Candidate division TM7

The candidate division TM7, is a major lineage of Bacteria, the existence of which is known solely through environmental 16S rRNA sequences as to date no species has been grown in the lab, a requirement for taxonomy, making it a candidate phylum.^[1] Along with Candidate divisions TM6, it was named after sequences obtained in 1994 in an environmental study of a soil sample of peat bog from near Gifhorn, Lower Saxony, Germany(), where 262 PCR amplified 16S rDNA fragments were cloned into a plasmid vector, named TM clones for 'Torf, Mittlere Schicht' (= peat, middle layer),^[2]. It has been found in several environments since such as from activated sludges^[3][4], water-treatment plant sludge^[5] rainforest soil^[6], human salive ^[7][8], in association with sponges^[9], cockroaches^[10], gold mines^[11] and other environments (bar thermophilic), making it an abundant and widespread phylum. Recently, TM7 rDNA and whole-cells were detected in activated sludge with >99.7% identity to a human skin TM7 and 98.6% identity to the human oral TM7a ^[12], suggesting metabolically active TM7 in environmental sites may serve as model organisms to better understand the role TM7 play in human health.

Properties

Species singled out with TM7 specific FISH probes form a bioreactor sludge revealed the presence of a gram-positive cell envelopes and several morphotypes: a sheathed filament (abundant), a rod occurring in short chains, a thick filament and cocci; the former may be the cause of Eikelboom type 0041 (bulking problems of activated sludges).^[5] The majority of bacterial phyla are Gram-negative diderms, whereas only the Firmicutes, the Actinobacteria and Chloroflexi are monoderms. Candidate phylum TM7 is in fact a close relative of the Chloroflexi.^[13]

Using a polycarbonate membrane as a growth support and soil extract as the substrate, microcolonies of this clade were grown consisting of long filamentous rods up to 15 μm long with less than 50 cells or short rods with several hundred cells per colony, after 10 days incubation.^[14]

Thanks to a microfluidic chip allowing the isolation and amplification of the genome of a single cell, the genome of 3 long filament morphology cells with identical 16S rRNA were sequenced to create a draft sequence of the genome confirming some previously ascertained properties, elucidating some of its metabolic capabilities, revealing novel genes and hinting to potential pathogenic abilities.^[15]

Over 50 different phylotypes have been identified^[16] and it has a relatively modest intradivision 16S rDNA sequence divergence of 17%, which ranges from 13 to 33%.^[5] An interactive phylogenetic tree of TM7 ^[17], built using jsPhyloSVG ^[18], allows for quick access to GenBank sequences and distance matrix calculations between tree branches.

Stable isotope probing studies have found that some members of this phylum can degrade toluene.^[19][20]

References