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Profiling Planctomycetales diversity with reference to anammox‐related bacteria in a South China Sea, deep‐sea sediment
Author(s) -
Shu Qinglong,
Jiao Nianzhi
Publication year - 2008
Publication title -
marine ecology
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.668
H-Index - 58
eISSN - 1439-0485
pISSN - 0173-9565
DOI - 10.1111/j.1439-0485.2008.00251.x
Subject(s) - sediment , genbank , anammox , 16s ribosomal rna , biology , oceanography , ecology , bacteria , geology , gene , paleontology , genetics , chemistry , denitrifying bacteria , organic chemistry , nitrogen , denitrification
A systematic assessment of Planctomycetales diversity in a South China Sea, deep‐sea sediment (1657 m) was conducted using the 16S rRNA gene analysis approach. PCR amplification of the samples from seven sediment layers (0.1, 1, 3, 5, 7, 9 and 11 m below the surface sediment) using the primer set Pla‐46‐F/1392‐R showed that the Planctomycetales existed within a limited range of sediment depths (≤ 5 m), and had a decreasing trend in diversity with increasing depth. The majority of the retrieved Pla‐46‐F/1392‐R sequences belonged to Pirellula ‐related Planctomycetales, and two sequences retrieved from the 0.1‐m layer (GenBank accession numbers: DQ996944 and DQ996945 ) shared the same anammox‐related signature oligonucleotides and were closely related to commonly recognized anammox organisms. To identify new anammox‐related biomarkers, three primer sets were designed for amplifying the fragments of hydroxylamine oxidoreductase and S‐adenosylmethionine radical enzyme genes, but no related sequences were found. Our multiple 16S rRNA gene primer sets ( Journal of Rapid Methods and Automation in Microbiology , 2008, in press) revealed even an higher diversity of Planctomycetales in the 0.1‐m layer of the sediment, especially at genus level. Our data profiled the distribution pattern of Planctomycetales diversity along sediment depths, and provided molecular evidence for the existence of anammox‐related bacteria in a new location, which broadens our understanding of Planctomycetales diversity in deep sea sediments.