Assembly
ASM164265v1
BioProject PRJNA308866 · BioSample SAMN04415495
GENOME-RESOLVED EVIDENCE
GCA_001642655.1
Clostridium tyrobutyricum · Complete Genome
View versioned NCBI assembly →
Quality metadata
Genome size 3134437 bp · GC 31.000%
Completeness 99.070% · contamination 0.780%
Pathway marker completeness
| Module | Markers | Fraction | Call |
|---|---|---|---|
| bcd_etf_module | 3/3 | 1.000 | Complete marker set |
| 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 | 3/4 | 0.750 | Partial/absent |
| rnf_complex | 6/6 | 1.000 | Complete marker set |
Detected markers
| Marker | Function | Copies |
|---|---|---|
| etfA | electron transfer flavoprotein alpha subunit | 1 |
| etfB | electron transfer flavoprotein beta subunit | 1 |
| 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 |
| lctP | L-lactate permease | 1 |
| ldh | L-lactate dehydrogenase | 2 |
| bcd | butyryl-CoA dehydrogenase | 1 |
| 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 |
|---|---|---|---|---|
| rnfCCTK_C13030 | AND84564.1 | OG0000037 | CP014170.1:1275432–1276820 + | electron transport complex protein RnfC [Clostridium tyrobutyricum] |
| ldhCTK_C07420 | AND84003.1 | OG0000131 | CP014170.1:754054–755025 + | L-lactate dehydrogenase [Clostridium tyrobutyricum] |
| ldhCTK_C11900 | AND84451.1 | OG0000131 | CP014170.1:1150437–1151384 - | L-lactate dehydrogenase [Clostridium tyrobutyricum] |
| hbdCTK_C26330 | AND85877.1 | OG0000229 | CP014170.1:2616328–2617176 - | 3-hydroxybutyryl-coA dehydrogenase [Clostridium tyrobutyricum] |
| thlCTK_C01450 | AND83415.1 | OG0000234 | CP014170.1:162762–163943 + | acetyl-CoA acetyltransferase [Clostridium tyrobutyricum] |
| thlCTK_C22290 | AND85477.1 | OG0000234 | CP014170.1:2212829–2213926 - | acetyl-CoA acetyltransferase [Clostridium tyrobutyricum] |
| etfB3CTK_C15730 | AND84832.1 | OG0000453 | CP014170.1:1548713–1549501 - | electron transfer flavoprotein beta subunit [Clostridium tyrobutyricum] |
| etfA3CTK_C15720 | AND84831.1 | OG0000689 | CP014170.1:1547445–1548656 - | electron transfer flavoprotein alpha subunit [Clostridium tyrobutyricum] |
| lctPCTK_C15750 | AND84834.1 | OG0001228 | CP014170.1:1550873–1552399 - | L-lactate permease [Clostridium tyrobutyricum] |
| rnfGCTK_C13050 | AND84566.1 | OG0001254 | CP014170.1:1277833–1278384 + | electron transport complex protein RnfG [Clostridium tyrobutyricum] |
| bcd1CTK_C26360 | AND85880.1 | OG0001311 | CP014170.1:2619056–2620195 - | butyryl-CoA dehydrogenase [Clostridium tyrobutyricum] |
| rnfECTK_C13060 | AND84567.1 | OG0001320 | CP014170.1:1278386–1279009 + | electron transport complex protein RnfE [Clostridium tyrobutyricum] |
| rnfACTK_C13070 | AND84568.1 | OG0001328 | CP014170.1:1279009–1279587 + | electron transport complex protein RnfA [Clostridium tyrobutyricum] |
| rnfDCTK_C13040 | AND84565.1 | OG0001342 | CP014170.1:1276836–1277828 + | electron transport complex protein RnfD [Clostridium tyrobutyricum] |
| rnfBCTK_C13080 | AND84569.1 | OG0001429 | CP014170.1:1279604–1280458 + | electron transport complex protein RnfB [Clostridium tyrobutyricum] |
These are genomic annotation predictions. Experimental activity, expression and metabolite production require separate evidence.