Table 1 General features of SAGs from this study relative to the type species (Nitrospina gracilis) and related Candidatus Nitromaritima SAGs

From: Diversification and niche adaptations of Nitrospina-like bacteria in the polyextreme interfaces of Red Sea brines

SAGs/strain

SCGC AAA799-A02 a

SCGC AAA799-C22 a

SCGC AB-629-B06 b , c

SCGC AB-629-B18 b , c

SCGC AAA288-L16 b , d

N. gracilis b

Draft size (bp)

1 404 272

1 678 166

708 914

2 139 866

2 077 614

3 067 213

No. of contigs/N50 (bp)

97/708 347

88/864 303

90/354 767

73/1 137 313

136/1 084 788

109/1 571 461

% GC content

49.4

50.5

39.6

39.7

39.5

56.2

% Coding regions

87.6

88.2

83.1

85.8

87.5

89.6

Predicted ORFs

1379

1639

766

2206

2182

2965

% ORFs predicted functional

74.2

76.7

61.9

60.7

72.5

78.8

ORF density (ORF/kb)

1.14

1.13

1.20

1.17

1.14

1.12

Average ORF size

892

903

769

832

833

927

No. of tRNAse

24 (13)

18 (14)

4 (3)

37 (19)

32 (15)

45 (20)

No. of rRNA operons (16S-23S-5S)

1

1

None

1f

1

1

% Genome overlap with N. gracilisg

11

14

5

15

13

100

% ANI of overlapping genome with N. gracilisg

67

67

63

64

63

100

% ORFs shared with N. gracilish

51

57

44

56

58

100

% AAI of shared ORFs with N. gracilish

58

59

58

58

58

100

% Genome completenessi

20

40

30

73

75

97

  1. Abbreviations: AAI, average amino-acid identity; ANI, average nucleotide identity; INDIGO, INtegrated Data Warehouse of MIcrobial GenOmes; ORF, open-reading frames; SAGs, single-cell-amplified genomes.
  2. aAssembly statistics: longest contig size are 66 004 bp (AA799-A02) and 123 650 bp (AAA799-C22), whereas the minimum size is 2 kbp for both.
  3. bBased on annotations via our INDIGO pipeline (Alam et al., 2013) using the published draft assemblies.
  4. cSAGs from the North Altantic Ocean (Station Archimedes 4, 511 m).
  5. dSAG from the North Pacific Ocean (Station ALOHA, 770 m; Swan et al., 2011).
  6. eBrackets indicate the number of unique amino acids encoded by the tRNAs.
  7. fThis SAGs carries an rRNA operon with a partial 16S rRNA gene (849 bp) that is 99.5%, 96.7% and 92% identical to AAA288-L16, AAA799-A02/C22 and N. gracilis, respectively.
  8. gBased on whole-genome blastn alignment of the assembled nucleotide bases.
  9. hBased on reciprocal best blast hits of their protein-coding genes.
  10. iEstimated using 104 single-copy genes common in bacterial genomes using CheckM (Parks et al., 2015). For more details see Supplementary Table S3.
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