| 1. |
- Sodergren, Erica, et al.
(författare)
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The genome of the sea urchin Strongylocentrotus purpuratus.
- 2006
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Ingår i: Science. - : American Association for the Advancement of Science (AAAS). - 1095-9203 .- 0036-8075. ; 314:5801, s. 941-52
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Tidskriftsartikel (refereegranskat)abstract
- We report the sequence and analysis of the 814-megabase genome of the sea urchin Strongylocentrotus purpuratus, a model for developmental and systems biology. The sequencing strategy combined whole-genome shotgun and bacterial artificial chromosome (BAC) sequences. This use of BAC clones, aided by a pooling strategy, overcame difficulties associated with high heterozygosity of the genome. The genome encodes about 23,300 genes, including many previously thought to be vertebrate innovations or known only outside the deuterostomes. This echinoderm genome provides an evolutionary outgroup for the chordates and yields insights into the evolution of deuterostomes.
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| 2. |
- Ai, Jiayi, et al.
(författare)
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Co-existing two distinct formation mechanisms of micro-scale ooid-like manganese carbonates hosted in Cryogenian organic-rich black shales in South China
- 2023
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Ingår i: Precambrian Research. - : Elsevier B.V.. - 0301-9268 .- 1872-7433. ; 393
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Tidskriftsartikel (refereegranskat)abstract
- Manganese-rich deposits in the lower member of the Datangpo Formation (DTP) (ca. 663–654 Ma) in South China formed in the aftermath of the Cryogenian Sturtian glaciation. The Mn in the DTP occurs dominantly as rhodochrosite and Ca-rhodochrosite. A hydrothermal origin of the Mn2+ is shown by the rare earth element distribution and significantly high Mn/Fe ratios (3–19, average = 10.1). Previous studies suggested a microbially-mediated process for controlling the DTP black-shale hosted Mn carbonate deposits. However, detailed reports on the formation mechanisms of micro-scale (<2–5 μm) ooid-like Mn carbonates in the DTP have rarely been published. Systematic petrography and geochemical analyses in this study demonstrate the coexistence of two types of micro-scale ooidal-like Mn carbonates formed through two distinct mechanisms, either dominated by microbially-mediated or physiochemically-forced pathways. The Type I Mn carbonate has relatively larger grain size of 2–5 μm and exhibits a radial-concentric microfabric that shows signs of growth banding in the form of alternating light and dark laminae, which mainly express variation in Ca and Mn concentrations. The initial precipitation phase of the Type I Mn carbonate is interpreted to be Mn oxide/hydroxide, based on positive Ce anomalies and selective enrichments of particular trace elements. Novel evidence indicates that the capture of Mn as a carbonate phase directly from the water column by primarily precipitated calcite, which is referred to as the Type II Mn carbonate, has also contributed to the DTP Mn-rich deposits. Multiple roles of organic matter in Mn carbonate formation have been established: (1) catalysed Mn-redox cycling; (2) trapping and transportation of initial mineral precipitates to sediments; (3) serving as a carbon source; (4) regulating the morphology of the Mn carbonate. As a key link for understanding Cryogenian carbon and Mn cycling, specific formation pathways for the DTP Mn-carbonates are likely to have been controlled by given atmospheric-oceanic compositions (including oxygen level, pCO2, and redox conditions) in response to major geological and biological events during the interglacial period. In turn, massive storage of inorganic carbon and phosphorous in Mn carbonate phases would have had a substantial influence on biogeochemical carbon cycling during the Cryogenian.
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| 3. |
- Chen, Nansheng, et al.
(författare)
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Identification of ciliary and ciliopathy genes in Caenorhabditis elegans through comparative genomics
- 2006
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Ingår i: Genome Biology. - : Springer Science and Business Media LLC. - 1465-6906 .- 1474-760X. ; 7:12, s. R126-
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Tidskriftsartikel (refereegranskat)abstract
- Background: The recent availability of genome sequences of multiple related Caenorhabditis species has made it possible to identify, using comparative genomics, similarly transcribed genes in Caenorhabditis elegans and its sister species. Taking this approach, we have identified numerous novel ciliary genes in C. elegans, some of which may be orthologs of unidentified human ciliopathy genes. Results: By screening for genes possessing canonical X-box sequences in promoters of three Caenorhabditis species, namely C. elegans, C. briggsae and C. remanei, we identified 93 genes ( including known X-box regulated genes) that encode putative components of ciliated neurons in C. elegans and are subject to the same regulatory control. For many of these genes, restricted anatomical expression in ciliated cells was confirmed, and control of transcription by the ciliogenic DAF-19 RFX transcription factor was demonstrated by comparative transcriptional profiling of different tissue types and of daf-19(+) and daf-19(-) animals. Finally, we demonstrate that the dye-filling defect of dyf-5( mn400) animals, which is indicative of compromised exposure of cilia to the environment, is caused by a nonsense mutation in the serine/threonine protein kinase gene M04C9.5. Conclusion: Our comparative genomics-based predictions may be useful for identifying genes involved in human ciliopathies, including Bardet-Biedl Syndrome ( BBS), since the C. elegans orthologs of known human BBS genes contain X-box motifs and are required for normal dye filling in C. elegans ciliated neurons.
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| 4. |
- Zeron, Melinda M, et al.
(författare)
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Increased Sensitivity to N-Methyl-D-Aspartate Receptor-Mediated Excitotoxicity in a Mouse Model of Huntington's Disease.
- 2002
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Ingår i: Neuron. - 0896-6273. ; 33:6, s. 849-860
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Tidskriftsartikel (refereegranskat)abstract
- Previous work suggests N-methyl-D-aspartate receptor (NMDAR) activation may be involved in degeneration of medium-sized spiny striatal neurons in Huntington's disease (HD). Here we show that these neurons are more vulnerable to NMDAR-mediated death in a YAC transgenic FVB/N mouse model of HD expressing full-length mutant huntingtin, compared with wild-type FVB/N mice. Excitotoxic death of these neurons was increased after intrastriatal injection of quinolinate in vivo, and after NMDA but not AMPA exposure in culture. NMDA-induced cell death was abolished by an NR2B subtype-specific antagonist. In contrast, NMDAR-mediated death of cerebellar granule neurons was not enhanced, consistent with cell-type and NMDAR subtype specificity. Moreover, increased NMDA-evoked current amplitude and caspase-3 activity were observed in transgenic striatal neurons. Our data support a role for NR2B-subtype NMDAR activation as a trigger for selective neuronal degeneration in HD.
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