Following the total synthesis of bottromycin, Kobayashi and colleagues synthesized a series of bottromycin derivatives and evaluated their anti-MRSA and anti-VRE activity. Only derivatives of the methyl ester moiety were explored, as they found that the methyl ester was both important for antibacterial activity and unstable in blood plasma. A series of seventeen derivatives were synthesized, with derivatives falling into three general categories: amide derivatives, urea derivatives, and ketone derivatives. All analogs except the carboxylic acid and hydrazide analogs were derivatized from isolated bottromycin A2 using an activated azide ester. The derivatives were tested against six Gram-positive bacterial strains: Staphylococcus aureus FDA209P, S. aureus Smith, MRSA HH-1, MRSA 92-1191, Enterococcus faecalis NCTC12201, and E. faecalis NCTC12203 (both VRE).
Bottromycin A2 had low micromolar activity against all the strains tested, ranging from an MIC of 0.5 μg/mL in E. faecalis NCTC12203 to 2 μg/mL in MRSA HH-1. The amide and urea derivative families were found to have weaker antibacterial activity than bottromycin A2 against S. aureus, MRSA, and VRE. The MIC values for the amide and urea derivatives were generally four times greater than those for bottromycin A2. They were, however, significantly more stable in mouse plasma than bottromycin A2. Bottromycin A2 completely degraded in mouse plasma after 10 minutes and exhibited 0% residual activity after exposure to rat serum. Only one derivative had lower than 50% residual activity. In contrast, many derivatives retained a significant percentage of residual anti-MRSA activity following exposure to serum. Thioester intermediates to the ketone derivatives were found to be unstable, exhibiting 0% residual activity, although they had improved antibacterial activity, exhibiting sub-micromolar MIC values. The propyl ketone was found to be the most promising derivative of all the analogs obtained, both exhibiting antibacterial activity against the bacterial strains tested and stability in plasma, retaining 100% residual activity. The MIC values obtained for the propyl derivative were the same as those found for bottromycin A2 except in the case of NCTC12201, which had an MIC of 2 μg/mL for the derivative and an MIC of 1 μg/mL for bottromycin A2. A summary of MIC values for tested bacterial strains is shown below.
Even the least active bottromycin derivatives exhibited greater anti-VRE activity than vancomycin, which was used as a control antibiotic in this study. The propyl derivative and bottromycin A2 had similar antimicrobial activity to linezolid, a synthetic antibiotic active against Gram-positive bacteria including MRSA and VRE, across all the bacterial strains studied.  Overall, the results of this study suggested that further modifications of bottromycin may lead to a more stable, effective antibiotic.
A natural derivative of bottromycin, bottromycin D, has also been identified. It is produced in a marine Streptomyces species, strain WMMB272. Although the methyl ester is still present in bottromycin D, one of the macrocyclic valines is mutated to an alanine. The minimum inhibitory concentration (MIC) for bottromycin D was determined and found to be only slightly less active than bottromycin A2 (2 μg/mL for bottromycin D vs. 1 μg/mL for bottromycin A2). The authors postulated that greater conformational flexibility of bottromycin D may be responsible for its lower activity.
No further antibacterial studies of synthetic or biosynthetic bottromycin derivatives have been reported in the literature as of 2013. The search for efficacious analogs will be enabled by bottromycin’s status as a ribosomal peptide. Analogs may be explored biosynthetically by changing the sequence of the precursor peptide; a change in amino acid sequence will lead directly to a modified bottromycin structure.