A Nonpolymorphic Class I Gene in the Murine Major Histocompatibility Complex

DNA sequence analysis of a class I gene (QlO), which maps to the Qa2,3 locus in the C57BL/lO (H- 2b haplotype) mouse, reveals that it is almost identical to a cDNA clone (pH16) isolated from a SWR/J (H-2q haplotype) mouse liver cDNA library. Exon 5, in particular, has an unusual structure such that a polypeptide product is unlikely to be anchored in the cell membrane. Our findings suggest that the two sequences are derived from allelic class I genes, which are nonpolymorphic, in contrast to H-2K allelic sequences from the same mice, and they may encode liver-specific polypeptides of unknown function. Our previous studies indicate that the QlO gene is a potential donor gene for the generation of mutations at the H-2K locus by inter-gene transfer of genetic information. Thus the lack of polymorphism in class I genes at the QlO locus implies either that they are not recipients for such exchanges or that selective pressure prevents the accumulation of mutations in genes at this locus

High-Speed Message Routing Mechanisms for Massively Parallel Computers

現在超並列処理システム(MPP)は、伝統的なベクトルプロセッサやSIMDマシンの 牙城であった多くの分野に進出している。これらのシステムは、入手が容易な高性能 CPUの急激な進歩をうまく利用し、これらを数百～数千個接続して均質なマルチプ ロセッサのシステムとして構成したものである。しかし、これらのシステムの性能は、 現実の問題を解くときは必ずしも良くなく、常に公称の最高性能にははるかに及ばな いのが現状である。これらのシステムではプロセッサ間の通信はすべて相互結合網に よって行われるので、実現可能な最高性能を決める決定的な要素は相互結合網と、そ れに使われる通信機構である。 本論文ではMPPの相互結合網に使われる、効率的な通信機構を実現する2つの方法 を提案する。第1は「特急ルータ」の提案であり、これを相互結合網に用いた場合の 適合性を検註する。特急ルータは多重の単方向レジスタ挿入パスを利用して、時間 空間混合分割型ネットワークを実現するためのものである。異なる基数や次元数につ いて、特急ルータのスイッチ回路とバッファ回路の性能を予測するための正確なモデ ルを開発した。この結果、特急ルータは効率的な通信を行うためのすべての条件を満 足していることが確かめられた。さらに重要な点は、特急ルータはネットワークに故 障のある場合や、通信が錯綜する場合にも、低遅延時間、高スループットを損なわな い経路制御が行えることである。シミュレーションによって評価した特急ルータのの 性能は、これまでに発表された固定経路選択方式のルータより優れており、また他の 適応経路制御方式のルータに比べても、同程度あるいはそれを越えていることが確か められた。 第2は経路長制限方式のマルチキャスト通信の提案である。マルチキャスト通信は 多くの並列処理問題において速度向上に寄与する通信方式である。そこでワームホー ル通信方式において問題となるマルチキャスト通信におけるデッドロックの問題につ いて研究した。そしてこの問題を解決する方法として経路長制限方式のマルチキャス ト通信を提案し、この方式による通信性能をシミュレーションによって評価し、ユニ キャスト方式やマルチパス方式によるマルチキャスト通信の性能と比較した。その結 果、提案する経路長制限方式のマルチキャスト通信は、パリヤ同期のためのクラスタ へのマルチキャスト通信や、最近傍ノードへのマルチキャストや全ノードへの放送の 場合に、特に優れた解決法となることを明らかにした

Lack of class I H-2 antigens in cells transformed by radiation leukemia virus is associated with methylation and rearrangement of H-2 DNA

Transformation of murine thymocytes by radiation leukemia virus is associated with reduced expression of the class I antigens encoded in the major histocompatibility complex (MHC) and increased methylation and altered restriction enzyme patterns of MHC DNA. These changes may play a role in host susceptibility to virus-induced leukemogenesis and accord with the notion that viral genomes play a regulatory function when they integrate adjacent to histocompatibiity genes

The genetic diversity and evolution of field pea (Pisum) studied by high throughput retrotransposon based insertion polymorphism (RBIP) marker analysis

BACKGROUND: The genetic diversity of crop species is the result of natural selection on the wild progenitor and human intervention by ancient and modern farmers and breeders. The genomes of modern cultivars, old cultivated landraces, ecotypes and wild relatives reflect the effects of these forces and provide insights into germplasm structural diversity, the geographical dimension to species diversity and the process of domestication of wild organisms. This issue is also of great practical importance for crop improvement because wild germplasm represents a rich potential source of useful under-exploited alleles or allele combinations. The aim of the present study was to analyse a major Pisum germplasm collection to gain a broad understanding of the diversity and evolution of Pisum and provide a new rational framework for designing germplasm core collections of the genus. RESULTS: 3020 Pisum germplasm samples from the John Innes Pisum germplasm collection were genotyped for 45 retrotransposon based insertion polymorphism (RBIP) markers by the Tagged Array Marker (TAM) method. The data set was stored in a purpose-built Germinate relational database and analysed by both principal coordinate analysis and a nested application of the Structure program which yielded substantially similar but complementary views of the diversity of the genus Pisum. Structure revealed three Groups (1-3) corresponding approximately to landrace, cultivar and wild Pisum respectively, which were resolved by nested Structure analysis into 14 Sub-Groups, many of which correlate with taxonomic sub-divisions of Pisum, domestication related phenotypic traits and/or restricted geographical locations. Genetic distances calculated between these Sub-Groups are broadly supported by principal coordinate analysis and these, together with the trait and geographical data, were used to infer a detailed model for the domestication of Pisum. CONCLUSIONS: These data provide a clear picture of the major distinct gene pools into which the genus Pisum is partitioned and their geographical distribution. The data strongly support the model of independent domestications for P. sativum ssp abyssinicum and P. sativum. The relationships between these two cultivated germplasms and the various sub-divisions of wild Pisum have been clarified and the most likely ancestral wild gene pools for domesticated P. sativum identified. Lastly, this study provides a framework for defining global Pisum germplasm which will be useful for designing core collections

Genome-wide association mapping in winter barley for grain yield and culm cell wall polymer content using the high-throughput CoMPP technique

<div><p>A collection of 112 winter barley varieties (<i>Hordeum vulgare</i> L.) was grown in the field for two years (2008/09 and 2009/10) in northern Italy and grain and straw yields recorded. In the first year of the trial, a severe attack of barley yellow mosaic virus (BaYMV) strongly influenced final performances with an average reduction of ~ 50% for grain and straw harvested in comparison to the second year. The genetic determination (GD) for grain yield was 0.49 and 0.70, for the two years respectively, and for straw yield GD was low in 2009 (0.09) and higher in 2010 (0.29). Cell wall polymers in culms were quantified by means of the monoclonal antibodies LM6, LM11, JIM13 and BS-400-3 and the carbohydrate-binding module CBM3a using the high-throughput CoMPP technique. Of these, LM6, which detects arabinan components, showed a relatively high GD in both years and a significantly negative correlation with grain yield (GYLD). Overall, heritability (<i>H</i>^<i>2</i>) was calculated for GYLD, LM6 and JIM and resulted to be 0.42, 0.32 and 0.20, respectively. A total of 4,976 SNPs from the 9K iSelect array were used in the study for the analysis of population structure, linkage disequilibrium (LD) and genome-wide association study (GWAS). Marker-trait associations (MTA) were analyzed for grain yield and cell wall determination by LM6 and JIM13 as these were the traits showing significant correlations between the years. A single QTL for GYLD containing three MTAs was found on chromosome 3H located close to the Hv-eIF4E gene, which is known to regulate resistance to BaYMV. Subsequently the QTL was shown to be tightly linked to rym4, a locus for resistance to the virus. GWAs on arabinans quantified by LM6 resulted in the identification of major QTLs closely located on 3H and hypotheses regarding putative candidate genes were formulated through the study of gene expression levels based on bioinformatics tools.</p></div