第二部份同樣是以16S rDNA為分析指標，來探討於另一個污泥來源(食品廠污泥)，更複雜的基質(peptone)，經過多次轉植馴養後之厭氧生物產氫微生物菌群多樣性。定量FISH結果顯示，主要有四大類菌群實際存在於peptone為基質之馴養試程，它們是屬於δ, α -Proteobacteria，以及屬於Gram-positive，low G+C，與Chis150 probe可以或不能進行雜交的菌群，分別佔細菌群菌群的30.4 ± 11.0 %、19.0 ± 10.1 %、11.0 ± 3.2 %和38 %。它們參與複雜的代謝peptone產氫反應。

On the other hand, microbial community of hydrogen producing batch reactor fed with peptone was also studied. FISH indicated that the community was more diversified than those of reactors fed with glucose or sucrose. Short rods akin to the δ-Proteobacteria subdivision and bacteria untargeted by probes used in this study accounted for 30.4% and 38% of EUB338 stained cells respectively. Besides, members of α-Proteobacteria and rods can be targeted by Chis150 probe were also abundant in the microbial community (19.0 ± 10.1 % and 11.0 ± 3.2 % each). The diversity of the society structure may be due to the complex components of peptone substrate. In general, feeding substrate played an important role in determining the bacterial community composition.

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