PMC:3558958 / 10758-11780 JSONTXT

{"target":"https://pubannotation.org/docs/sourcedb/PMC/sourceid/3558958","sourcedb":"PMC","sourceid":"3558958","source_url":"http://www.ncbi.nlm.nih.gov/pmc/3558958","text":"Genome sequencing and assembly\nThe genome of Paenibacillus lautus Y412MC10 was sequenced at the Joint Genome Institute (JGI) [44] using Sanger sequencing with a combination of 6 kb and 34 kb DNA libraries and 454 FLX pyrosequencing done to a depth of 20× coverage [45]. Both libraries provided 5.8× coverage of the genome. Draft assemblies were based on 39,162 total reads. Solexa sequencing data was used to polish the assembly. All general aspects of library construction and sequencing performed at the JGI can be found at their website. The Phred/Phrap/Consed software package [46] was used to assemble 6-kb and fosmid libraries and to assess quality. Possible mis-assemblies were corrected; gaps between contigs were closed by 2,744 primer walks from sub-clones or 83 PCR end reads, 5 mini-libraries, and 10 PCR shatter libraries. The error rate of the completed genome sequence was 0.08, based on 49,558 total reads. Table 2 presents the project information and its association with MIGS version 2.0 compliance [47].","divisions":[{"label":"Title","span":{"begin":0,"end":30}}],"tracks":[{"project":"MicrobeTaxon","denotations":[{"id":"T72","span":{"begin":45,"end":74},"obj":"481743"}],"namespaces":[{"prefix":"_base","uri":"http://purl.bioontology.org/ontology/NCBITAXON/"}],"attributes":[{"subj":"T72","pred":"source","obj":"MicrobeTaxon"}]},{"project":"2_test","denotations":[{"id":"23408395-16056220-140428069","span":{"begin":265,"end":267},"obj":"16056220"},{"id":"23408395-18464787-140428070","span":{"begin":1018,"end":1020},"obj":"18464787"}],"attributes":[{"subj":"23408395-16056220-140428069","pred":"source","obj":"2_test"},{"subj":"23408395-18464787-140428070","pred":"source","obj":"2_test"}]}],"config":{"attribute types":[{"pred":"source","value type":"selection","values":[{"id":"MicrobeTaxon","color":"#93ec94","default":true},{"id":"2_test","color":"#ec93ac"}]}]}}