Assembly
ASM14368v1
BioProject PRJNA13492 · BioSample SAMN02603159
GENOME-RESOLVED EVIDENCE
GCA_000143685.1
Clostridium ljungdahlii · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 4630065 bp · GC 31.000%
Completeness 98.760% · contamination 1.860%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 2/3 | 0.667 | Partial/absent |
| ethanol_entry_support | 0/1 | 0.000 | Partial/absent |
| fatty_acid_biosynthesis_core | 1/8 | 0.125 | Partial/absent |
| lactate_entry_support | 1/2 | 0.500 | Partial/absent |
| reverse_beta_oxidation_core | 2/4 | 0.500 | Partial/absent |
| rnf_complex | 6/6 | 1.000 | Complete marker set |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| etfA | electron transfer flavoprotein alpha subunit | 3 |
| etfB | electron transfer flavoprotein beta subunit | 3 |
| rnfA | Rnf complex subunit A | 1 |
| rnfB | Rnf complex subunit B | 1 |
| rnfC | Rnf complex subunit C | 1 |
| rnfD | Rnf complex subunit D | 1 |
| rnfE | Rnf complex subunit E | 1 |
| rnfG | Rnf complex subunit G | 1 |
| fabD | malonyl-CoA--ACP transacylase | 1 |
| lctP | L-lactate permease | 1 |
| hbd | 3-hydroxybutyryl-CoA dehydrogenase | 2 |
| 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 |
|---|---|---|---|---|
| rnfCCLJU_c11360 | ADK14204.1 | OG0000037 | CP001666.1:1235903–1237276 + | predicted electron transport complex protein RnfC [Clostridium ljungdahlii DSM 13528] |
| etfA3CLJU_c39400 | ADK16964.1 | OG0000082 | CP001666.1:4286655–4287665 - | electron transfer flavoprotein alpha subunit [Clostridium ljungdahlii DSM 13528] |
| fixBCLJU_c40220 | ADK17046.1 | OG0000082 | CP001666.1:4371501–4372790 - | predicted electron transfer flavoprotein alpha subunit [Clostridium ljungdahlii DSM 13528] |
| etfB3CLJU_c39410 | ADK16965.1 | OG0000098 | CP001666.1:4287681–4288469 - | electron transfer flavoprotein beta subunit [Clostridium ljungdahlii DSM 13528] |
| hbd1CLJU_c23560 | ADK15414.1 | OG0000229 | CP001666.1:2592721–2593677 - | 3-hydroxybutyryl-CoA dehydrogenase [Clostridium ljungdahlii DSM 13528] |
| hbd2CLJU_c37300 | ADK16756.1 | OG0000229 | CP001666.1:4047069–4048010 - | 3-hydroxybutyryl-CoA dehydrogenase [Clostridium ljungdahlii DSM 13528] |
| thlCLJU_c23630 | ADK15421.1 | OG0000234 | CP001666.1:2600305–2601504 - | predicted acetyl-CoA acetyltransferase [Clostridium ljungdahlii DSM 13528] |
| fabDCLJU_c42170 | ADK17226.1 | OG0000333 | CP001666.1:4557205–4558143 - | malonyl-CoA-acyl carrier protein transacylase [Clostridium ljungdahlii DSM 13528] |
| etfBCLJU_c21590 | ADK15219.1 | OG0000453 | CP001666.1:2359376–2360164 - | predicted electron transfer flavoprotein beta subunit [Clostridium ljungdahlii DSM 13528] |
| fixACLJU_c40230 | ADK17047.1 | OG0000453 | CP001666.1:4372778–4373587 - | predicted electron transfer flavoprotein beta subunit [Clostridium ljungdahlii DSM 13528] |
| etfACLJU_c21580 | ADK15218.1 | OG0000689 | CP001666.1:2357967–2359175 - | predicted electron transfer flavoprotein alpha subunit [Clostridium ljungdahlii DSM 13528] |
| lctPCLJU_c21610 | ADK15221.1 | OG0001228 | CP001666.1:2361506–2363032 - | predicted lactate permease [Clostridium ljungdahlii DSM 13528] |
| rnfGCLJU_c11380 | ADK14206.1 | OG0001254 | CP001666.1:1238297–1238854 + | predicted electron transport complex protein RnfG [Clostridium ljungdahlii DSM 13528] |
| rnfECLJU_c11390 | ADK14207.1 | OG0001320 | CP001666.1:1238857–1239498 + | electron transport complex protein RnfE [Clostridium ljungdahlii DSM 13528] |
| rnfACLJU_c11400 | ADK14208.1 | OG0001328 | CP001666.1:1239498–1240079 + | electron transport complex protein RnfA [Clostridium ljungdahlii DSM 13528] |
| rnfDCLJU_c11370 | ADK14205.1 | OG0001342 | CP001666.1:1237295–1238290 + | electron transport complex protein RnfD [Clostridium ljungdahlii DSM 13528] |
| rnfBCLJU_c11410 | ADK14209.1 | OG0001429 | CP001666.1:1240095–1240949 + | predicted electron transport complex protein RnfB [Clostridium ljungdahlii DSM 13528] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.