![]() ![]() ![]() The species has been planted successfully in some other countries for commercial wood production 2, but in Germany it is used currently rather as a decorative, exotic species, mainly due to its sensitivity to freezing temperatures. It is a valuable timber species characterized by fast growth rate and good quality wood 1. Don) Endl.) is an endemic forest tree conifer species occupying a narrow range along the Pacific Northwest coast in southern Oregon and northern California, USA. The de novo transcriptome assembly generated by Trinity and CLC considering only reads with a minimum length of 180 bp and contigs no less than 200 bp long resulted in 634,772 and 788,464 unigenes (unique contigs), respectively.Ĭoast redwood ( Sequoia sempervirens (D. The hexaploid nature of the coast redwood genome makes it very challenging to successfully assemble and annotate the coast redwood transcriptome. To study genetic mechanisms of frost resistance in this species and to select the most frost tolerant trees we tested 17 clones in climate control chamber experiments and generated two de novo assemblies of the coast redwood transcriptome from a pooled RNA sample using Trinity and CLC Genomic Workbench software, respectively. In general, it is frost sensitive and suffers from freezing temperatures. Due to its good wood properties and fast growth rate it can be considered as a prospective timber species also in other countries with similar or changing toward similar climatic conditions due to global climate warming, such as Germany. The de novo assembly process has two stages: First, contig Reads, and it supports Sanger, 454, Illumina Genome Analyzer, Helicos, Workbench supports both short and long reads, it supports paired-ends Workbench' (see G6G Abstract Number 20096A) and the followingġ) De novo assembly - The de novo assembly of CLC Genomics Integrating with the rest of your typical NGS workflow.ĬLC Genomics Workbench includes all features of 'CLC Main It incorporates cutting-edge technology and algorithms, while also supporting and Category Cross-Omics>Next Generation Sequence Analysis/ToolsĪbstract CLC Genomics Workbench is a new solution for analyzing and visualizing Next Generation Sequencing (NGS) data.Coast redwood is a very important endemic conifer timber species in Southern Oregon and Northern California in the USA. ![]() Second, all the readsĪre assembled using the contig sequence as reference.Ģ) Reference assembly - The reference assembly of CLC Genomics Sequences are created by aligning all the reads. a) Single reads - coverage and conflicts - When you only have single.454 and IlluminaĤ) Reference assembly of genomes of any size.ĥ) Assembly of standard read data and support for assembly of pairedĮnd reads / mate pair reads of any sequencing technology.Ħ) Advanced graphical tools for the detection of large scale mutations Reads, and it supports Sanger, 454, Solexa, Helicos, and SOLiDģ) Reference assembly of mixed datasets (e.g. B) Paired-ends reads - graphical overview - Paired-ends data allows for.'coverage graph' along the contig by clicking the checkbox in the Side To assist in this interpretation, CLC Genomics Workbench displays a.Reads data, coverage is one of the main resources for interpretation. ![]()
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