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  • 1
    Publication Date: 2024-02-29
    Description: The motivation for ISSS-08 was to alleviate the scarcity of observational data on transport and processing of water, sediment and carbon on the East Siberian Arctic Shelves (ESAS). The region is of particular interest from the perspective of carbon-climate couplings as it has witnessed a 4°C springtime positive temperature anomaly for 2000-2005 compared with preceding decades. A complex sampling program was accomplished during the 50-days ISSS-08 cruise August - September 2008 by participants from 12 organizations in Russia, Sweden, UK and USA.
    Keywords: Alkalinity, total; Ammonium; Arctic Ocean; Carbon dioxide; Chukchi Sea; Coulometric titration; CTD, Sea-Bird SBE 911plus; CTD/Rosette; CTD-RO; East Siberian Sea; EIectron capture detection gas chromatography (ECD-GC); EPOCA; European Project on Ocean Acidification; Event label; Freon-11 (trichorofluoromethane); Freon-113; Freon-12 (dichlorodifluoromethane); International Siberian Shelf Study 2008; ISSS-08; ISSS-08_1; ISSS-08_10; ISSS-08_100; ISSS-08_101; ISSS-08_102; ISSS-08_103; ISSS-08_104; ISSS-08_105; ISSS-08_106; ISSS-08_107; ISSS-08_108; ISSS-08_109; ISSS-08_11; ISSS-08_110; ISSS-08_111; ISSS-08_112; ISSS-08_115; ISSS-08_116; ISSS-08_117; ISSS-08_119; ISSS-08_120; ISSS-08_121; ISSS-08_122; ISSS-08_123; ISSS-08_125; ISSS-08_126; ISSS-08_127; ISSS-08_131; ISSS-08_2; ISSS-08_20; ISSS-08_21; ISSS-08_22; ISSS-08_23; ISSS-08_24; ISSS-08_25; ISSS-08_26; ISSS-08_27; ISSS-08_28; ISSS-08_29; ISSS-08_3; ISSS-08_30; ISSS-08_31; ISSS-08_32; ISSS-08_33; ISSS-08_34; ISSS-08_35; ISSS-08_36; ISSS-08_37; ISSS-08_38; ISSS-08_39; ISSS-08_4; ISSS-08_40; ISSS-08_41; ISSS-08_42; ISSS-08_43; ISSS-08_45; ISSS-08_47; ISSS-08_49; ISSS-08_5; ISSS-08_51; ISSS-08_52; ISSS-08_54; ISSS-08_56; ISSS-08_58; ISSS-08_6; ISSS-08_60; ISSS-08_62; ISSS-08_63; ISSS-08_65; ISSS-08_67; ISSS-08_69; ISSS-08_7; ISSS-08_71; ISSS-08_72; ISSS-08_74; ISSS-08_76; ISSS-08_78; ISSS-08_79; ISSS-08_8; ISSS-08_80; ISSS-08_81; ISSS-08_82; ISSS-08_83; ISSS-08_84; ISSS-08_85; ISSS-08_86; ISSS-08_87; ISSS-08_88; ISSS-08_89; ISSS-08_9; ISSS-08_90; ISSS-08_92; ISSS-08_93; ISSS-08_94; ISSS-08_95; ISSS-08_96; ISSS-08_97; ISSS-08_98; ISSS-08_99; Kara Sea; Laptev Sea; LATITUDE; LONGITUDE; Nitrate; Oxygen; pH; Phosphate; Pressure, water; Salinity; Salinometer, Guildline Instruments, 8400A Autosal; Silicate; Smartchem analyser (spectrophotometric detection); Spectrophotometry; Temperature, water; Tetrachloromethane; Titration, Winkler; Titration potentiometric; Yakov Smirnitskiy
    Type: Dataset
    Format: text/tab-separated-values, 6712 data points
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  • 2
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    PANGAEA
    In:  Supplement to: Berg, Florian; Almeland, Oda W; Skadal, Julie; Slotte, Aril; Andersson, Leif; Folkvord, Arild (2018): Genetic factors have a major effect on growth, number of vertebrae and otolith shape in Atlantic herring (Clupea harengus). PLoS ONE, 13(1), e0190995, https://doi.org/10.1371/journal.pone.0190995
    Publication Date: 2024-03-27
    Description: Atlantic herring, Clupea harengus, have complex population structures and different populations can be found in fully marine, as well as nearly freshwater conditions. Mixing of populations is known, but the extent of connectivity is still unclear. Ripe spring spawning herring were collected in marine (salinity 35, Atlantic) and brackish water (salinity 6, Baltic Sea) conditions. One Atlantic herring female was crossed with one Atlantic and one Baltic male generating an F1-generation consisting of Atlantic purebreds and Atlantic/Baltic hybrids which were incubated and co-reared at two different salinities, 16 and 35 respectively, for three years. The F1-generation was repeatedly sampled for length measurements, vertebral counts and otoliths were also extracted for shape analysis. Atlantic purebreds grew better than Atlantic/Baltic hybrids at salinity 35, but not at salinity 16. In contrast, Atlantic/Baltic hybrids achieved larger size-at-age than the wild caught Baltic parental group. Mean vertebral counts and otolith aspect ratios were higher for Atlantic purebreds than Atlantic/Baltic hybrids, consistent with the parental groups. There were no differences in vertebral counts and otolith aspect ratios between herring with the same genotype but raised in different salinities. A Canonical Analysis of Principal Coordinates was applied to analyze the variation in wavelet coefficients that described otolith shape. The first discriminating axis identified the differences between Atlantic purebreds and Atlantic/Baltic hybrids, while the second axis represented salinity differences. These results demonstrate that otolith shape and vertebral counts have a significant genetic component and are therefore useful for studies on population dynamics and connectivity.
    Type: Dataset
    Format: application/zip, 2 datasets
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  • 3
    Publication Date: 2024-03-27
    Keywords: BIO; Biology; Coefficient; DATE/TIME; Event label; Fish, total length; Fish, wet mass; Gulf of Bothnia, Baltic sea; Herring_St17; Herring_St5; Latitude of event; Longitude of event; North Atlantic; Number of individuals; Number of vertebrae; Otolith, length; Otolith, width; Species; Species, common name; Station label
    Type: Dataset
    Format: text/tab-separated-values, 11375 data points
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  • 4
    Publication Date: 2024-03-27
    Keywords: Coefficient; DATE/TIME; Fish, total length; Number of individuals; Number of vertebrae; Otolith, length; Otolith, width; Salinity; Time in days; Type
    Type: Dataset
    Format: text/tab-separated-values, 50122 data points
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  • 5
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract The evolution ofMHC polymorphism has been studied by comparing the amino acid and nucleotide sequences of 14 bovine and 32 humanDRB alleles. The comparison revealed an extensive sharing of polymorphic sequence motifs in the two species. Almost identical sets of residues were found at several highly polymorphic amino acid positions in the putative antigen recognition site. Consequently, certain bovine alleles were found to be more similar to certain human alleles than to other bovine alleles. In contrast, the frequencies of silent nucleotide substitutions were found to be much higher in comparisons between species than within species implying that none of the human or bovine DRB alleles originated before the divergence of these distantly related species. The results suggest that the observed similarity inDRB polymorphism is due to convergent evolution and possibly the sharing of short ancestral sequence motifs. However, the relative role of the latter mechanism is difficult to assess due to the biased base composition in the first domain exon of polymorphic class 11 β genes. The frequency of silent substitutions betweenDRB alleles was markedly lower in cattle than in man suggesting that theDRB diversity has evolved more rapidly in the former species.
    Type of Medium: Electronic Resource
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  • 6
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract  The pig major histocompatibility complex DRB genes were studied by polymerase chain reaction (PCR) amplification of exon 2 from eight domestic pigs and two European wild boars. Sequence comparisons together with a phylogenetic analysis showed the existence of at least three DRB genes of which only one appears to be expressed. The two putative DRB pseudogenes contained deletions in exon 2, making it possible to confirm the presence of three non-allelic DRB genes by analyzing the length polymorphism of the amplified PCR products. The expressed gene shows allelic polymorphism at the same positions as in the human DRB1 gene. In addition, this pig gene shows extensive allelic polymorphism at positions 84 – 88, whereas, e. g., human DRB genes do not. Surprisingly, the two putative DRB pseudogenes also display a considerable amount of allelic polymorphism, albeit of a different character as compared with the expressed DRB gene. Short stretches of sequences are shared between individual alleles at different loci. These sequence similarities cannot be due to natural selection, since two of the three DRB genes involved are polymorphic pseudogenes constituting allelic series that have diverged after the inactivation event. Instead, the results indicate that the sequences have been exchanged between the DRB genes by intergenic recombination.
    Type of Medium: Electronic Resource
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  • 7
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Class II genes of the major histocompatibility complex (MHC) in the chicken have been investigated by Southern blot analysis using human cDNA probes for DQ α , DQ β , DR α , and DR β . Both β probes but not the α probes cross-hybridized well with chicken DNA. The results indicated that the β probes hybridized with at least two β genes in the chicken MHC and there was no clear indication of a DQ-DR subdivision of chicken class II β genes. The possibility of using human β probes for MHC typing in the chicken was tested by using two homozygous individuals for each of 20 different, serologically defined, MHC (B) haplotypes originating from the domestic breeds of White Leghorn and Rhode Island Red, or from Red Jungle Fowl (the wild ancestral form). Genomic DNA samples from these individuals were digested with any one of the Eco RI and Pvu II restriction enzymes and hybridized with the DR β probe. Restriction fragment length polymorphism (RFLP) was obtained with Pvu II only, which resolved seven different RFLP types. There was an excellent correlation between these RFLP types and the serological B typing since the RFLP type was identical within each pair of homozygotes. In addition to this broad survey of many haplotypes, a more detailed comparison was carried out on β 21-like haplotypes originating from different breeds. No differences in restriction fragment patterns among these haplotypes could be resolved using any of the restriction enzymes Bg 111, Eco RI, Hind III, Pst 1, Pvu II, and Taq I.
    Type of Medium: Electronic Resource
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  • 8
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Genetic exchange of sequence information between members of a gene family, generally denoted gene conversion, causes a phenomenon called “concerted evolution” meaning that non-allelic genes do not evolve independently. The possible significance of this phenomenon in the evolution of major histocompatibility complex (MHC) class II genes has been investigated in the present study. The results of a phylogenetic analysis of human, mouse, bovine, and chicken class II sequences were consistent with the occurrence of gene conversion between polymorphic class II β genes (i. e. DPB, DQB, and DRB) but not between these genes and the monomorphic DOB gene or between class II α genes. Gene conversion between polymorphic β genes appears to be restricted to a gene segment between approximately nucleotide positions 94–286 in the first domain exon. Due to this genetic exchange, there is a greater interlocus similarity both at the DNA and protein level in this region than in the rest of the sequence. The region encodes a functionally important part of the class II molecule including more than half of the β-chain residues of the antigen binding site and the residues in the α helix assumed to form contact with the T-cell receptor. The observed similarity in the α-helical region of class II β molecules may be functionally significant for the utilization of the T-cell repertoire for antigen recognition in the immune system.
    Type of Medium: Electronic Resource
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  • 9
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract The genetic diversity of bovine class II DQB genes was investigated by polymerase chain reaction amplification and DNA sequencing. The first domain exon was amplified from genomic DNA samples representing 14 class II haplotypes, defined by restriction fragment length polymorphism (RFLP) analysis. The presence of a polymorphism in the copy number of DQB genes was confirmed since two DQB sequences were isolated from certain haplotypes. Four subtypes of bovine DQB genes were found. DQB1 is the major type and was found in almost all haplotypes. DQB2 is very similar DQB1 but was found only in the duplicated haplotypes DQ9 to 12. DQB3 and DQB4 are two quite divergent genes only present in certain duplicated haplotypes. The bovine DQB complexity thus resembles that in the human DRB region. Bovine DQB genes were found to be highly polymorphic as ten DQB1 alleles and four DQB2 alleles were identified. The observed sequence polymorphism correlated well with previously defined DQB RFLPs. Bovine and human DQB alleles show striking similarities at the amino acid level. In contrast, the frequency of silent substitutions is much higher in comparisons of DQB alleles between species than within species ruling out the possibility that any of the contemporary DQB alleles have been maintained since the divergence of humans and cattle. The frequency of silent substitutions between DQB alleles was markedly lower in cattle than in humans, in agreement with a previous comparison of human and bovine DRB alleles.
    Type of Medium: Electronic Resource
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  • 10
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Class II genes of the bovine major histocompatibility complex (MHC) have been investigated by Southern blot analysis using human DNA probes. Previous studies revealed the presence of bovine DO β , DQ α , DQ β , DR α and DR β genes, and restriction fragment length polymorphisms for each of these genes were documented. In the present study, the presence of three additional class II genes, designated DZ α , DY α , and DY β , are reported. DZ α was assumed to correspond to the human DZ α gene while the other two were designated DY because their relationship to human class II genes could not be firmly established. The linkage relationships among bovine class II genes and two additional loci, TCP1B and C4, were investigated by family segregation analysis and analysis of linkage disequilibrium. The results clearly indicated that all these loci belong to the same linkage group. This linkage group is divided into two subregions separated by a fairly high recombination frequency. One region includes the C4, DQ α , DQ β , DR α and DR β loci and the other one is composed of the DO β DY α , DY β , and TCPIB loci. No recombinant was observed within any of these subregions and there was a strong or fairly strong linkage disequilibrium between loci within groups. In contrast, as many as five recombinants among three different families were detected in the interval between these subregions giving a recombination frequency estimate of 0.17 ± 0.07. The fairly high recombination frequency observed between class 11 genes in cattle is strikingly different from the corresponding recombination estimates in man and mouse. The finding implies either a much larger molecular distance between some of the bovine class II genes or alternatively the presence of a recombinational “hot spot” in the bovine class II region.
    Type of Medium: Electronic Resource
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