Clostridium botulinum other strains
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Other than the Sanger sequenced Hall strain A (ATCC 3502)
Summary:
~ 13 strains in NCBI Taxonomy 9 genome projects 4 complete genomes 3 assemblies in NCBI AA (all TIGR/JCVI) 6 trace sets (5 TIGR/JCVI , 1 Sanger)
Data sources
NCBI:
Genome projects:
1. A str. ATCC 19397 [LANL/JCVI/DOE] complete ; uploaded to Insignia 2*: A str. ATCC 3502 [Sanger] complete ; uploaded to Insignia 3: A str. Hall [LANL/JCVI/DOE] complete ; uploaded to Insignia 4: Bf [JCVI/MSC] 70 contigs ; in AA 5: C str. Eklund [JCVI/MSC] 76 contigs ; in AA 6: F str. Langeland plasmid pCLI [LANL/JCVI/DOE] complete ; uploaded to Insignia 7: G [JCVI/MSC] 64 contigs ; not in AA 8: NCTC 2916 [JCVI/MSC] 70 contigs ; in AA 9: str. Iwanei E [JCVI/MSC] 66 contigs ; not in AA
New (Aug 19th 2008):
10: A2 str. Kyoto-F [LANL/JCVI/DOE] progress 11: A3 str. Loch Maree [LANL/JCVI/DOE] complete 12: B str. Eklund 17B [LANL/JCVI/DOE] complete 13: B1 str. Okra [LANL/JCVI/DOE] complete 14: Ba4 str. 657 [LANL/JCVI/DOE] progress 15: E1 str. 'BoNT E Beluga' [LANL/JCVI/DOE] progress 16: E3 str. Alaska E43 [LANL/JCVI/DOE] complete
File locations:
/fs/szasmg2/Bacteria/C_botulinum/
NCBI AA assemblied:
qc stats
CBCB CA3 assemblies:
Placed Deg Total 4: Bf 52 12 64 better than AA(fewer, avg contig len is larger) 5: C str. Eklund 51 3 54 better than AA(fewer, avg contig len is larger) 7: G 47 7 54 fewer contigs than AA 8: NCTC 2916 55 11 66 better than AA(fewer, avg contig len is larger) 9: str. Iwanei E 44 10 55 fewer contigs than AA
qc stats
Other links:
* FDA "Clostridium botulinum is an anaerobic, Gram-positive, spore-forming rod that roduces a potent neurotoxin. The spores are heat-resistant and can survive in foods that are incorrectly or minimally processed. Seven types (A, B, C, D, E, F and G) of botulism are recognized, based on the antigenic specificity of the toxin produced by each strain. Types A, B, E and F cause human botulism. Types C and D cause most cases of botulism in animals. Animals most commonly affected are wild fowl and poultry, cattle, horses and some species of fish. Although type G has been isolated from soil in Argentina, no outbreaks involving it have been recognized."
Insignia uploads
Assemblies selected:
/fs/szasmg2/Bacteria/C_botulinum/A_ATCC_3502/best/ /fs/szasmg2/Bacteria/C_botulinum/Bf/best/ /fs/szasmg2/Bacteria/C_botulinum/C_str__eklund/best/ /fs/szasmg2/Bacteria/C_botulinum/G/best/ /fs/szasmg2/Bacteria/C_botulinum/NCTN_2916/best/ /fs/szasmg2/Bacteria/C_botulinum/str__iwanei_e/best/