Evaluation of the reliability of twin variant analysis in Mg alloys by in situ EBSD technique

Electron backscatter diffraction(EBSD)is an orientation mapping technique,which has been widely used to study texture evolution and twinning behavior.This work aims to study the variant of{10¯12}twins during tensile deformation of AZ31 Mg alloys.An in-situ tensile stage was used,and coupled with EBSD technique,the variants of twins can be analyzed without releasing the tensile stress.Based on the EBSD maps,the first and second smallest misorientation angles(M_(1)and M 2)between each active twin and respective potential variants were calculated,and the distribution of M_(1)values with tensile strain was obtained.The results indicated that{10¯12}twins were deviated from their ideal orientations with strain increased.The criteria of M_(1)<4°and M 2−M_(1)>2°were suggested to be applied to select the data points for reliable variant identification.Moreover,it confirmed that the deviation of twin relationship was ascribed to the profuse basal glide in matrices and/or twins.

RGAAT: A Reference-based Genome Assembly and Annotation Tool for New Genomes and Upgrade of Known Genomes

The rapid development of high-throughput sequencing technologies has led to a dramatic decrease in the money and time required for de novo genome sequencing or genome resequencing projects, with new genome sequences constantly released every week. Among such projects, the plethora of updated genome assemblies induces the requirement of versiondependent annotation files and other compatible public dataset for downstream analysis. To handlethese tasks in an efficient manner, we developed the reference-based genome assembly and annotation tool（RGAAT）, a flexible toolkit for resequencing-based consensus building and annotation update. RGAAT can detect sequence variants with comparable precision, specificity, and sensitivity to GATK and with higher precision and specificity than Freebayes and SAMtools on four DNAseq datasets tested in this study. RGAAT can also identify sequence variants based on cross-cultivar or cross-version genomic alignments. Unlike GATK and SAMtools/BCFtools, RGAAT builds the consensus sequence by taking into account the true allele frequency. Finally, RGAAT generates a coordinate conversion file between the reference and query genomes using sequence variants and supports annotation file transfer. Compared to the rapid annotation transfer tool（RATT）,RGAAT displays better performance characteristics for annotation transfer between different genome assemblies, strains, and species. In addition, RGAAT can be used for genome modification,genome comparison, and coordinate conversion. RGAAT is available at https://sourceforge.net/projects/rgaat/and https://github.com/wushyer/RGAAT;2 at no cost.