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Table 1 Pacific Ocean Virome viral samples used in searching for carbon metabolism genes a

From: Metabolic reprogramming by viruses in the sunlit and dark ocean

Sample 16S + carbon metabolism genes in the same bacterial order 16S hits mostly toa single bacterial species 16S hits to many bacterial species Random read recruitment to top bacterial genomes Cellular contamination? Reads, n
Aphotic       
  L.Win.O.1000mb No No No No None 147,537
  L.Win.O.2000mb No No No No None 125,896
  L.Spr.C.500mb No No No No None 136,876
  L.Spr.C.1300mb No No No No None 98,478
  L.Spr.I.1000mb No No No No None 122,565
  L.Spr.I.2000mb No No No No None 49,914
  L.Sum.O.1000mb No No No No None 70,596
  L.Spr.O.1000mb No No No No None 101,179
  L.Win.O.500mb No No No No None 167,616
  M.Fall.O.4300mb No No No No None 144,588
  L.Spr.C.1000m Yes Yes No Yes High GTAc 97,126
  L.Spr.I.500m Yes Yes No Yes Low GTAd 58,108
  L.Sum.O.500m Yes Yes No No Low GTAd 42,118
  L.Sum.O.2000m Yes No No No Low GTAd 68,516
  L.Spr.O.2000m No No Yes No Low sporadic 55,332
  M.Fall.O.1000m No No No Yes Low GTAd 225,833
Photic       
  L.Sum.O.10mb No No No No None 165,256
  L.Spr.C.10mb No No No No None 107,244
  L.Spr.I.10mb No No No No None 92,415
  L.Win.O.10mb No No No No None 192,685
  M.Fall.C.10mb No No No No None 303,519
  M.Fall.I.10mb No No No No None 321,754
  M.Fall.O.10mb No No No No None 203,238
  M.Fall.O.105mb No No No No None 156,509
  SFC.Spr.C.5mb No No No No None 487,339
  SFD.Spr.C.5mb No No No No None 645,463
  SFS.Spr.C.5mb No No No No None 504,826
  STC.Spr.C.5mb No No No No None 821,404
  GD.Spr.C.8m Yes Yes No Yes Low GTAd 116,855
  GF.Spr.C.9m Yes Yes No Yes Low GTAd 82,739
  L.Spr.O.10m Yes Yes No Yes Low GTAd 75,036
  M.Fall.I.42m Yes Yes No Yes Low GTAd 31,528
  1. aSamples were evaluated for gene transfer agents (GTAs) and sporadic contamination (see Results, section on ‘Ruling out bacterial contamination’) based on 16S analysis.
  2. bOnly samples indicated as having no contamination were used in the analysis.
  3. c,dHigh GTAs are described as viromes with greater than 100 hits to a single bacterial species, low GTAs have less than 50 hits as determined by analysis (see Additional file 2: Figure S2).
  4. bSample metadata are further described by Hurwitz and Sullivan [21].