Biomineral Proteins from Mytilus edulis Mantle Tissue Transcriptome

The common blue mussel, Mytilus edulis, has a bimineralic shell composed of approximately equal proportions of the two major polymorphs of calcium carbonate: calcite and aragonite. The exquisite biological control of polymorph production is the focus of research interest in terms of understanding the details of biomineralisation and the proteins involved in the process of complex shell formation. Recent advances in ease and availability of pyrosequencing and assembly have resulted in a sharp increase in transcriptome data for invertebrate biominerals. We have applied Roche 454 pyrosequencing technology to profile the transcriptome for the mantle tissue of the bivalve M. edulis. A comparison was made between the results of several assembly programs: Roche Newbler assembler versions 2.3, 2.5.2 and 2.6 and MIRA 3.2.1 and 3.4.0. The Newbler and MIRA assemblies were subsequently merged using the CAP3 assembler to give a higher consensus in alignments and a more accurate estimate of the true size of the M. edulis transcriptome. Comparison sequence searches show that the mantle transcripts for M. edulis encode putative proteins exhibiting sequence similarities with previously characterised shell proteins of other species of Mytilus, the Bivalvia Pinctada and haliotid gastropods. Importantly, this enhanced transcriptome has detected several transcripts that encode proteins with sequence similarity with previously described shell biomineral proteins including Shematrins and lysine-rich matrix proteins (KRMPs) not previously found in Mytilus. © 2013 The Author(s)

Spatio-Temporal Change of LakeWater Extent in Wuhan Urban Agglomeration Based on Landsat Images from 1987 to 2015

Urban lakes play an important role in urban development and environmental protection for the Wuhan urban agglomeration. Under the impacts of urbanization and climate change, understanding urban lake-water extent dynamics is significant. However, few studies on the lake-water extent changes for the Wuhan urban agglomeration exist. This research employed 1375 seasonally continuous Landsat TM/ETM+/OLI data scenes to evaluate the lake-water extent changes from 1987 to 2015. The random forest model was used to extract water bodies based on eleven feature variables, including six remote-sensing spectral bands and five spectral indices. An accuracy assessment yielded a mean classification accuracy of 93.11%, with a standard deviation of 2.26%. The calculated results revealed the following: (1) The average maximum lake-water area of the Wuhan urban agglomeration was 2262.17 km2 from 1987 to 2002, and it decreased to 2020.78 km2 from 2005 to 2015, with a loss of 241.39 km2 (10.67%). (2) The lake-water areas of loss of Wuhan, Huanggang, Xianning, and Xiaogan cities, were 114.83 km2, 44.40 km2, 45.39 km2, and 31.18 km2, respectively, with percentages of loss of 14.30%, 11.83%, 13.16%, and 23.05%, respectively. (3) The lake-water areas in the Wuhan urban agglomeration were 226.29 km2, 322.71 km2, 460.35 km2, 400.79 km2, 535.51 km2, and 635.42 km2 under water inundation frequencies of 5%–10%, 10%–20%, 20%–40%, 40%–60%, 60%–80%, and 80%–100%, respectively. The Wuhan urban agglomeration was approved as the pilot area for national comprehensive reform, for promoting resource-saving and environmentally friendly developments. This study could be used as guidance for lake protection and water resource management

Chromosome-level genome assembly of a high-altitude-adapted frog (Rana kukunoris) from the Tibetan plateau provides insight into amphibian genome evolution and adaptation

Background The high-altitude-adapted frog Rana kukunoris, occurring on the Tibetan plateau, is an excellent model to study life history evolution and adaptation to harsh high-altitude environments. However, genomic resources for this species are still underdeveloped constraining attempts to investigate the underpinnings of adaptation. Results The R. kukunoris genome was assembled to a size of 4.83 Gb and the contig N50 was 1.80 Mb. The 6555 contigs were clustered and ordered into 12 pseudo-chromosomes covering similar to 93.07% of the assembled genome. In total, 32,304 genes were functionally annotated. Synteny analysis between the genomes of R. kukunoris and a low latitude species Rana temporaria showed a high degree of chromosome level synteny with one fusion event between chr11 and chr13 forming pseudo-chromosome 11 in R. kukunoris. Characterization of features of the R. kukunoris genome identified that 61.5% consisted of transposable elements and expansions of gene families related to cell nucleus structure and taste sense were identified. Ninety-five single-copy orthologous genes were identified as being under positive selection and had functions associated with the positive regulation of proteins in the catabolic process and negative regulation of developmental growth. These gene family expansions and positively selected genes indicate regions for further interrogation to understand adaptation to high altitude. Conclusions Here, we reported a high-quality chromosome-level genome assembly of a high-altitude amphibian species using a combination of Illumina, PacBio and Hi-C sequencing technologies. This genome assembly provides a valuable resource for subsequent research on R. kukunoris genomics and amphibian genome evolution in general.Peer reviewe

Loss-of-function mutations in Lysyl-tRNA synthetase cause various leukoencephalopathy phenotypes

Objective: To expand the clinical spectrum of lysyl-tRNA synthetase (KARS) gene–related diseases, which so far includes Charcot-Marie-Tooth disease, congenital visual impairment and microcephaly, and nonsyndromic hearing impairment. Methods: Whole-exome sequencing was performed on index patients from 4 unrelated families with leukoencephalopathy. Candidate pathogenic variants and their cosegregation were confirmed by Sanger sequencing. Effects of mutations on KARS protein function were examined by aminoacylation assays and yeast complementation assays. Results: Common clinical features of the patients in this study included impaired cognitive ability, seizure, hypotonia, ataxia, and abnormal brain imaging, suggesting that the CNS involvement is the main clinical presentation. Six previously unreported and 1 known KARS mutations were identified and cosegregated in these families. Two patients are compound heterozygous for missense mutations, 1 patient is homozygous for a missense mutation, and 1 patient harbored an insertion mutation and a missense mutation. Functional and structural analyses revealed that these mutations impair aminoacylation activity of lysyl-tRNA synthetase, indicating that de- fective KARS function is responsible for the phenotypes in these individuals. Conclusions: Our results demonstrate that patients with loss-of-function KARS mutations can manifest CNS disorders, thus broadening the phenotypic spectrum associated with KARS-related disease

Non-contact and non-invasive water level measurement outside metal pipes with electromagnetic acoustic resonance

Accurate measurements of water levels within metal pipes are vital, particularly in environments where thick-walled pipes serve as critical components, such as in nuclear facilities. Measuring water levels in pipes becomes more difficult under high temperatures and pressures. In response to this need, a method involving electromagnetic acoustic measurement is proposed. This method begins with a transducer emitting a high-frequency pulse designed for precise measurements of wall thickness, then calculates the resonance frequency using the time intervals between echoes. Finally, the transducer emits an excitation signal at the fundamental resonance frequency to measure the water level. At low water levels, the measurement is conducted by manually scanning along the pipes, utilizing varying energy losses. At high water levels, the resonance echo method is employed. Numerical simulations have demonstrated that this approach effectively improves signal amplitude, thereby ensuring the robustness of the measurement. Experimental results also demonstrated that the proposed method boosted the echo signal-to-noise ratio to approximately 15 dB. Additionally, it successfully detected water levels in both aluminum and stainless-steel pipes. Therefore, it is considered to be a highly efficient non-contact and non-invasive method to measure liquid levels in metal pipes, and it has proved to hold significant potential for engineering applications

Neonatal rhesus monkey is a potential animal model for studying pathogenesis of EV71 infection

AbstractData from limited autopsies of human patients demonstrate that pathological changes in EV71-infected fatal cases are principally characterized by clear inflammatory lesions in different parts of the CNS; nearly identical changes were found in murine, cynomolgus and rhesus monkey studies which provide evidence of using animal models to investigate the mechanisms of EV71 pathogenesis. Our work uses neonatal rhesus monkeys to investigate a possible model of EV71 pathogenesis and concludes that this model could be applied to provide objective indicators which include clinical manifestations, virus dynamic distribution and pathological changes for observation and evaluation in interpreting the complete process of EV71 infection. This induced systemic infection and other collected indicators in neonatal monkeys could be repeated; the transmission appears to involve infecting new monkeys by contact with feces of infected animals. All data presented suggest that the neonatal rhesus monkey model could shed light on EV71 infection process and pathogenesis

Stevioside Prevents Wear Particle-Induced Osteolysis by Inhibiting Osteoclastogenesis and Inflammatory Response via the Suppression of TAK1 Activation

Aseptic loosening and periprosthetic osteolysis are the leading causes of total joint arthroplasty failure, which occurs as a result of chronic inflammatory response and enhanced osteoclast activity. Here we showed that stevioside, a natural compound isolated from Stevia rebaudiana, exhibited preventative effects on titanium particle-induced osteolysis in a mouse calvarial model. Further histological assessment and real-time PCR analysis indicated that stevioside prevented titanium particle-induced osteolysis by inhibiting osteoclast formation and inflammatory cytokine expression in vivo. In vitro, we found that stevioside could suppress RANKL-induced osteoclastogenesis and titanium particle-induced inflammatory response in a dose-dependent manner. Mechanistically, stevioside achieved these effects by disrupting the phosphorylation of TAK1 and subsequent activation of NF-κB/MAPKs signaling pathways. Collectively, our data suggest that stevioside effectively suppresses osteoclastogenesis and inflammatory response both in vitro and in vivo, and it might be a potential therapy for particle-induced osteolysis and other osteolytic diseases