Fine-scale structural variation of the human genome

Inversions, deletions and insertions are important mediators of disease and disease susceptibility. We systematically compared the human genome reference sequence with a second genome (represented by fosmid paired-end sequences) to detect intermediate-sized structural variants >8 kb in length. We identified 297 sites of structural variation: 139 insertions, 102 deletions and 56 inversion breakpoints. Using combined literature, sequence and experimental analyses, we validated 112 of the structural variants, including several that are of biomedical relevance. These data provide a fine-scale structural variation map of the human genome and the requisite sequence precision for subsequent genetic studies of human disease.     

Neurobasal~(TM)-A和DMEM/F12培养液对大鼠胎儿神经干细胞生长的影响

用带有 3 [H]的胸苷对分裂细胞进行标记 ,通过细胞计数仪测定细胞数量的方法 ,对比了大鼠胎儿神经干细胞在添加相同成分的 Neurobasal TM-A和 DMEM/F1 2培养液中的生长情况 .结果表明 Neurobasal TM-A在有 EGF和 b FGF存在的情况下更适合于神经干细胞的生长和存活     

Bird use of riparian vegetation along the Truckee River, Califonia and Nevada

The Truckee River in California and Nevada is subject to diverse water regimes and a corresponding variety of flow rates. Original riparian vegetation has been altered by these variable flow rates and by a variety of human uses resulting in loss of native riparian vegetation from its historic extent. We conducted bird surveys along the Truckee River during spring 193 to (1) determine relationships between birds and the present vegetation; (2) determine the importance of different vegetation types to sensitive bird species that have declined recently in the western United States due to competition from exotic plant species, cowbird ( Molothrus ater ) parasitism, reduction in nesting habitat, or other unidentified reasons; and (3) establish a monitoring program and collect baseline data for future comparisons. The most frequently detected bird species throughout the study was the Brown-headed Cowbird. The greatest number of bird species (98 of 116) was found in the native mixed willow ( Salix spp.) riparian scrub vegetation type. We recommend protecting the remaining native riparian vegetation types for bird habitat along the Truckee River.     

Distribution and abundance of birds in the White Mountains, California

This paper quantifies the distribution and abundance of birds in the White Mountains, Inyo and Mono counties, California, during spring-summer 1989-91, to establish a baseline for monitoring the area's avifauna. Overall 58 species were encountered in the single-leaf pinyon-Utah juniper ( Pinus monophylla-Juniperus osteosperma ) zone, and 61 species in the bristlecone-limber pine ( P. longaeva-P. flexilis ) zone. The bristlecone-limber pine zone had a significantly greater overall bird abundance relative to the pinyon-juniper. Both zones were characterized by few very abundant species, a few moderately abundant species, and numerous rare species. The Black-throated Gray Warbler (scientific names in tables), Gray Flycatcher, and Pinyon Jay were the most abundant species in the pinyon-juniper whereas the Clark's Nutcracker, Mountain Chickadee, and Cassin's Finch were the most abundant species in the bristlecone-limber pine. There were few ecological or taxonomic replacements of species between zones, with the differences in distribution and abundance related primarily to the interaction between elevation and vegetation. Significant inter-year variation in abundance was found for about 20 species in each zone—more species showed declining rather than increasing trends. The Mountain Chickadee and White-breasted Nuthatch declined, whereas the Gray Flycatcher and Rock Wren increased across years in both zones. Reasons for declines in some species might be the severe drought that continued throughout this study.     

Ultra-high suppression microwave photonic bandstop filters

A bandstop radio frequency （RF） filter can enhance the capabilities of RF communication systems by removing unwanted signal components such as distortion, or interference. In modem cognitive radio systems, frequency agile filters are desired to block interferers with dynamically changing frequencies and powers. These filters should be tunable over a broad frequency range, and they should be capable of suppressing very strong signals with a high resolution. To simultaneously meet these requirements with traditional RF filters are highly chal- lenging. Microwave photonic （MWP）, a technology that primary deals with the generation, distribution, and processing of high speed RF signals using photonic techniques and components, is promising for creating frequency agile RF filters. However, traditional MWP filters are lacking the high resolution and peak suppression exhibited by state-of-the-art RF electrical filters. We recently introduced a new class of MWP notch filter which is free from this limitation. This scheme allowed the creation of anomalously high suppression MWP notch filter from virtually any kind of optical resonance, irrespective of its type （gain or absorp tion）, or its magnitude. This enabled, for the first time, simultaneous optimization of the MWP filter resolution, peak attenuation, and frequency tuning range. In this paper, we present the analysis of notch filter response creation using the novel sideband processing technique. We then show the applicability of this technique to a wide range of optical filters. We compare simulated and experimental results of the notch filter response created using three types of optical filter commonly used in MWP signal processing, namely stimulated Brillouin scattering （SBS）, an integrated optical ring resonator （ORR）, and a phase-shifted fiber Bragg-grating （FBG）.     

Haematopoietic stem cells do not asymmetrically segregate chromosomes or retain BrdU

Stem cells are proposed to segregate chromosomes asymmetrically during self-renewing divisions so that older ('immortal') DNA strands are retained in daughter stem cells whereas newly synthesized strands segregate to differentiating cells. Stem cells are also proposed to retain DNA labels, such as 5-bromo-2-deoxyuridine (BrdU), either because they segregate chromosomes asymmetrically or because they divide slowly. However, the purity of stem cells among BrdU-label-retaining cells has not been documented in any tissue, and the 'immortal strand hypothesis' has not been tested in a system with definitive stem cell markers. Here we tested these hypotheses in haematopoietic stem cells (HSCs), which can be highly purified using well characterized markers. We administered BrdU to newborn mice, mice treated with cyclophosphamide and granulocyte colony-stimulating factor, and normal adult mice for 4 to 10 days, followed by 70 days without BrdU. In each case, less than 6% of HSCs retained BrdU and less than 0.5% of all BrdU-retaining haematopoietic cells were HSCs, revealing that BrdU has poor specificity and poor sensitivity as an HSC marker. Sequential administration of 5-chloro-2-deoxyuridine and 5-iodo-2-deoxyuridine indicated that all HSCs segregate their chromosomes randomly. Division of individual HSCs in culture revealed no asymmetric segregation of the label. Thus, HSCs cannot be identified on the basis of BrdU-label retention and do not retain older DNA strands during division, indicating that these are not general properties of stem cells.     

NLRX1 is a regulator of mitochondrial antiviral immunity

The RIG-like helicase (RLH) family of intracellular receptors detect viral nucleic acid and signal through the mitochondrial antiviral signalling adaptor MAVS (also known as Cardif, VISA and IPS-1) during a viral infection. MAVS activation leads to the rapid production of antiviral cytokines, including type 1 interferons. Although MAVS is vital to antiviral immunity, its regulation from within the mitochondria remains unknown. Here we describe human NLRX1, a highly conserved nucleotide-binding domain (NBD)- and leucine-rich-repeat (LRR)-containing family member (known as NLR) that localizes to the mitochondrial outer membrane and interacts with MAVS. Expression of NLRX1 results in the potent inhibition of RLH- and MAVS-mediated interferon-beta promoter activity and in the disruption of virus-induced RLH-MAVS interactions. Depletion of NLRX1 with small interference RNA promotes virus-induced type I interferon production and decreases viral replication. This work identifies NLRX1 as a check against mitochondrial antiviral responses and represents an intersection of three ancient cellular processes: NLR signalling, intracellular virus detection and the use of mitochondria as a platform for anti-pathogen signalling. This represents a conceptual advance, in that NLRX1 is a modulator of pathogen-associated molecular pattern receptors rather than a receptor, and identifies a key therapeutic target for enhancing antiviral responses.