Assembly
ASM47399v1
BioProject PRJNA217481 · BioSample SAMN02603278
GENOME-RESOLVED EVIDENCE
GCA_000473995.1
Clostridium saccharobutylicum · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 5107814 bp · GC 28.500%
Completeness 98.760% · contamination 0.620%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 0/3 | 0.000 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 0/8 | 0.000 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 2/4 | 0.500 | Partial/absent |
| rnf_complex | 4/6 | 0.667 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| rnfA | Rnf complex subunit A | 1 |
| rnfC | Rnf complex subunit C | 1 |
| rnfD | Rnf complex subunit D | 1 |
| rnfE | Rnf complex subunit E | 1 |
| lctP | L-lactate permease | 1 |
| ldh | L-lactate dehydrogenase | 3 |
| hbd | 3-hydroxybutyryl-CoA dehydrogenase | 1 |
| thl | acetyl-CoA acetyltransferase/thiolase | 2 |
Profile-HMM marker predictions
Approved candidates and review records are genomic predictions, not evidence of expression or MCFA production. Excluded matches remain visible for audit.
| Marker / protein | Confidence | Review status | Score / coverage | Supporting evidence |
|---|---|---|---|---|
| No profile-HMM predictions for this assembly. | ||||
Protein-level evidence
| Gene | Protein | Orthogroup | Coordinates | Annotation |
|---|---|---|---|---|
| rnfCCLSA_c05570 | AGX41573.1 | OG0000037 | CP006721.1:580244–581563 + | electron transport complex protein RnfC [Clostridium saccharobutylicum DSM 13864] |
| ldh1CLSA_c12580 | AGX42261.1 | OG0000131 | CP006721.1:1426600–1427553 + | L-lactate dehydrogenase Ldh [Clostridium saccharobutylicum DSM 13864] |
| ldh2CLSA_c31640 | AGX44130.1 | OG0000131 | CP006721.1:3493056–3494006 - | L-lactate dehydrogenase 3 [Clostridium saccharobutylicum DSM 13864] |
| ldh3CLSA_c43720 | AGX45319.1 | OG0000131 | CP006721.1:4906557–4907504 - | L-lactate dehydrogenase 3 [Clostridium saccharobutylicum DSM 13864] |
| hbdCLSA_c03600 | AGX41410.1 | OG0000229 | CP006721.1:382673–383521 + | 3-hydroxybutyryl-CoA dehydrogenase Hbd [Clostridium saccharobutylicum DSM 13864] |
| thlACLSA_c05080 | AGX41531.1 | OG0000234 | CP006721.1:530883–532064 + | acetyl-CoA acetyltransferase ThlA [Clostridium saccharobutylicum DSM 13864] |
| vraBCLSA_c28130 | AGX43782.1 | OG0000234 | CP006721.1:3149021–3150157 - | putative acetyl-CoA C-acetyltransferase VraB [Clostridium saccharobutylicum DSM 13864] |
| lctPCLSA_c19060 | AGX42891.1 | OG0001228 | CP006721.1:2141203–2142735 + | L-lactate permease LctP [Clostridium saccharobutylicum DSM 13864] |
| rnfECLSA_c05600 | AGX41576.1 | OG0001320 | CP006721.1:583187–583813 + | electron transport complex protein RnfE [Clostridium saccharobutylicum DSM 13864] |
| rnfACLSA_c05610 | AGX41577.1 | OG0001328 | CP006721.1:583813–584388 + | electron transport complex protein RnfA [Clostridium saccharobutylicum DSM 13864] |
| rnfDCLSA_c05580 | AGX41574.1 | OG0001342 | CP006721.1:581579–582616 + | electron transport complex protein RnfD [Clostridium saccharobutylicum DSM 13864] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.