sci. 44, 2881–2897) is applied to literature data measuring chemotactic bacterial population distributions in response to steep as well as shallow attractant gradients. This model is based on a fundamental picture of the sensing and response mechanisms of individual bacterial cells, and thus relates individual cell properties such as swimming speed and tumbling frequency to population parameters such as the random motility coefficient and the chemotactic sensitivity coefficient. Numerical solution of the model equations generates predicted bacterial density and attractant concentration profiles for any given experimental assay. We have previously validated the mathematical model from experimental work involving a step-change in the attractant gradient (Fordet al., 1991Biotechnol. Bioengng.37, 647–660; For and Lauffenburger, 1991,Biotechnol. Bioengng,37, 661–672). Within the context of this experimental assay, effects of attractant diffusion and consumption, random motility, and chemotactic sensitivity on the shape of the profiles are explored to enhance our understanding of this complex phenomenon. We have applied this model to various other types of gradients with successful intepretation of data reported by Dalquistet al. (1972,Nature New Biol. 236, 120–123) forSalmonella typhimurum validating the mathematical model and supportin the involvement of high and low affinity receptors for serine chemotaxis by these cells.     

Essay review: Museums: Revisiting sites in the history of the natural sciences

Mary P. Winsor,Reading the shape of Nature: Comparative zoology at the Agassiz Museum (Chacago: University of Chicago Press, 1991); Ronald Rainger,An Agenda for Antiquty: Henry Fairfield Osborn and Vertedrate Paleontology at the American Meseum of Natural History, 1890–1935 (Tuscaloosa: University of Aladama Press, 1991).     

Directed disruption of the Chlamydomonas chloroplast psbK gene destabilizes the photosystem II reaction center complex

Using particle gun-mediated chloroplast transformation we have disrupted the psbK gene of Chlamydomonas reihardtii with an aadA expression cassette that confers resistance to spectinomycin. The transformants are unable to grow photoautotrophically, but they grow normally in acetate-containing medium. They are deficient in photosystem II activity as measured by fluorescence transients and O₂ evolution and they accumulate less than 10% of wild-type levels of photosystem II as measured by immunochemical means. Pulse-labeling experiments indicate that the photosystem II complex is synthesized normally in the transformants. These results differ from those obtained previously with similar cyanobacterial psbK mutants that were still capable of photoautotrophic growth (Ikeuchi et al., J. Biol. Chem. 266 (1991) 1111–1115). In C. reinhardtii the psbK product is required for the stable assembly and/or stability of the photosystem II complex and essential for photoautotrophic growth. The data also suggest that the stability requirements of the photosynthetic complexes differ considerably between C. reinhardtii and cyanobacteria.     

Phytoplankton dynamics in a shallow,hypertrophic reservoir (Lake Arancio,Sicily)

Phytoplankton abundance and composition in the hypertrophic man-made Lake Arancio was analyzed, based on a programme of weekly sampling from May 1990 to November 1991 and supported by measurements of limnological parameters. The highest value of phytoplankton biomass (78 mg l^–1) was observed in October 1990, during a bloom of the desmid Closterium limneticum var. fallax, while the lowest (0.15 mg l^–1) was measured in April 1991. During spring, autumn and winter 1990, species of the genus Closterium dominated the community, in the sequence: C. aciculare, C. limneticum var. fallax, C. limneticum. The summer community was more diverse with the predominance of organisms belonging to Chlorophyceae (Chlamydomonas, Eudorina, Coelastrum) and Cyanophyceae (Microcystis, Anabaena). In spring 1991, there was a long clear-water phase during which small green algae (Ankyra, Oocystis) and cryptomonads dominated. Subsequently, the summer season was characterized by a clear sequence of dominants, drawn, in turns, from species belonging to: Bacillariophyceae, Dinophyceae, Cyanophyceae, Euglenophyceae. The physics of the reservoir and its depth, owing to filling/draining constraints in a summer-arid climate, appeared to play a key role in the dynamics of phytoplankton community.     

A comparative phytosociological study of the subalpine coniferous forests in northeastern Asia

Previous classification systems of the subalpine coniferous forests, belonging to the class Vaccinio-Piceetea Br.-Bl. 1939, in northeastern Asia were reviewed based on phytosociological data of Korea and Japan. A new order, the Abieti nephrolepidis-Piceetalia jezoensis was proposed for the subalpine coniferous forests in the continental part of northeastern Asia. Its distribution range and subordinate vegetation units are as follows:Order Abieti nephrolepidis-Piceetalia jezoensis ordo nov.In Korea:Alliance Abieti nephrolepidis-Piceion jezoensis Song 1991Association Taxo-Pinetum pumilae Song et Nakanishi 1985Association Thujo-Abietetum nephrolepidis Song 1991Association Abieti koreanae-Piceetum jezoensis Song 1991Alliance Abietion koreanae Song 1991Association Saso-Abietetum koreanae Song et Nakanishi 1985Association Betulo saitoanae-Abietetum koreanae (Song et Nakanishi 1985) em. Song 1991In northeast China and Maritime Province of Siberia, U.S.S.R.: (one separate alliance level or the same alliance as Abieti nephrolepidis-Piceion jezoensis)Formation Abies nephrolepis form. (Wu 1980)Formation Picea jezoensis-Abies nephrolepis form. (Wu 1980)Generally the Abieti nephrolepidis-Piceetalia jezoensis develops under the dry and cool continental climate and on the monophylogenic Dark Brown Conifer Soil Group derived mostly from granite and granitic gneiss. The subalpine or subarctic coniferous forests in Hokkaido, Sakhalin and Southern Kuriles may also belong to the Abieti nephrolepidis-Piceetalia jezoensis because of their floristic composition and the historical relevance of plant geography. The subordinate vegetation units are as follows:Alliance Piceion jezoensis Suz.-Tok. ex Jinno et Suzuki 1973Association Piceo-Abietetum sachalinensis Ohba 1967Association Piceetum glehnii Suz.-Tok. ex Miyawaki 1988The Abieti veitchii-Piceetalia jezoensis hondoensis Miyawaki et al. 1968 seems to fit only to the subalpine coniferous forests of Honshu and Shikoku of the Japanese Archipelago.     

Reversal of eutrophication in Lake Geneva: evidence from the oligochaete communities

1. In Lake Geneva (Switzerland), total phosphorus concentrations have decreased from 90 mg m^?3 in 1979 to 55 mg m^?3 in 1990. 2. To assess the effects of this improvement, tubificid and lumbriculid communities were sampled in 1982 and in 1991 in the same areas, at a depth of 40 m. 3. Abundance of mesotrophic species (mostly Potamothrix vejdovskyi) and of eutrophic species (mostly Potamothrix hammoniensis) was lower in 1991 than in 1982; in contrast, oligotrophic species (mostly Peloscolex velutinus) were more abundant in 1991 than in 1982. 4. The changes recorded in 1991 were the same as those associated with a decrease of organic sedimentation. 5. Mean relative abundance of oligotrophic species increased from 17% in 1982 to 41% in 1991. According to these values, Lake Geneva was mesoeutrophic in 1982, but mesotrophic in 1991.