Phylogeny-driven target selection for large-scale genome-sequencing (and other) projects

Göker, Markus; Klenk, Hans-Peter

doi:10.4056/sigs.3446951

Environmental Microbiome

Table 3. Selection results for the 20 LTP strains with the highest bRPD scores.

From: Phylogeny-driven target selection for large-scale genome-sequencing (and other) projects

Species/subspecies	16S rRNA accession [32]	Phylum [36]	bRPD	uRPD	Category
Caldisericum exile	AB428365	Caldiserica	0.1841	0.1968	Targeted elsewhere
Asteroleplasma anaerobium	M22351	Tenericutes	0.1747	0.1936	Not at DSMZ
Phycisphaera mikurensis	AB447464	Planctomycetes	0.1703	0.1960	Targeted elsewhere
Ktedonobacter racemifer	AM180156	Chloroflexi	0.1646	0.1839	Targeted in GEBA pilot project
Fibrobacter succinogenes subsp. succinogenes	AJ496032	Fibrobacteres	0.1604	0.1586	Completed elsewhere
Exilispira thermophila	AB364473	Spirochaetes	0.1581	0.1709	Not at DSMZ
Bdellovibrio bacteriovorus	AJ292759	Proteobacteria	0.1575	0.1684	Completed elsewhere
Flexibacter litoralis	AB078056	Bacteroidetes	0.1547	0.1589	Targeted in GEBA pilot project
Lactobacillus catenaformis	AJ621549	Firmicutes	0.1541	0.1382	Selected
Lentisphaera araneosa	AY390428	Lentisphaerae	0.1526	0.1601	Targeted elsewhere
Gemmatimonas aurantiaca	AB072735	Gemmatimonadetes	0.1461	0.1555	Completed elsewhere
Dehalogenimonas lykanthroporepellens	EU679419	Chloroflexi	0.1460	0.1681	Completed elsewhere
Zavarzinella formosa	AM162406	Planctomycetes	0.1440	0.1466	Selected
Gemmata obscuriglobus	X56305	Planctomycetes	0.1411	0.1437	Targeted elsewhere
Victivallis vadensis	AY049713	Lentisphaerae	0.1410	0.1485	Targeted elsewhere
Peredibacter starrii	AF084852	Proteobacteria	0.1406	0.1395	In progress elsewhere
Thermodesulfobium narugense	AB077817	Firmicutes	0.1377	0.1670	Targeted in GEBA pilot project
Nitrospira moscoviensis	X82558	Nitrospira	0.1363	0.1424	In progress elsewhere
Hydrogenobaculum acidophilum	D16296	Aquificae	0.1360	0.1707	Postponed for technical reasons
Fibrobacter intestinalis	AJ496284	Fibrobacteres	0.1358	0.1341	Not at DSMZ

The column “Category” indicates whether or not the strain was selected for sequencing, and if not, whether this was due to the strain being already targeted in another genome-sequencing project or due to technical reasons, or whether the maximum of eight genome-sequencing projects had already been reached.

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ISSN: 2524-6372

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