Assembly
ASM5488948v1
BioProject PRJNA1357585 · BioSample SAMN53086055
GENOME-RESOLVED EVIDENCE
GCA_054889485.1
Clostridium sp. · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 3559965 bp · GC 33.500%
Completeness 99.380% · contamination 0.780%
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 | 3/8 | 0.375 | Partial/absent |
| lactate_entry_support | 2/2 | 1.000 | Complete marker set |
| reverse_beta_oxidation_core | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 1/6 | 0.167 | Partial/absent |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| rnfA | Rnf complex subunit A | 1 |
| accB | acetyl-CoA carboxylase biotin carboxyl carrier protein | 1 |
| accC | acetyl-CoA carboxylase biotin carboxylase | 1 |
| fabZ | 3-hydroxyacyl-ACP dehydratase | 1 |
| lctP | L-lactate permease | 1 |
| ldh | L-lactate dehydrogenase | 1 |
| crt | crotonase/enoyl-CoA hydratase | 2 |
| 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 |
|---|---|---|---|---|
| accCACYUJ6_16860 | MHC6181480.1 | OG0000061 | CM142685.1:3495937–3497280 - | acetyl-CoA carboxylase biotin carboxylase subunit [Clostridium sp. JNZ X4-2] |
| ldhACYUJ6_03625 | MHC6178934.1 | OG0000131 | CM142685.1:769787–770749 + | L-lactate dehydrogenase [Clostridium sp. JNZ X4-2] |
| accBACYUJ6_16870 | MHC6181482.1 | OG0000212 | CM142685.1:3497824–3498339 - | acetyl-CoA carboxylase biotin carboxyl carrier protein [Clostridium sp. JNZ X4-2] |
| hbdACYUJ6_01805 | MHC6178596.1 | OG0000229 | CM142685.1:354340–355188 + | 3-hydroxybutyryl-CoA dehydrogenase [Clostridium sp. JNZ X4-2] |
| thlACYUJ6_15710 | MHC6181269.1 | OG0000234 | CM142685.1:3261666–3262844 - | acetyl-CoA C-acetyltransferase [Clostridium sp. JNZ X4-2] |
| crtACYUJ6_12795 | MHC6180714.1 | OG0000330 | CM142685.1:2659303–2660199 - | bifunctional enoyl-CoA hydratase/phosphate acetyltransferase [Clostridium sp. JNZ X4-2] |
| fabZACYUJ6_16865 | MHC6181481.1 | OG0000785 | CM142685.1:3497306–3497761 - | 3-hydroxyacyl-ACP dehydratase FabZ [Clostridium sp. JNZ X4-2] |
| lctPACYUJ6_08265 | MHC6179836.1 | OG0001228 | CM142685.1:1707583–1709109 + | L-lactate permease [Clostridium sp. JNZ X4-2] |
| rnfAACYUJ6_06425 | MHC6179479.1 | OG0001328 | CM142685.1:1335009–1335590 + | electron transport complex protein RnfA [Clostridium sp. JNZ X4-2] |
| crtACYUJ6_01785 | MHC6178592.1 | OG0001394 | CM142685.1:350471–351250 + | short-chain-enoyl-CoA hydratase [Clostridium sp. JNZ X4-2] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.