Temporal shift in methanotrophic community and methane oxidation potential in forest soils of dry tropics: high-throughput metagenomic approach

Abstract

Forest soil contributes to global methane (CH4) cycle as the natural sink for atmospheric CH4 by methane-oxidizing bacteria (MOB). In this study, high-throughput sequencing of pmoA gene amplicons based approach was used to investigate temporal variations in molecular diversity of MOB in soil of tropical dry forest. Quantitative PCR (qPCR) analysis revealed pmoA and 16S rRNA gene copy numbers (copies g−1 dws) ranging from 2.23 × 106 to 14.62 × 106 and from 0.92 × 109 to 14.99 × 109, respectively, in the year 2016. In 2017, the respective values varied from 1.96 × 106 to 13.62 × 106 and from 2.55 × 109 to 20.15 × 109, respectively. The sequence analysis revealed the existence of both type I and type II methanotrophs in soils. The average observed OTUs were about 800/sample, and Shannon diversity index ranged between 4.24 and 6.22 being highest in winter season. The rice paddy clusters (RPCs), Methylocystis, Methlylocystis-Methylosinus and JR2 and JR3, dominated the methanotrophic community with relative abundance of 32.7–50.2, 15.4–34.2, 0.45–15.8, 0.0–17.8 and 1.6–19.2%, respectively. Relatively, higher CH4 oxidation potential (MOP) (ng CH4 g−1 h−1 dws) was observed in winter (14.12) compared with rainy (2.10) and summer (3.72) coinciding with high methanotrophic diversity and abundance. Overall, the study suggests that tropical dry deciduous forest soils favour considerable range of methanotrophic diversity and abundance that positively correlates with MOP of soils across season.