Recently, there has been a surge in global demand for hydrogen as a sustainable and carbon dioxide-free energy carrier. As hydrogen is derived from biological processes, biohydrogen is gaining attention from economic and environmental perspectives because it can be produced from waste, such as palm oil mill effluent (POME). As a country with the largest palm oil industry in the world, Indonesia has the potential to utilize POME as a fermentation substrate for biohydrogen production. This study used local indigenous microorganisms from POME anaerobic pond sludge to produce biohydrogen. The experiment was conducted in an anaerobic batch fermenter under dark fermentation. Screening at initial pH and molasses addition were optimized to obtain the optimal fermentation substrate. A urea addition and heat shock pretreatment were compared to understand the relationship between biohydrogen production, COD reduction representing substrate value, and microbial community dynamics. As in field application, anaerobic process conditions were adjusted at the mesophilic temperature. The importance of comprehending what kind of microorganisms played a role in a consortium was analyzed by the 16S rRNA V3–V4 region using a next-generation sequencing (NGS) approach. Heat pretreatment exhibited the number of bacterial taxa order Thermoanaerobacterales increased significantly in direct proportion to the biohydrogen, up to 24.07% of the total volume gas produced. Notwithstanding, the mesophilic production process altered the microbial community, with Clostridiales as the predominant bacteria group, followed by Lactobacillales, Oscillospirales, and Lachnospirales. Understanding the dynamics and physiochemicals of the microbial community that affect microbial growth is targeted to improve biohydrogen production.
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