LOCUS       NC_008598              55939 bp    DNA     circular BCT 18-APR-2007
   DEFINITION  Bacillus thuringiensis str. Al Hakam plasmid pALH1, complete
   ACCESSION   NC_008598
   VERSION     NC_008598.1  GI:118445179
   KEYWORDS    .
   SOURCE      Bacillus thuringiensis str. Al Hakam
     ORGANISM  Bacillus thuringiensis str. Al Hakam
               Bacteria; Firmicutes; Bacillales; Bacillaceae; Bacillus; Bacillus
               cereus group.
   REFERENCE   1  (bases 1 to 55939)
     AUTHORS   Challacombe,J.F., Altherr,M.R., Xie,G., Bhotika,S.S., Brown,N.,
               Bruce,D., Campbell,C.S., Campbell,M.L., Chen,J., Chertkov,O.,
               Cleland,C., Dimitrijevic,M., Doggett,N.A., Fawcett,J.J.,
               Glavina,T., Goodwin,L.A., Green,L.D., Han,C.S., Hill,K.K.,
               Hitchcock,P., Jackson,P.J., Keim,P., Kewalramani,A.R., Longmire,J.,
               Lucas,S., Malfatti,S., Martinez,D., McMurry,K., Meincke,L.J.,
               Misra,M., Moseman,B.L., Mundt,M., Munk,A.C., Okinaka,R.T.,
               Parson-Quintana,B., Reilly,L.P., Richardson,P., Robinson,D.L.,
               Saunders,E., Tapia,R., Tesmer,J.G., Thayer,N., Thompson,L.S.,
               Tice,H., Ticknor,L.O., Wills,P.L., Gilna,P. and Brettin,T.S.
     TITLE     The Complete Genome Sequence of Bacillus thuringiensis Al Hakam
     JOURNAL   J. Bacteriol. 189, 3680-3681 (2007)
      PUBMED   17337577
   REFERENCE   2  (bases 1 to 55939)
     CONSRTM   NCBI Genome Project
     TITLE     Direct Submission
     JOURNAL   Submitted (29-NOV-2006) National Center for Biotechnology
               Information, NIH, Bethesda, MD 20894, USA
   REFERENCE   3  (bases 1 to 55939)
     AUTHORS   Lucas,S., Pitluck,S., Chertkov,O., Goodwin,L.A., Han,l., Munk,A.C.,
               Saunders,E., Brettin,T.S., Bruce,D., Challacombe,J.F., Gilna,P.,
               Martinez,A.D., Misra,M., Tapia,R., Thayer,N.N., Xie,G., Brown,N.,
               Green,L.D., Hill,K.K., Jackson,P.J., Longmire,J., Rubin,E. and
     TITLE     Direct Submission
     JOURNAL   Submitted (14-NOV-2006) Joint Genome Institute, Department of
               Energy, 2800 Mitchell Drive, Walnut Creek, Ca 94598, USA
   COMMENT     PROVISIONAL REFSEQ: This record has not yet been subject to final
               NCBI review. The reference sequence was derived from CP000486.
               Bacillus thuringiensis Al Hakam was collected at a suspected
               bioweapons facility in Iraq by the United Nations Special
               Commission (Genome differences that distinguish Bacillus anthracis
               from Bacillus cereus and Bacillus thuringiensis. Radnedge, L,
               Agron, PG Hill, KK, Jackson, PJ, Ticknor, LO, Keim, P, and
               Andersen, GL. Appl Environ Microbiol 2003. 69:2755-64). Plasmid and
               fosmid libraries were prepared at the Joint Genome Institute in Los
               Alamos (JGI-LANL), NM. Shotgun sequencing was performed at the JGI
               Production Genomics Facility (JGI-PGF) in Walnut Creek, CA. Draft
               assemblies were based on 246217 total reads. All libraries provided
               23x coverage of the genome.  The Phred/Phrap/Consed software
               package (www.phrap.com) was used for sequence assembly and quality
               assessment.  After the shotgun stage, reads were assembled with
               parallel phrap (High Performance Software, LLC). Possible
               mis-assemblies were corrected manually or by transposon bombing
               (Epicentre Biotechnologies) of bridging clones. Gaps between
               contigs were closed by editing in Consed, custom primer walk or PCR
               amplification. A total of 25321 additional reactions were necessary
               to close gaps and to raise the quality of the finished sequence.
               The completed genome sequence of B. thuringiensis Al Hakam achieves
               an average of 24-fold sequence coverage per base with error rate
               less than 1 in 100,000. Gene predictions were obtained using
               Glimmer and tRNAs were identified using tRNAScan-SE. Basic analysis
               of the gene predictions was performed by comparing coding sequences
               against the PFam, BLOCKS and Prodom databases. Gene definitions and
               functional classes were added manually by a team of annotators at
               JGI-LANL, using BLAST results in addition to information from the
               basic analysis.
               COMPLETENESS: full length.
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