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Draft Genome Sequence of
Ornatilinea apprima
P3M-1, an Anaerobic
Member of the
Chloroflexi
Class
Anaerolineae
James Hemp,
a
Lewis M. Ward,
a
Laura A. Pace,
b
Woodward W. Fischer
a
Division of Geological and Planetary Sciences, California Institute of Technology, Pasadena, California, USA
a
; Department of Medicine, University of California San Diego,
La Jolla, California, USA
b
We report the draft genome sequence of
Ornatilinea apprima
P3M-1, a strictly anaerobic member of the
Chloroflexi
class
Anaerolineae
. This genome provides insight into the diversity of metabolism within the
Anaerolineae
, and the evolution of respi-
ration within the
Chloroflexi
.
Received
29 September 2015
Accepted
5 October 2015
Published
19 November 2015
Citation
Hemp J, Ward LM, Pace LA, Fischer WW. 2015. Draft genome sequence of
Ornatilinea apprima
P3M-1, an anaerobic member of the
Chloroflexi
class
Anaerolineae
.
Genome Announc 3(6):e01353-15. doi:10.1128/genomeA.01353-15.
Copyright
© 2015 Hemp et al. This is an open-access article distributed under the terms of the
Creative Commons Attribution 3.0 Unported license
.
Address correspondence to James Hemp, jimhemp@caltech.edu.
O
rnatilinea apprima
P3M-1 was isolated in Siberia from a mi-
crobial mat in a wooden bathtub sourced with water from a
2,775-m well (
1
). Closely related strains have been reported from
fresh water lakes and rice paddy soils.
O. apprima
was physiolog-
ically characterized as a filamentous, nonmotile, obligately anaer-
obic organotroph. It can ferment a wide range of polypeptides and
carbohydrates, including microcrystalline cellulose. It grows op-
timally at 42 to 45°C and pH 7.5 to 8.0 (
1
).
The genome of
Ornatilinea apprima
P3M-1 (DSM 23815) was
sequenced as part of a project to expand the phylogenetic breadth
of
Chloroflexi
genomes. Genome sequencing was performed at
Seqmatic using the Illumina MiSeq sequencing platform. SPAdes
version 3.1.1 (
2
) was used to assemble the genome. The genome
was screened for contaminants based on sequence coverage, GC
composition, and BLAST hits of conserved single-copy genes. Ge-
nome annotation was performed using the NCBI Prokaryotic Ge-
nome Annotation Pipeline. The draft genome is 4.41 Mb in size,
assembled into 45 contigs. It encodes 3,846 genes, 3,347 coding
sequences, 2 16S RNAs, 50 tRNAs, and 3 CRISPR arrays. It is
estimated to be ~96% complete, based on conserved single-copy
genes (107/111).
The majority of cultured
Chloroflexi
belong to the class
Chlo-
roflexia
, which is composed of anoxygenic phototrophs and fac-
ultative aerobes (
3
). Even though

70% of all
Chloroflexi
se-
quences present in 16S datasets belong to the
Anaerolineae
class
(
4
), they are less well characterized. To date, all described mem-
bers are anaerobic fermentative organisms (
5
). Consistent with its
description as an obligate anaerobe,
O. apprima
contains no genes
for O
2
respiration. Even though it was classified as nonmotile, the
genome does encode genes for flagella and chemotaxis, two traits
not previously observed in
Anaerolineae
, suggesting that it is ca-
pable of motility
.
In addition, no genes for LPS biosynthesis or
outer-membrane proteins were found, which is consistent with
the hypothesis that
Chloroflexi
have only one membrane (
6
).
Nucleotide sequence accession number.
This whole-genome
shotgun project has been deposited in DDBJ/EMBL/GenBank un-
der the accession number
LGCL00000000
.
ACKNOWLEDGMENTS
Genomic DNA was obtained from the Leibniz-Institut DSMZ-Deutsche
Sammlung von Mikroorganismen und Zellkulturen GmbH. Sequencing
was performed at Seqmatic, Fremont, CA, USA.
This work was funded in part by the Center for Environmental Micro-
bial Interactions (CEMI) at Caltech, the Packard Foundation (W.W.F.),
the Agouron Institute (J.H. and W.W.F.), and NSF GRFP (L.M.W.).
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