The diploid genome sequence of an Asian individual

Here we present the first diploid genome sequence of an Asian individual. The genome was sequenced to 36-fold average coverage using massively parallel sequencing technology. We aligned the short reads onto the NCBI human reference genome to 99.97% coverage, and guided by the reference genome, we used uniquely mapped reads to assemble a high-quality consensus sequence for 92% of the Asian individual's genome. We identified approximately 3 million single-nucleotide polymorphisms (SNPs) inside this region, of which 13.6% were not in the dbSNP database. Genotyping analysis showed that SNP identification had high accuracy and consistency, indicating the high sequence quality of this assembly. We also carried out heterozygote phasing and haplotype prediction against HapMap CHB and JPT haplotypes (Chinese and Japanese, respectively), sequence comparison with the two available individual genomes (J. D. Watson and J. C. Venter), and structural variation identification. These variations were considered for their potential biological impact. Our sequence data and analyses demonstrate the potential usefulness of next-generation sequencing technologies for personal genomics

Thermal Stress Analysis of Environmental Barrier Coatings Considering Interfacial Roughness

A numerical analysis of the effect of roughness interface on the thermal stress in the environmental barrier coatings for ceramic matrix composites was performed. Based on the concept of representative volume elements, a micromechanical finite element model of the coated composites was established. The rough interfaces between the coating layers were described using sine curves. The cooling process after preparation and the typical service conditions for the CMCs component were simulated, respectively. The results show that the rough interface has little effect on the temperature distribution along the depth direction for the studied T/EBC coatings for SiC/SiC composites. The stress concentration occurs at the rough EBC/BC interface, which is prone to cause delamination cracking. Under typical service conditions, the high temperature can eliminate part of the thermal residual stress. Meanwhile, the thermal gradient will cause large thermal stress in the TBC layer and the stress will result in surface cracks. The stress concentrations appear at the peaks and valleys of rough interfaces. The variation range of thermal stress increases with the roughness amplitude and decreases with the wavelength

Deep RNA sequencing at single base-pair resolution reveals high complexity of the rice transcriptome

Understanding the dynamics of eukaryotic transcriptome is essential for studying the complexity of transcriptional regulation and its impact on phenotype. However, comprehensive studies of transcriptomes at single base resolution are rare, even for modern organisms, and lacking for rice. Here, we present the first transcriptome atlas for eight organs of cultivated rice. Using high-throughput paired-end RNA-seq, we unambiguously detected transcripts expressing at an extremely low level, as well as a substantial number of novel transcripts, exons, and untranslated regions. An analysis of alternative splicing in the rice transcriptome revealed that alternative cis-splicing occurred in ∼33% of all rice genes. This is far more than previously reported. In addition, we also identified 234 putative chimeric transcripts that seem to be produced by trans-splicing, indicating that transcript fusion events are more common than expected. In-depth analysis revealed a multitude of fusion transcripts that might be by-products of alternative splicing. Validation and chimeric transcript structural analysis provided evidence that some of these transcripts are likely to be functional in the cell. Taken together, our data provide extensive evidence that transcriptional regulation in rice is vastly more complex than previously believed