The vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu

Abstract

This study was conducted to characterize the vertical distribution of bacterial and archaeal communities in the water and sediment of Lake Taihu, which underwent a change in trophic status from oligotrophic to hypertrophic in last half of the 20th century. The results revealed that the bacterial communities in different layers of sediment sample were very similar, and were related to Alpha-, Beta-, Gamma- and Deltaproteobacteria, Nitrospira, Bacteroidetes, Firmicutes, Gemmatimonadetes, Verrucomicrobia, Chlorobi, Actinobacteria and Acidobacteria. In contrast, the archaeal communities varied greatly with depth. The archaeal communities were primarily related to Euryarchaeota and Crenarchaeota, with methanogenic Archaea accounting for approximately 2-35% of the total Archaea. Additionally, sequences related to putative ammonia-oxidizing Archaea and ammonia-oxidizing Bacteria were detected in different layers of sediment samples. The abundance of Archaea, Bacteria, methanogenic Archaea and Nitrospira was further characterized by real-time PCR.

Diversity of autochthonous bacterial communities in the intestinal mucosa of grass carp (Ctenopharyngodon idellus) (Valenciennes) determined by culture-dependent and culture-independent techniques

“…The bacterial genomic DNA of each sample was extracted in triplicate and then combined. The 16S rDNA fragments were amplified separately using the bacterial universal primers 27F and 1492R (see above) and the universal archaeal primers 109aF (5′-ACK GCTCAGTAACACGT-3′) and 1119aR (5′-GGYR TCTCGCTCGT T-3′) for archaeal fragments (~1000 bp) from the total DNA (Ye, Liu, Lin, Tan, Pan, Li & Yang 2009 After photographing under UV light, gel profiles were analysed using the Gel-Pro Analyzer software. Clones with identical band patterns were grouped into a single operational taxonomic unit (OTU).…”

Influence of Methanogenic Populations in Holocene Lacustrine Sediments Revealed by Clone Libraries and Fatty Acid Biogeochemistry

“…4F (5'-TCY GGT TGA TCC TGC CRG-3') with Univ1492R (5'-CGG TTA CCT TGT TAC GAC TT-3') were used as the initial primer pair (Dong et al 2006). Archaeal PCR amplifications were performed as follows: 94°C for 5 min, 30 cycles at 94°C for 1 min, 53°C for 1 min, 72°C for 2 min, and a final extension step at 72°C for 5 min (modified after Ye et al 2009). 2 L of PCR product were used in the second PCR round with the overlapping forward primer 3F (5'-TTC CGG TTG ATC CTG CCG GA-3') associated with 9R (5'-CCC GCC AAT TCC TTT AAG TTT C-3') as the reverse primer.…”

Establishing Sampling Procedures in Lake Cores for Subsurface Biosphere Studies: Assessing In Situ Microbial Activity

“…Each of them contains very different sediment and associated microbial assemblages. Understanding trophic states within the water columns and the sediments is essential to reconstructing past climates (Nelson et al, 2007) as well as to managing anthropogenic impact on modern lakes (Ye et al, 2009). …”