![]() ![]() PLoS ONE 12(1):Įditor: Frank Alexander Feltus, Clemson University, UNITED STATES The informative SNP marker cd-733C/T will facilitate marker-assisted selection of ts1 in rice plant type breeding.Ĭitation: Liu L, Meng F, He Y, Zhu M, Shen Y, Zhang Z (2017) Fine Mapping and Candidate Gene Analysis of the Tiller Suppression Gene ts1 in Rice. The results above provide a basis for further functional characterization of ts1 and will shed light on molecular mechanism of rice tillering. ![]() Our data indicated that ORF4 was a strong candidate gene for ts1 and ts1 might play a role in regulating rice tillering through MOC1 and HTD1 associated pathway. Quantitative RT-PCR analysis showed that the expression level of ORF4 in ts1 plants was significantly lower than that in their wild plants, and the expression of rice tillering regulators MOC1 and HTD1 was also significantly decreased in ts1 plants. A co-dominant SNP marker cd-733C/T was subsequently developed and the SNP assay demonstrated that the point mutation co-segregated with tiller suppression phenotype. Among them, ORF4 (LOC_Os02g01610) is a PPR gene which harbored a point mutation c.+733/C→T in ts1 mutant plants. Candidate gene analysis identified nineteen putative genes. With an F2 population derived from a cross between ts1 and an indica cultivar Wushansimiao, a major gene, tiller suppression 1 ( ts1) was fine-mapped to a 108.5 kb genomic region between markers ID8378 and SSR6884 on the short arm of rice chromosome 2. Morphological and histological observations revealed that, in the ts1 plants, the tiller buds were abnormally formed and therefore cannot outgrow into tillers. In this study, an EMS-induced rice tiller suppression mutant ts1 was characterized. Please note that this site is currently under construction - please check back in a few days for more information.Tiller number is one of the key factors that influences rice plant type and yield components. The Center for Bioinformatics and Computational Biology at the University of Maryland has compiled a collection of sequence data from several bacterial genomes for benchmarking sequence assembly software. A collaboration of four research institutes. #Bio soft sequencher download softwareFree for research and educational use.Īn open source software package for aligning whole genomes.Ī Modular, Open Source whole genome assembler. Free for research and educational use.Ī sequence assembly program for whole genome assemblies from short ("next generation") sequencing reads from MIT's Broad Institute. Assembles Sanger sequencing data and Roche 454 data.Ī whole genome assembler for Sanger sequencing reads developed at the Broad Institute. The program that was used to assemble the first human genome, released as open source in 2004. Phrap pioneered a number of important idea, including the automatic use of entire sequences without trimming and accurate consensus sequences based on sequence qualities and confirmation by other reads. ![]() The sequence assembly program Phrap was developed to assemble shotgun cosmid and BAC sequencing projects in the Human Genome Project. Part of the Staden package of DNA sequence analysis tools. Open source sequence assembler for Sanger sequencing. Free and Open Source Sequence Assembly Programs Gap4 / Gap5 ![]() An overview of different problems and approaches is available on Wikipedia. Sequence assembly refers to the process of merging DNA fragments into larger "contigs" for subsequent analysis. This site is dedicated to software for DNA sequence assembly and alignment. ![]()
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