Large-scale and multi-sample datasets have revealed that microbial diversity and geographic distribution patterns are distinct across various habitats, particularly between hydrothermal vent and cold seep ecosystems. To date, our understanding of the effects of spatial and geochemical gradients on marine microbial communities remains limited. Here, we report the microbial diversity and metabolic versatility of a remote seafloor sediment ecosystem at different sites (GC-2, -4, -5, -6, -8) in the Mid-Okinawa Trough (Mid-OT) using high-throughput metagenomic sequencing technology. Desulfobacteraceae (3.1%) were detected in a high abundance at GC-2 with intense methane concentrations (353 μL/L), which showed a clear correlation with cold seeping. Whereas Candidatus Brocadiaceae (1.7%), Rhodobacteraceae (0.9%), and Rhodospirillaceae (0.7%), which are commonly involved in denitrification and sulfur oxidation, were enriched at GC-8. Concurrently investigating the potential of deep-sea microbial metabolism, we gained insights into the adaptive capabilities and metabolic mechanisms of microorganisms within seafloor environments. Utilizing the Kyoto Encyclopedia of Genes and Genomes (KEGG) database, the analysis of functional modules revealed a significant enrichment (71–74%) of genes associated with metabolic pathways. These results expand our knowledge of the relationship between microbial biodiversity and metabolic versatility in deep-sea extreme environments.

Shallow methane/sulfate transition zones in cold seeps are hotspots to study microbially mediated geochemical cycles due to high methane fluxes. However, our knowledge about the microbial communities in remote seafloor cold seep ecosystems with different methane seepage intensity is still sparse due to the challenge for sampling and visual observations. In this work, three remotely operated vehicle (ROV) video-guided push sediment cores were sampled from cold seep fields with different methane seepage intensity (low-intensity seepage, R5-C1; moderate-intensity seepage, R6-C2; high-intensity seepage, R6-C3) at the western slope of Mid-Okinawa Trough (Mid-OT) and subjected to high throughput sequencing of 16S rRNA genes for bacteria and archaea. Vesicomyid clams and white microbial mats are visible by video at R6-C3 with methane bubbles. The high relative abundances of anaerobic methanotrophic archaea (ANME-1, -2, and -3), δ-Proteobacteriacea and Campylobacteria in R6-C3 indicated that the processes of anaerobic methane oxidation (AOM), sulfate reduction and sulfur oxidation might occur in this active seeping site. In contrast, Bathyarchaeia, Nitrosopumilales, Sphingomonadales, and Burkholderiales were enriched in bubble-free sites, which commonly involved in the degradation of organic compounds. Principal coordinate analysis showed that both bacterial and archaeal communities were clustered according to sampling sites, also indicating the impact of methane seepage intensity on microbial communities. The co-occurrence network analysis revealed that microbes at the site with high methane fluxes mainly cooperated with each other to sustain the ecosystems, whereas competition enhanced at sites with low methane fluxes. Detection of thermophiles Thermoanaerobaculia and Hydrothermarchaeota may indicate microbial transmission from nearby hydrothermal vents, suggesting potential interactions between cold seepage and hydrothermal vent ecosystems. These results expand our knowledge about the composition and distribution of bacteria and archaea with different methane seepage intensity in cold seep field at the Mid-OT, contributing to the ongoing efforts in understanding carbon cycling in the cold seep ecosystems.

Active cold seeps in the Okinawa Trough (OT) have been widely identified, but the sediment microbial communities associated with these sites are still poorly understood. Here, we investigated the distribution and biomass of the microbial communities, particularly those associated with the anaerobic oxidation of methane (AOM), in sediments from an active cold seep in the mid-Okinawa Trough. Methane-oxidizing archaea, including ANME-1a, ANME-1b, ANME-2a/b, ANME-2c, and ANME-3, were detected in the OT cold seep sediments. Vertical stratification of anaerobic methanotrophic archaea (ANME) communities was observed in the following order: ANME-3, ANME-1a, and ANME-1b. In addition, the abundance of methyl coenzyme M reductase A (mcrA) genes corresponded to high levels of dissolved iron, suggesting that methane-metabolizing archaea might participate in iron reduction coupled to methane oxidation (Fe-AOM) in the OT cold seep. Furthermore, the relative abundance of ANME-1a was strongly related to the concentration of dissolved iron, indicating that ANME-1a is a key microbial player for Fe-AOM in the OT cold seep sediments. Co-occurrence analysis revealed that methane-metabolizing microbial communities were mainly associated with heterotrophic microorganisms, such as JS1, Bathy-1, and Bathy-15.

甲烷是一种重要的温室气体,深刻影响着全球的气候变化.同时,甲烷还是海底潜在能源—天然气水合物的主要成分.海洋沉积物是甲烷生物转化的一个重要生态区域,产甲烷菌主要利用H2、CO2及简单的有机物(甲醇、甲胺、二甲基硫等)作为底物生成甲烷,产生的甲烷在向上迁移的过程中主要被甲烷厌氧氧化(anaerobic oxidation of methane,AOM)和甲烷好氧氧化(aerobic oxidation of methane,AeOM)消耗,进而大大减少了甲烷向大气的排放量.AeOM主要发生在含氧的沉积物及沉积物-水界面中,由甲烷好氧氧化菌(aerobic methane-oxidizing bacteria,MOB)介导.然而,绝大部分甲烷在穿透缺氧沉积物层之前是被AOM反应消耗,甲烷厌氧氧化古菌(anaerobic methanotrophic archaea,ANME)是主要的参与者,这些功能微生物耦联电子受体SO42-、NO2-/NO3-或Fe3+和Mn4+将甲烷进行氧化.本文对产甲烷菌和甲烷氧化菌的种类、代谢途径及其在海洋沉积物中的分布特征进行了综述,并在前人工作基础上,对今后海洋生境中甲烷代谢过程的研究进行了展望,以期为进一步开展海洋环境中甲烷的生物转化过程及元素耦合的研究提供理论依据.

海洋沉积物中大部分甲烷会通过甲烷厌氧氧化作用(anaerobic oxidation of methane,AOM)而被消耗.早期研究表明,AOM可与硫酸盐、硝酸盐和亚硝酸盐的还原作用相耦合,从而有效减少甲烷向大气的排放.最近,金属依赖型AOM(metal-AOM,活性金属氧化物还原反应驱动的AOM)被证实存在于自然界沉积物和富集培养的样品中.但是,目前仍未从自然海洋环境中分离获得能够介导metal-AOM的微生物.对海洋沉积物中metal-AOM的研究大多聚焦于热液或冷泉等海洋特殊生境,一系列研究表明地质流体在这些海底化能自养生态系统的维持和演化方面起到了重要作用,并深刻影响全球地球化学循环,因此,该科学问题研究吸引了越来越多的注意力.本文讨论了可能参与海洋沉积物中metal-AOM的微生物类群及其地球化学证据,并在前人工作基础上,以冲绳海槽冷泉-热液共生区为例,提出一种新的metal-AOM作用机制.认为在全球冷泉-热液系统相互作用地区的调查有助于更好地探讨metal-AOM的发生机制及微生物在深海生境中分布的连通性问题.