Genome sequence of the mud-dwelling archaeon Methanoplanus limicola type strain (DSM 2279(T)), reclassification of Methanoplanus petrolearius as Methanolacinia petrolearia and emended descriptions of the genera Methanoplanus and Methanolacinia.

Markus Göker,Matt Nolan,Manfred Rohde,Natalia Ivanova,Reinhard Wirth,Alla Lapidus,Megan Lu,Natalia Mikhailova,Victor Markowitz,Tanja Woyke,Tijana Glavina Del Rio,Hope Tice,Jonathan A Eisen,Stefan Spring,Cliff Han,Ioanna Pagani,Konstantinos Mavromatis,Amy Chen,Krishna Palaniappan,Roxanne Tapia,Anne Fiebig,Amrita Pati,Boyke Bunk,Miriam Land,Sam Pitluck,John C Detter,Konstantinos Liolios,James Bristow,Shanmugam Mayilraj,Philip Hugenholtz,Nikos C Kyrpides,Jan‐Fang Cheng ,Lynne Goodwin ,Hans Peter Klenk

doi:10.4056/sigs.5138968

Abstract

Methanoplanus limicola Wildgruber et al. 1984 is a mesophilic methanogen that was isolated from a swamp composed of drilling waste near Naples, Italy, shortly after the Archaea were recognized as a separate domain of life. Methanoplanus is the type genus in the family Methanoplanaceae, a taxon that felt into disuse since modern 16S rRNA gene sequences-based taxonomy was established. Methanoplanus is now placed within the Methanomicrobiaceae, a family that is so far poorly characterized at the genome level. The only other type strain of the genus with a sequenced genome, Methanoplanus petrolearius SEBR 4847T, turned out to be misclassified and required reclassification to Methanolacinia. Both, Methanoplanus and Methanolacinia, needed taxonomic emendations due to a significant deviation of the G+C content of their genomes from previously published (pre-genome-sequence era) values. Until now genome sequences were published for only four of the 33 species with validly published names in the Methanomicrobiaceae. Here we describe the features of M. limicola, together with the improved-high-quality draft genome sequence and annotation of the type strain, M3T. The 3,200,946 bp long chromosome (permanent draft sequence) with its 3,064 protein-coding and 65 RNA genes is a part of the Genomic Encyclopedia of Bacteria and Archaea project.

Highlights

Strain M3T (= DSM 2279 = ATCC 35062 = OCM 101) is the type strain of the species Methanoplanus limicola [1,2], one out of currently three species in the genus Methanoplanus [1,2]
When years later 16S rRNA sequences became available for phylogenetic analyses it became clear that the strains which represent the species Methanoplanus are closely related to Methanomicrobiaceae
The genus Methanoplanus is generally placed within the Methanomicrobiaceae, and Methanoplanaceae Wildgruber et al 1984 has fallen into disuse [4], the genus Methanoplanus was never formally reclassified

Summary

Introduction

The G+C content of M. petrolearius was given as 50% [42], whereas the analysis of the genome sequence of the type strain SEBR 4837T (DSM 11571) yielded 47.4% [11].

Results

Conclusion