Assembly
ASM5539774v1
BioProject PRJDB20694 · BioSample SAMD01611094
GENOME-RESOLVED EVIDENCE
GCA_055397745.1
Clostridium sp. · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4775276 bp · GC 44.000%
Completeness 98.760% · contamination —%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 0/3 | 0.000 | Partial/absent |
| ethanol_entry_support | 1/1 | 1.000 | Complete marker set |
| fatty_acid_biosynthesis_core | 4/8 | 0.500 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 0/6 | 0.000 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| adhE | bifunctional acetaldehyde-CoA/alcohol dehydrogenase | 1 |
| accB | acetyl-CoA carboxylase biotin carboxyl carrier protein | 1 |
| accC | acetyl-CoA carboxylase biotin carboxylase | 1 |
| fabH | 3-oxoacyl-ACP synthase III | 1 |
| fabZ | 3-hydroxyacyl-ACP dehydratase | 1 |
| lctP | L-lactate permease | 1 |
| ldh | L-lactate dehydrogenase | 1 |
| crt | crotonase/enoyl-CoA hydratase | 4 |
| hbd | 3-hydroxybutyryl-CoA dehydrogenase | 1 |
| thl | acetyl-CoA acetyltransferase/thiolase | 1 |
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 |
|---|---|---|---|---|
| accCJCM10519A_38640 | BGY82395.1 | OG0000061 | AP043733.1:4195082–4196434 + | acetyl-CoA carboxylase biotin carboxylase subunit [Clostridium sp. NkU-1] |
| ldhJCM10519A_07910 | BGY79322.1 | OG0000131 | AP043733.1:853231–854175 + | L-lactate dehydrogenase [Clostridium sp. NkU-1] |
| accBJCM10519A_38620 | BGY82393.1 | OG0000212 | AP043733.1:4194105–4194584 + | acetyl-CoA carboxylase biotin carboxyl carrier protein [Clostridium sp. NkU-1] |
| fabHJCM10519A_05500 | BGY79081.1 | OG0000222 | AP043733.1:604128–605240 + | 3-oxoacyl-ACP synthase III family protein [Clostridium sp. NkU-1] |
| hbdJCM10519A_25150 | BGY81046.1 | OG0000229 | AP043733.1:2722565–2723404 - | 3-hydroxybutyryl-CoA dehydrogenase [Clostridium sp. NkU-1] |
| thlJCM10519A_25170 | BGY81048.1 | OG0000234 | AP043733.1:2724274–2725455 - | acetyl-CoA C-acetyltransferase [Clostridium sp. NkU-1] |
| fabZJCM10519A_38630 | BGY82394.1 | OG0000785 | AP043733.1:4194650–4195072 + | 3-hydroxyacyl-ACP dehydratase FabZ [Clostridium sp. NkU-1] |
| adhEJCM10519A_38090 | BGY82340.1 | OG0001124 | AP043733.1:4133674–4136292 - | bifunctional acetaldehyde-CoA/alcohol dehydrogenase [Clostridium sp. NkU-1] |
| lctPJCM10519A_25090 | BGY81040.1 | OG0001228 | AP043733.1:2715262–2716827 - | L-lactate permease [Clostridium sp. NkU-1] |
| crtJCM10519A_25160 | BGY81047.1 | OG0011992 | AP043733.1:2723457–2724233 - | enoyl-CoA hydratase-related protein [Clostridium sp. NkU-1] |
| crtJCM10519A_05490 | BGY79080.1 | OG0014900 | AP043733.1:603357–604061 + | enoyl-CoA hydratase/isomerase family protein [Clostridium sp. NkU-1] |
| crtJCM10519A_05460 | BGY79077.1 | OG0014902 | AP043733.1:601556–602293 + | enoyl-CoA hydratase/isomerase family protein [Clostridium sp. NkU-1] |
| crtJCM10519A_23260 | BGY80857.1 | OG0015352 | AP043733.1:2507889–2508662 - | crotonase/enoyl-CoA hydratase family protein [Clostridium sp. NkU-1] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.